Yum, tasty mutations...

MutationTaster - study a chromosomal position

 MTQE documentation
NEVER press reload or F5 - unless you want to start from the very beginning.
input seems to be ok - now mapping the variant to the different transcripts...
found 3 transcript(s)...
Querying Taster for transcript #1: ENST00000171887
Querying Taster for transcript #2: ENST00000419504
Querying Taster for transcript #3: ENST00000430930
MT speed 0 s - this script 3.661756 s

Results

genesymbolpredictionprobabilitymodelprediction
problem		splicingClinVaramino acid changesvariant typedbSNP IDprotein lengthfile
TNS1polymorphism_automatic0.000228693745195963simple_aaeaffectedW1184Rsingle base exchangers2571445show file
TNS1polymorphism_automatic0.000228693745195963simple_aaeaffectedW1197Rsingle base exchangers2571445show file
TNS1polymorphism_automatic0.000228693745195963simple_aaeaffectedW1176Rsingle base exchangers2571445show file

Taster files

Yum, tasty mutations...

mutation t@sting

 documentation

Prediction

polymorphism

 Model: simple_aae, prob: 0.999771306254804 (classification due to TGP/ExAC, real probability is shown anyway)      (explain)
Summary
  • amino acid sequence changed
  • homozygous in TGP or ExAC
  • protein features (might be) affected
  • splice site changes
 hyperlink
analysed issue analysis result
name of alteration no title
alteration (phys. location) chr2:218683154A>GN/A show variant in all transcripts   IGV
HGNC symbol TNS1
Ensembl transcript ID ENST00000419504
Genbank transcript ID N/A
UniProt peptide Q9HBL0
alteration type single base exchange
alteration region CDS
DNA changes c.3550T>C
cDNA.3712T>C
g.184565T>C
AA changes W1184R Score: 101 explain score(s)
position(s) of altered AA
if AA alteration in CDS		 1184
frameshift no
known variant Reference ID: rs2571445
databasehomozygous (G/G)heterozygousallele carriers
1000G113210362168
ExAC23594-144219173
regulatory features H3K27me3, Histone, Histone 3 Lysine 27 Tri-Methylation
H3K36me3, Histone, Histone 3 Lysine 36 Tri-Methylation
phyloP / phastCons
PhyloPPhastCons
(flanking)3.6151
1.0251
(flanking)0.4890.998
explain score(s) and/or inspect your position(s) in in UCSC Genome Browser
splice sites
effectgDNA positionscorewt detection sequence exon-intron border
Acc increased184562wt: 0.56 / mu: 0.69wt: CTCCCCCTAGTCCTGGCTTCGGCTGGCGGGCCATCAATCCC
mu: CTCCCCCTAGTCCTGGCTTCGGCCGGCGGGCCATCAATCCC		 ttcg|GCTG
Acc increased184560wt: 0.26 / mu: 0.36wt: CACTCCCCCTAGTCCTGGCTTCGGCTGGCGGGCCATCAATC
mu: CACTCCCCCTAGTCCTGGCTTCGGCCGGCGGGCCATCAATC		 gctt|CGGC
Acc increased184557wt: 0.33 / mu: 0.42wt: CAACACTCCCCCTAGTCCTGGCTTCGGCTGGCGGGCCATCA
mu: CAACACTCCCCCTAGTCCTGGCTTCGGCCGGCGGGCCATCA		 ctgg|CTTC
Acc marginally increased184556wt: 0.5890 / mu: 0.6416 (marginal change - not scored)wt: CCAACACTCCCCCTAGTCCTGGCTTCGGCTGGCGGGCCATC
mu: CCAACACTCCCCCTAGTCCTGGCTTCGGCCGGCGGGCCATC		 cctg|GCTT
Acc marginally increased184566wt: 0.5616 / mu: 0.5949 (marginal change - not scored)wt: CCCTAGTCCTGGCTTCGGCTGGCGGGCCATCAATCCCAGCA
mu: CCCTAGTCCTGGCTTCGGCCGGCGGGCCATCAATCCCAGCA		 gctg|GCGG
distance from splice site 329
Kozak consensus sequence altered? N/A
conservation
protein level for non-synonymous changes
speciesmatchgeneaaalignment
Human      1184GTNTPPSPGFGWRAINPSMAAPSS
mutated  not conserved    1184GTNTPPSPGFGRRAINPSMAAPS
Ptroglodytes  no homologue    
Mmulatta  not conserved  ENSMMUG00000013785  1202FGRRAINPSMAAPS
Fcatus  no homologue    
Mmusculus  not conserved  ENSMUSG00000055322  1351GTNTPPSPGFGRRAVN
Ggallus  not conserved  ENSGALG00000011462  1275-------------------ALPG
Trubripes  not conserved  ENSTRUG00000004813  1117PEQPIY--VIDHPNLKAIQ
Drerio  not conserved  ENSDARG00000020845  1228LSDMASVPNFQHRLANQDGPILGRQQ
Dmelanogaster  no homologue    
Celegans  no homologue    
Xtropicalis  not conserved  ENSXETG00000005595  1300GFGRRMVTNNMAVP-
protein features
start (aa)end (aa)featuredetails 
11891189MOD_RESPhosphothreonine.might get lost (downstream of altered splice site)
11921192MOD_RESPhosphoserine.might get lost (downstream of altered splice site)
12541254MOD_RESPhosphotyrosine.might get lost (downstream of altered splice site)
12661266MOD_RESPhosphothreonine.might get lost (downstream of altered splice site)
12691269MOD_RESPhosphoserine.might get lost (downstream of altered splice site)
12971297MOD_RESPhosphoserine.might get lost (downstream of altered splice site)
13141314MOD_RESPhosphoserine.might get lost (downstream of altered splice site)
13231323MOD_RESPhosphotyrosine.might get lost (downstream of altered splice site)
13261326MOD_RESPhosphotyrosine.might get lost (downstream of altered splice site)
13281328MOD_RESPhosphothreonine.might get lost (downstream of altered splice site)
13811381MOD_RESPhosphoserine.might get lost (downstream of altered splice site)
14041404MOD_RESPhosphotyrosine.might get lost (downstream of altered splice site)
14121412CONFLICTS -> A (in Ref. 1; AAG33700).might get lost (downstream of altered splice site)
14161416CONFLICTA -> P (in Ref. 1; AAG33700).might get lost (downstream of altered splice site)
14461446MOD_RESPhosphoserine.might get lost (downstream of altered splice site)
14631572DOMAINSH2.might get lost (downstream of altered splice site)
length of protein normal
AA sequence altered yes
position of stopcodon in wt / mu CDS 5166 / 5166
position (AA) of stopcodon in wt / mu AA sequence 1722 / 1722
position of stopcodon in wt / mu cDNA 5328 / 5328
poly(A) signal N/A
conservation
nucleotide level for all changes - no scoring up to now		 N/A
position of start ATG in wt / mu cDNA 163 / 163
chromosome 2
strand -1
last intron/exon boundary 5184
theoretical NMD boundary in CDS 4971
length of CDS 5166
coding sequence (CDS) position 3550
cDNA position
(for ins/del: last normal base / first normal base)		 3712
gDNA position
(for ins/del: last normal base / first normal base)		 184565
chromosomal position
(for ins/del: last normal base / first normal base)		 218683154
original gDNA sequence snippet CCCCTAGTCCTGGCTTCGGCTGGCGGGCCATCAATCCCAGC
altered gDNA sequence snippet CCCCTAGTCCTGGCTTCGGCCGGCGGGCCATCAATCCCAGC
original cDNA sequence snippet CCCCTAGTCCTGGCTTCGGCTGGCGGGCCATCAATCCCAGC
altered cDNA sequence snippet CCCCTAGTCCTGGCTTCGGCCGGCGGGCCATCAATCCCAGC
wildtype AA sequence MSVSRTMEDS CELDLVYVTE RIIAVSFPST ANEENFRSNL REVAQMLKSK HGGNYLLFNL
SERRPDITKL HAKVLEFGWP DLHTPALEKI CSICKAMDTW LNADPHNVVV LHNKGNRGRI
GVVIAAYMHY SNISASADQA LDRFAMKRFY EDKIVPIGQP SQRRYVHYFS GLLSGSIKMN
NKPLFLHHVI MHGIPNFESK GGCRPFLRIY QAMQPVYTSG IYNIPGDSQT SVCITIEPGL
LLKGDILLKC YHKKFRSPAR DVIFRVQFHT CAIHDLGVVF GKEDLDDAFK DDRFPEYGKV
EFVFSYGPEK IQGMEHLENG PSVSVDYNTS DPLIRWDSYD NFSGHRDDGM EEVVGHTQGP
LDGSLYAKVK KKDSLHGSTG AVNATRPTLS ATPNHVEHTL SVSSDSGNST ASTKTDKTDE
PVPGASSATA ALSPQEKREL DRLLSGFGLE REKQGAMYHT QHLRSRPAGG SAVPSSGRHV
VPAQVHVNGG ALASERETDI LDDELPNQDG HSAGSMGTLS SLDGVTNTSE GGYPEALSPL
TNGLDKSYPM EPMVNGGGYP YESASRAGPA HAGHTAPMRP SYSAQEGLAG YQREGPHPAW
PQPVTTSHYA HDPSGMFRSQ SFSEAEPQLP PAPVRGGSSR EAVQRGLNSW QQQQQQQQQP
RPPPRQQERA HLESLVASRP SPQPLAETPI PSLPEFPRAA SQQEIEQSIE TLNMLMLDLE
PASAAAPLHK SQSVPGAWPG ASPLSSQPLS GSSRQSHPLT QSRSGYIPSG HSLGTPEPAP
RASLESVPPG RSYSPYDYQP CLAGPNQDFH SKSPASSSLP AFLPTTHSPP GPQQPPASLP
GLTAQPLLSP KEATSDPSRT PEEEPLNLEG LVAHRVAGVQ AREKQPAEPP APLRRRAASD
GQYENQSPEA TSPRSPGVRS PVQCVSPELA LTIALNPGGR PKEPHLHSYK EAFEEMEGTS
PSSPPPSGVR SPPGLAKTPL SALGLKPHNP ADILLHPTGV TRRRIQPEPR SYVESVARTA
VAGPRAQDSE PKSFSAPATQ AYGHEIPLRN GTLGGSFVSP SPLSTSSPIL SADSTSVGSF
PSGESSDQGP RTPTQPLLES GFRSGSLGQP SPSAQRNYQS SSPLPTVGSS YSSPDYSLQH
FSSSPESQAR AQFSVAGVHT VPGSPQARHR TVGTNTPPSP GFGWRAINPS MAAPSSPSLS
HHQMMGPPGT GFHGSTVSSP QSSAATTPGS PSLCRHPAGV YQVSGLHNKV ATTPGSPSLG
RHPGAHQGNL ASGLHSNAIA SPGSPSLGRH LGGSGSVVPG SPCLDRHVAY GGYSTPEDRR
PTLSRQSSAS GYQAPSTPSF PVSPAYYPGL SSPATSPSPD SAAFRQGSPT PALPEKRRMS
VGDRAGSLPN YATINGKVSS PVASGMSSPS GGSTVSFSHT LPDFSKYSMP DNSPETRAKV
KFVQDTSKYW YKPEISREQA IALLKDQEPG AFIIRDSHSF RGAYGLAMKV SSPPPTIMQQ
NKKDMTHELV RHFLIETGPR GVKLKGCPNE PNFGSLSALV YQHSIIPLAL PCKLVIPNRD
PTDESKDSSG PANSTADLLK QGAACNVLFV NSVDMESLTG PQAISKATSE TLAADPTPAA
TIVHFKVSAQ GITLTDNQRK LFFRRHYPLN TVTFCDLDPQ ERKWMKTEGG APAKLFGFVA
RKQGSTTDNA CHLFAELDPN QPASAIVNFV SKVMLNAGQK R*
mutated AA sequence MSVSRTMEDS CELDLVYVTE RIIAVSFPST ANEENFRSNL REVAQMLKSK HGGNYLLFNL
SERRPDITKL HAKVLEFGWP DLHTPALEKI CSICKAMDTW LNADPHNVVV LHNKGNRGRI
GVVIAAYMHY SNISASADQA LDRFAMKRFY EDKIVPIGQP SQRRYVHYFS GLLSGSIKMN
NKPLFLHHVI MHGIPNFESK GGCRPFLRIY QAMQPVYTSG IYNIPGDSQT SVCITIEPGL
LLKGDILLKC YHKKFRSPAR DVIFRVQFHT CAIHDLGVVF GKEDLDDAFK DDRFPEYGKV
EFVFSYGPEK IQGMEHLENG PSVSVDYNTS DPLIRWDSYD NFSGHRDDGM EEVVGHTQGP
LDGSLYAKVK KKDSLHGSTG AVNATRPTLS ATPNHVEHTL SVSSDSGNST ASTKTDKTDE
PVPGASSATA ALSPQEKREL DRLLSGFGLE REKQGAMYHT QHLRSRPAGG SAVPSSGRHV
VPAQVHVNGG ALASERETDI LDDELPNQDG HSAGSMGTLS SLDGVTNTSE GGYPEALSPL
TNGLDKSYPM EPMVNGGGYP YESASRAGPA HAGHTAPMRP SYSAQEGLAG YQREGPHPAW
PQPVTTSHYA HDPSGMFRSQ SFSEAEPQLP PAPVRGGSSR EAVQRGLNSW QQQQQQQQQP
RPPPRQQERA HLESLVASRP SPQPLAETPI PSLPEFPRAA SQQEIEQSIE TLNMLMLDLE
PASAAAPLHK SQSVPGAWPG ASPLSSQPLS GSSRQSHPLT QSRSGYIPSG HSLGTPEPAP
RASLESVPPG RSYSPYDYQP CLAGPNQDFH SKSPASSSLP AFLPTTHSPP GPQQPPASLP
GLTAQPLLSP KEATSDPSRT PEEEPLNLEG LVAHRVAGVQ AREKQPAEPP APLRRRAASD
GQYENQSPEA TSPRSPGVRS PVQCVSPELA LTIALNPGGR PKEPHLHSYK EAFEEMEGTS
PSSPPPSGVR SPPGLAKTPL SALGLKPHNP ADILLHPTGV TRRRIQPEPR SYVESVARTA
VAGPRAQDSE PKSFSAPATQ AYGHEIPLRN GTLGGSFVSP SPLSTSSPIL SADSTSVGSF
PSGESSDQGP RTPTQPLLES GFRSGSLGQP SPSAQRNYQS SSPLPTVGSS YSSPDYSLQH
FSSSPESQAR AQFSVAGVHT VPGSPQARHR TVGTNTPPSP GFGRRAINPS MAAPSSPSLS
HHQMMGPPGT GFHGSTVSSP QSSAATTPGS PSLCRHPAGV YQVSGLHNKV ATTPGSPSLG
RHPGAHQGNL ASGLHSNAIA SPGSPSLGRH LGGSGSVVPG SPCLDRHVAY GGYSTPEDRR
PTLSRQSSAS GYQAPSTPSF PVSPAYYPGL SSPATSPSPD SAAFRQGSPT PALPEKRRMS
VGDRAGSLPN YATINGKVSS PVASGMSSPS GGSTVSFSHT LPDFSKYSMP DNSPETRAKV
KFVQDTSKYW YKPEISREQA IALLKDQEPG AFIIRDSHSF RGAYGLAMKV SSPPPTIMQQ
NKKDMTHELV RHFLIETGPR GVKLKGCPNE PNFGSLSALV YQHSIIPLAL PCKLVIPNRD
PTDESKDSSG PANSTADLLK QGAACNVLFV NSVDMESLTG PQAISKATSE TLAADPTPAA
TIVHFKVSAQ GITLTDNQRK LFFRRHYPLN TVTFCDLDPQ ERKWMKTEGG APAKLFGFVA
RKQGSTTDNA CHLFAELDPN QPASAIVNFV SKVMLNAGQK R*
speed 0.93 s
All positions are in basepairs (bp) if not explicitly stated differently.
AA/aa: amino acid; CDS: coding sequence; mu: mutated; NMD: nonsense-mediated mRNA decay; nt: nucleotide; wt: wildtype; TGP: 1000 Genomes Project
back to results table
Yum, tasty mutations...

mutation t@sting

 documentation

Prediction

polymorphism

 Model: simple_aae, prob: 0.999771306254804 (classification due to TGP/ExAC, real probability is shown anyway)      (explain)
Summary
  • amino acid sequence changed
  • homozygous in TGP or ExAC
  • protein features (might be) affected
  • splice site changes
 hyperlink
analysed issue analysis result
name of alteration no title
alteration (phys. location) chr2:218683154A>GN/A show variant in all transcripts   IGV
HGNC symbol TNS1
Ensembl transcript ID ENST00000171887
Genbank transcript ID NM_022648
UniProt peptide Q9HBL0
alteration type single base exchange
alteration region CDS
DNA changes c.3589T>C
cDNA.4042T>C
g.184565T>C
AA changes W1197R Score: 101 explain score(s)
position(s) of altered AA
if AA alteration in CDS		 1197
frameshift no
known variant Reference ID: rs2571445
databasehomozygous (G/G)heterozygousallele carriers
1000G113210362168
ExAC23594-144219173
regulatory features H3K27me3, Histone, Histone 3 Lysine 27 Tri-Methylation
H3K36me3, Histone, Histone 3 Lysine 36 Tri-Methylation
phyloP / phastCons
PhyloPPhastCons
(flanking)3.6151
1.0251
(flanking)0.4890.998
explain score(s) and/or inspect your position(s) in in UCSC Genome Browser
splice sites
effectgDNA positionscorewt detection sequence exon-intron border
Acc increased184562wt: 0.56 / mu: 0.69wt: CTCCCCCTAGTCCTGGCTTCGGCTGGCGGGCCATCAATCCC
mu: CTCCCCCTAGTCCTGGCTTCGGCCGGCGGGCCATCAATCCC		 ttcg|GCTG
Acc increased184560wt: 0.26 / mu: 0.36wt: CACTCCCCCTAGTCCTGGCTTCGGCTGGCGGGCCATCAATC
mu: CACTCCCCCTAGTCCTGGCTTCGGCCGGCGGGCCATCAATC		 gctt|CGGC
Acc increased184557wt: 0.33 / mu: 0.42wt: CAACACTCCCCCTAGTCCTGGCTTCGGCTGGCGGGCCATCA
mu: CAACACTCCCCCTAGTCCTGGCTTCGGCCGGCGGGCCATCA		 ctgg|CTTC
Acc marginally increased184556wt: 0.5890 / mu: 0.6416 (marginal change - not scored)wt: CCAACACTCCCCCTAGTCCTGGCTTCGGCTGGCGGGCCATC
mu: CCAACACTCCCCCTAGTCCTGGCTTCGGCCGGCGGGCCATC		 cctg|GCTT
Acc marginally increased184566wt: 0.5616 / mu: 0.5949 (marginal change - not scored)wt: CCCTAGTCCTGGCTTCGGCTGGCGGGCCATCAATCCCAGCA
mu: CCCTAGTCCTGGCTTCGGCCGGCGGGCCATCAATCCCAGCA		 gctg|GCGG
distance from splice site 329
Kozak consensus sequence altered? N/A
conservation
protein level for non-synonymous changes
speciesmatchgeneaaalignment
Human      1197GTNTPPSPGFGWRAINPSMAAPSS
mutated  not conserved    1197GTNTPPSPGFGRRAI
Ptroglodytes  no homologue    
Mmulatta  not conserved  ENSMMUG00000013785  1202FGRRAINPSMAAPS
Fcatus  no homologue    
Mmusculus  not conserved  ENSMUSG00000055322  1351GTNTPPSPGFGRRAVN
Ggallus  not conserved  ENSGALG00000011462  1284-------------------ALPG
Trubripes  not conserved  ENSTRUG00000004813  1117GSPRPEQPIY--VIDHPNLKAIQ
Drerio  not conserved  ENSDARG00000020845  1231LSDMASVPNFQHRLAN
Dmelanogaster  no homologue    
Celegans  no homologue    
Xtropicalis  not conserved  ENSXETG00000005595  1300GTNTPPSPGFGRRMVTNNMAVP-
protein features
start (aa)end (aa)featuredetails 
12541254MOD_RESPhosphotyrosine.might get lost (downstream of altered splice site)
12661266MOD_RESPhosphothreonine.might get lost (downstream of altered splice site)
12691269MOD_RESPhosphoserine.might get lost (downstream of altered splice site)
12971297MOD_RESPhosphoserine.might get lost (downstream of altered splice site)
13141314MOD_RESPhosphoserine.might get lost (downstream of altered splice site)
13231323MOD_RESPhosphotyrosine.might get lost (downstream of altered splice site)
13261326MOD_RESPhosphotyrosine.might get lost (downstream of altered splice site)
13281328MOD_RESPhosphothreonine.might get lost (downstream of altered splice site)
13811381MOD_RESPhosphoserine.might get lost (downstream of altered splice site)
14041404MOD_RESPhosphotyrosine.might get lost (downstream of altered splice site)
14121412CONFLICTS -> A (in Ref. 1; AAG33700).might get lost (downstream of altered splice site)
14161416CONFLICTA -> P (in Ref. 1; AAG33700).might get lost (downstream of altered splice site)
14461446MOD_RESPhosphoserine.might get lost (downstream of altered splice site)
14631572DOMAINSH2.might get lost (downstream of altered splice site)
length of protein normal
AA sequence altered yes
position of stopcodon in wt / mu CDS 5208 / 5208
position (AA) of stopcodon in wt / mu AA sequence 1736 / 1736
position of stopcodon in wt / mu cDNA 5661 / 5661
poly(A) signal N/A
conservation
nucleotide level for all changes - no scoring up to now		 N/A
position of start ATG in wt / mu cDNA 454 / 454
chromosome 2
strand -1
last intron/exon boundary 5517
theoretical NMD boundary in CDS 5013
length of CDS 5208
coding sequence (CDS) position 3589
cDNA position
(for ins/del: last normal base / first normal base)		 4042
gDNA position
(for ins/del: last normal base / first normal base)		 184565
chromosomal position
(for ins/del: last normal base / first normal base)		 218683154
original gDNA sequence snippet CCCCTAGTCCTGGCTTCGGCTGGCGGGCCATCAATCCCAGC
altered gDNA sequence snippet CCCCTAGTCCTGGCTTCGGCCGGCGGGCCATCAATCCCAGC
original cDNA sequence snippet CCCCTAGTCCTGGCTTCGGCTGGCGGGCCATCAATCCCAGC
altered cDNA sequence snippet CCCCTAGTCCTGGCTTCGGCCGGCGGGCCATCAATCCCAGC
wildtype AA sequence MSVSRTMEDS CELDLVYVTE RIIAVSFPST ANEENFRSNL REVAQMLKSK HGGNYLLFNL
SERRPDITKL HAKVLEFGWP DLHTPALEKI CSICKAMDTW LNADPHNVVV LHNKGNRGRI
GVVIAAYMHY SNISASADQA LDRFAMKRFY EDKIVPIGQP SQRRYVHYFS GLLSGSIKMN
NKPLFLHHVI MHGIPNFESK GGCRPFLRIY QAMQPVYTSG IYNIPGDSQT SVCITIEPGL
LLKGDILLKC YHKKFRSPAR DVIFRVQFHT CAIHDLGVVF GKEDLDDAFK DDRFPEYGKV
EFVFSYGPEK IQGMEHLENG PSVSVDYNTS DPLIRWDSYD NFSGHRDDGM EEVVGHTQGP
LDGSLYAKVK KKDSLHGSTG AVNATRPTLS ATPNHVEHTL SVSSDSGNST ASTKTDKTDE
PVPGASSATA ALSPQEKREL DRLLSGFGLE REKQGAMYHT QHLRSRPAGG SAVPSSGRHV
VPAQVHVNGG ALASERETDI LDDELPNQDG HSAGSMGTLS SLDGVTNTSE GGYPEALSPL
TNGLDKSYPM EPMVNGGGYP YESASRAGPA HAGHTAPMRP SYSAQEGLAG YQREGPHPAW
PQPVTTSHYA HDPSGMFRSQ SFSEAEPQLP PAPVRGGSSR EAVQRGLNSW QQQQQQQQQP
RPPPRQQERA HLESLVASRP SPQPLAETPI PSLPEFPRAA SQQEIEQSIE TLNMLMLDLE
PASAAAPLHK SQSVPGAWPG ASPLSSQPLS GSSRQSHPLT QSRSGYIPSG HSLGTPEPAP
RASLESVPPG RSYSPYDYQP CLAGPNQDFH SKSPASSSLP AFLPTTHSPP GPQQPPASLP
GLTAQPLLSP KEATSDPSRT PEEEPLNLEG LVAHRVAGVQ AREKQPAEPP APLRRRAASD
GQYENQSPEA TSPRSPGVRS PVQCVSPELA LTIALNPGGR PKEPHLHSYK EAFEEMEGTS
PSSPPPSGVR SPPGLAKTPL SALGLKPHNP ADILLHPTGV TRRRIQPEED EGKVVVRLSE
EPRSYVESVA RTAVAGPRAQ DSEPKSFSAP ATQAYGHEIP LRNGTLGGSF VSPSPLSTSS
PILSADSTSV GSFPSGESSD QGPRTPTQPL LESGFRSGSL GQPSPSAQRN YQSSSPLPTV
GSSYSSPDYS LQHFSSSPES QARAQFSVAG VHTVPGSPQA RHRTVGTNTP PSPGFGWRAI
NPSMAAPSSP SLSHHQMMGP PGTGFHGSTV SSPQSSAATT PGSPSLCRHP AGVYQVSGLH
NKVATTPGSP SLGRHPGAHQ GNLASGLHSN AIASPGSPSL GRHLGGSGSV VPGSPCLDRH
VAYGGYSTPE DRRPTLSRQS SASGYQAPST PSFPVSPAYY PGLSSPATSP SPDSAAFRQG
SPTPALPEKR RMSVGDRAGS LPNYATINGK VSSPVASGMS SPSGGSTVSF SHTLPDFSKY
SMPDNSPETR AKVKFVQDTS KYWYKPEISR EQAIALLKDQ EPGAFIIRDS HSFRGAYGLA
MKVSSPPPTI MQQNKKGDMT HELVRHFLIE TGPRGVKLKG CPNEPNFGSL SALVYQHSII
PLALPCKLVI PNRDPTDESK DSSGPANSTA DLLKQGAACN VLFVNSVDME SLTGPQAISK
ATSETLAADP TPAATIVHFK VSAQGITLTD NQRKLFFRRH YPLNTVTFCD LDPQERKWMK
TEGGAPAKLF GFVARKQGST TDNACHLFAE LDPNQPASAI VNFVSKVMLN AGQKR*
mutated AA sequence MSVSRTMEDS CELDLVYVTE RIIAVSFPST ANEENFRSNL REVAQMLKSK HGGNYLLFNL
SERRPDITKL HAKVLEFGWP DLHTPALEKI CSICKAMDTW LNADPHNVVV LHNKGNRGRI
GVVIAAYMHY SNISASADQA LDRFAMKRFY EDKIVPIGQP SQRRYVHYFS GLLSGSIKMN
NKPLFLHHVI MHGIPNFESK GGCRPFLRIY QAMQPVYTSG IYNIPGDSQT SVCITIEPGL
LLKGDILLKC YHKKFRSPAR DVIFRVQFHT CAIHDLGVVF GKEDLDDAFK DDRFPEYGKV
EFVFSYGPEK IQGMEHLENG PSVSVDYNTS DPLIRWDSYD NFSGHRDDGM EEVVGHTQGP
LDGSLYAKVK KKDSLHGSTG AVNATRPTLS ATPNHVEHTL SVSSDSGNST ASTKTDKTDE
PVPGASSATA ALSPQEKREL DRLLSGFGLE REKQGAMYHT QHLRSRPAGG SAVPSSGRHV
VPAQVHVNGG ALASERETDI LDDELPNQDG HSAGSMGTLS SLDGVTNTSE GGYPEALSPL
TNGLDKSYPM EPMVNGGGYP YESASRAGPA HAGHTAPMRP SYSAQEGLAG YQREGPHPAW
PQPVTTSHYA HDPSGMFRSQ SFSEAEPQLP PAPVRGGSSR EAVQRGLNSW QQQQQQQQQP
RPPPRQQERA HLESLVASRP SPQPLAETPI PSLPEFPRAA SQQEIEQSIE TLNMLMLDLE
PASAAAPLHK SQSVPGAWPG ASPLSSQPLS GSSRQSHPLT QSRSGYIPSG HSLGTPEPAP
RASLESVPPG RSYSPYDYQP CLAGPNQDFH SKSPASSSLP AFLPTTHSPP GPQQPPASLP
GLTAQPLLSP KEATSDPSRT PEEEPLNLEG LVAHRVAGVQ AREKQPAEPP APLRRRAASD
GQYENQSPEA TSPRSPGVRS PVQCVSPELA LTIALNPGGR PKEPHLHSYK EAFEEMEGTS
PSSPPPSGVR SPPGLAKTPL SALGLKPHNP ADILLHPTGV TRRRIQPEED EGKVVVRLSE
EPRSYVESVA RTAVAGPRAQ DSEPKSFSAP ATQAYGHEIP LRNGTLGGSF VSPSPLSTSS
PILSADSTSV GSFPSGESSD QGPRTPTQPL LESGFRSGSL GQPSPSAQRN YQSSSPLPTV
GSSYSSPDYS LQHFSSSPES QARAQFSVAG VHTVPGSPQA RHRTVGTNTP PSPGFGRRAI
NPSMAAPSSP SLSHHQMMGP PGTGFHGSTV SSPQSSAATT PGSPSLCRHP AGVYQVSGLH
NKVATTPGSP SLGRHPGAHQ GNLASGLHSN AIASPGSPSL GRHLGGSGSV VPGSPCLDRH
VAYGGYSTPE DRRPTLSRQS SASGYQAPST PSFPVSPAYY PGLSSPATSP SPDSAAFRQG
SPTPALPEKR RMSVGDRAGS LPNYATINGK VSSPVASGMS SPSGGSTVSF SHTLPDFSKY
SMPDNSPETR AKVKFVQDTS KYWYKPEISR EQAIALLKDQ EPGAFIIRDS HSFRGAYGLA
MKVSSPPPTI MQQNKKGDMT HELVRHFLIE TGPRGVKLKG CPNEPNFGSL SALVYQHSII
PLALPCKLVI PNRDPTDESK DSSGPANSTA DLLKQGAACN VLFVNSVDME SLTGPQAISK
ATSETLAADP TPAATIVHFK VSAQGITLTD NQRKLFFRRH YPLNTVTFCD LDPQERKWMK
TEGGAPAKLF GFVARKQGST TDNACHLFAE LDPNQPASAI VNFVSKVMLN AGQKR*
speed 1.20 s
All positions are in basepairs (bp) if not explicitly stated differently.
AA/aa: amino acid; CDS: coding sequence; mu: mutated; NMD: nonsense-mediated mRNA decay; nt: nucleotide; wt: wildtype; TGP: 1000 Genomes Project
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Yum, tasty mutations...

mutation t@sting

 documentation

Prediction

polymorphism

 Model: simple_aae, prob: 0.999771306254804 (classification due to TGP/ExAC, real probability is shown anyway)      (explain)
Summary
  • amino acid sequence changed
  • homozygous in TGP or ExAC
  • protein features (might be) affected
  • splice site changes
 hyperlink
analysed issue analysis result
name of alteration no title
alteration (phys. location) chr2:218683154A>GN/A show variant in all transcripts   IGV
HGNC symbol TNS1
Ensembl transcript ID ENST00000430930
Genbank transcript ID N/A
UniProt peptide Q9HBL0
alteration type single base exchange
alteration region CDS
DNA changes c.3526T>C
cDNA.3688T>C
g.184565T>C
AA changes W1176R Score: 101 explain score(s)
position(s) of altered AA
if AA alteration in CDS		 1176
frameshift no
known variant Reference ID: rs2571445
databasehomozygous (G/G)heterozygousallele carriers
1000G113210362168
ExAC23594-144219173
regulatory features H3K27me3, Histone, Histone 3 Lysine 27 Tri-Methylation
H3K36me3, Histone, Histone 3 Lysine 36 Tri-Methylation
phyloP / phastCons
PhyloPPhastCons
(flanking)3.6151
1.0251
(flanking)0.4890.998
explain score(s) and/or inspect your position(s) in in UCSC Genome Browser
splice sites
effectgDNA positionscorewt detection sequence exon-intron border
Acc increased184562wt: 0.56 / mu: 0.69wt: CTCCCCCTAGTCCTGGCTTCGGCTGGCGGGCCATCAATCCC
mu: CTCCCCCTAGTCCTGGCTTCGGCCGGCGGGCCATCAATCCC		 ttcg|GCTG
Acc increased184560wt: 0.26 / mu: 0.36wt: CACTCCCCCTAGTCCTGGCTTCGGCTGGCGGGCCATCAATC
mu: CACTCCCCCTAGTCCTGGCTTCGGCCGGCGGGCCATCAATC		 gctt|CGGC
Acc increased184557wt: 0.33 / mu: 0.42wt: CAACACTCCCCCTAGTCCTGGCTTCGGCTGGCGGGCCATCA
mu: CAACACTCCCCCTAGTCCTGGCTTCGGCCGGCGGGCCATCA		 ctgg|CTTC
Acc marginally increased184556wt: 0.5890 / mu: 0.6416 (marginal change - not scored)wt: CCAACACTCCCCCTAGTCCTGGCTTCGGCTGGCGGGCCATC
mu: CCAACACTCCCCCTAGTCCTGGCTTCGGCCGGCGGGCCATC		 cctg|GCTT
Acc marginally increased184566wt: 0.5616 / mu: 0.5949 (marginal change - not scored)wt: CCCTAGTCCTGGCTTCGGCTGGCGGGCCATCAATCCCAGCA
mu: CCCTAGTCCTGGCTTCGGCCGGCGGGCCATCAATCCCAGCA		 gctg|GCGG
distance from splice site 329
Kozak consensus sequence altered? N/A
conservation
protein level for non-synonymous changes
speciesmatchgeneaaalignment
Human      1176GTNTPPSPGFGWRAINPSMAAPSS
mutated  not conserved    1176GTNTPPSPGFGRRAINPSMAAPS
Ptroglodytes  no homologue    
Mmulatta  not conserved  ENSMMUG00000013785  1202FGRRAINPSMAAPS
Fcatus  no homologue    
Mmusculus  not conserved  ENSMUSG00000055322  1351GTNTPPSPGFGRRAVN
Ggallus  not conserved  ENSGALG00000011462  1275-------------------ALPG
Trubripes  not conserved  ENSTRUG00000004813  1117PEQPIY--VIDHPNLKAIQ
Drerio  not conserved  ENSDARG00000020845  1228LSDMASVPNFQHRLANQDGPILGRQQ
Dmelanogaster  no homologue    
Celegans  no homologue    
Xtropicalis  not conserved  ENSXETG00000005595  1300GTNTPPSPGFGRRMVT
protein features
start (aa)end (aa)featuredetails 
11771177MOD_RESPhosphoserine.might get lost (downstream of altered splice site)
11891189MOD_RESPhosphothreonine.might get lost (downstream of altered splice site)
11921192MOD_RESPhosphoserine.might get lost (downstream of altered splice site)
12541254MOD_RESPhosphotyrosine.might get lost (downstream of altered splice site)
12661266MOD_RESPhosphothreonine.might get lost (downstream of altered splice site)
12691269MOD_RESPhosphoserine.might get lost (downstream of altered splice site)
12971297MOD_RESPhosphoserine.might get lost (downstream of altered splice site)
13141314MOD_RESPhosphoserine.might get lost (downstream of altered splice site)
13231323MOD_RESPhosphotyrosine.might get lost (downstream of altered splice site)
13261326MOD_RESPhosphotyrosine.might get lost (downstream of altered splice site)
13281328MOD_RESPhosphothreonine.might get lost (downstream of altered splice site)
13811381MOD_RESPhosphoserine.might get lost (downstream of altered splice site)
14041404MOD_RESPhosphotyrosine.might get lost (downstream of altered splice site)
14121412CONFLICTS -> A (in Ref. 1; AAG33700).might get lost (downstream of altered splice site)
14161416CONFLICTA -> P (in Ref. 1; AAG33700).might get lost (downstream of altered splice site)
14461446MOD_RESPhosphoserine.might get lost (downstream of altered splice site)
14631572DOMAINSH2.might get lost (downstream of altered splice site)
length of protein normal
AA sequence altered yes
position of stopcodon in wt / mu CDS 5145 / 5145
position (AA) of stopcodon in wt / mu AA sequence 1715 / 1715
position of stopcodon in wt / mu cDNA 5307 / 5307
poly(A) signal N/A
conservation
nucleotide level for all changes - no scoring up to now		 N/A
position of start ATG in wt / mu cDNA 163 / 163
chromosome 2
strand -1
last intron/exon boundary 5163
theoretical NMD boundary in CDS 4950
length of CDS 5145
coding sequence (CDS) position 3526
cDNA position
(for ins/del: last normal base / first normal base)		 3688
gDNA position
(for ins/del: last normal base / first normal base)		 184565
chromosomal position
(for ins/del: last normal base / first normal base)		 218683154
original gDNA sequence snippet CCCCTAGTCCTGGCTTCGGCTGGCGGGCCATCAATCCCAGC
altered gDNA sequence snippet CCCCTAGTCCTGGCTTCGGCCGGCGGGCCATCAATCCCAGC
original cDNA sequence snippet CCCCTAGTCCTGGCTTCGGCTGGCGGGCCATCAATCCCAGC
altered cDNA sequence snippet CCCCTAGTCCTGGCTTCGGCCGGCGGGCCATCAATCCCAGC
wildtype AA sequence MSVSRTMEDS CELDLVYVTE RIIAVSFPST ANEENFRSNL REVAQMLKSK HGGNYLLFNL
SERRPDITKL HAKVLEFGWP DLHTPALEKI CSICKAMDTW LNADPHNVVV LHNKGNRGRI
GVVIAAYMHY SNISASADQA LDRFAMKRFY EDKIVPIGQP SQRRYVHYFS GLLSGSIKMN
NKPLFLHHVI MHGIPNFESK GGCRPFLRIY QAMQPVYTSG IYNIPGDSQT SVCITIEPGL
LLKGDILLKC YHKKFRSPAR DVIFRVQFHT CAIHDLGVVF GKEDLDDAFK DDRFPEYGKV
EFVFSYGPEK IQGMEHLENG PSVSVDYNTS DPLIRWDSYD NFSGHRDDGM EEVVGHTQGP
LDGSLYAKVK KKDSLHGSTG AVNATRPTLS ATPNHVEHTL SVSSDSGNST ASTKTDKTDE
PVPGASSATA ALSPQEKREL DRLLSGFGLE REKQGAMYHT QHLRSRPAGG SAVPSSGRHV
VPAQVHVNGG ALASERETDI LDDELPNQDG HSAGSMGTLS SLDGVTNTSE GGYPEALSPL
TNGLDKSYPM EPMVNGGGYP YESASRAGPA HAGHTAPMRP SYSAQEGLAG YQREGPHPAW
PQPVTTSHYA HDPSGMFRSQ SFSEAEPQLP PAPVRGGSSR EAVQRGLNSW QQQQQQQQQP
RPPPRQQERA HLESLVASRP SPQPLAETPI PSLPEFPRAA SQQEIEQSIE TLNMLMLDLE
PASAAAPLHK SQSVPGAWPG ASPLSSQPLS GSSRQSHPLT QSRSGYIPSG HSLGTPEPAP
RASLESVPPG RSYSPYDYQP CLAGPNQDFH SKSPASSSLP AFLPTTHSPP GPQQPPASLP
GLTAQPLLSP KEATSDPSRT PEEEPLNLEG LVAHRVAGVQ AREKQPAEPP APLRRRAASD
GQYENQSPEA TSPRSPGVRS PVQCVSPELA LTIALNPGGR PKEPHLHSYK EAFEEMEGTS
PSSPPPSGVR SPPGLAKTPL SALGLKPHNP ADILLHPTGE PRSYVESVAR TAVAGPRAQD
SEPKSFSAPA TQAYGHEIPL RNGTLGGSFV SPSPLSTSSP ILSADSTSVG SFPSGESSDQ
GPRTPTQPLL ESGFRSGSLG QPSPSAQRNY QSSSPLPTVG SSYSSPDYSL QHFSSSPESQ
ARAQFSVAGV HTVPGSPQAR HRTVGTNTPP SPGFGWRAIN PSMAAPSSPS LSHHQMMGPP
GTGFHGSTVS SPQSSAATTP GSPSLCRHPA GVYQVSGLHN KVATTPGSPS LGRHPGAHQG
NLASGLHSNA IASPGSPSLG RHLGGSGSVV PGSPCLDRHV AYGGYSTPED RRPTLSRQSS
ASGYQAPSTP SFPVSPAYYP GLSSPATSPS PDSAAFRQGS PTPALPEKRR MSVGDRAGSL
PNYATINGKV SSPVASGMSS PSGGSTVSFS HTLPDFSKYS MPDNSPETRA KVKFVQDTSK
YWYKPEISRE QAIALLKDQE PGAFIIRDSH SFRGAYGLAM KVSSPPPTIM QQNKKGDMTH
ELVRHFLIET GPRGVKLKGC PNEPNFGSLS ALVYQHSIIP LALPCKLVIP NRDPTDESKD
SSGPANSTAD LLKQGAACNV LFVNSVDMES LTGPQAISKA TSETLAADPT PAATIVHFKV
SAQGITLTDN QRKLFFRRHY PLNTVTFCDL DPQERKWMKT EGGAPAKLFG FVARKQGSTT
DNACHLFAEL DPNQPASAIV NFVSKVMLNA GQKR*
mutated AA sequence MSVSRTMEDS CELDLVYVTE RIIAVSFPST ANEENFRSNL REVAQMLKSK HGGNYLLFNL
SERRPDITKL HAKVLEFGWP DLHTPALEKI CSICKAMDTW LNADPHNVVV LHNKGNRGRI
GVVIAAYMHY SNISASADQA LDRFAMKRFY EDKIVPIGQP SQRRYVHYFS GLLSGSIKMN
NKPLFLHHVI MHGIPNFESK GGCRPFLRIY QAMQPVYTSG IYNIPGDSQT SVCITIEPGL
LLKGDILLKC YHKKFRSPAR DVIFRVQFHT CAIHDLGVVF GKEDLDDAFK DDRFPEYGKV
EFVFSYGPEK IQGMEHLENG PSVSVDYNTS DPLIRWDSYD NFSGHRDDGM EEVVGHTQGP
LDGSLYAKVK KKDSLHGSTG AVNATRPTLS ATPNHVEHTL SVSSDSGNST ASTKTDKTDE
PVPGASSATA ALSPQEKREL DRLLSGFGLE REKQGAMYHT QHLRSRPAGG SAVPSSGRHV
VPAQVHVNGG ALASERETDI LDDELPNQDG HSAGSMGTLS SLDGVTNTSE GGYPEALSPL
TNGLDKSYPM EPMVNGGGYP YESASRAGPA HAGHTAPMRP SYSAQEGLAG YQREGPHPAW
PQPVTTSHYA HDPSGMFRSQ SFSEAEPQLP PAPVRGGSSR EAVQRGLNSW QQQQQQQQQP
RPPPRQQERA HLESLVASRP SPQPLAETPI PSLPEFPRAA SQQEIEQSIE TLNMLMLDLE
PASAAAPLHK SQSVPGAWPG ASPLSSQPLS GSSRQSHPLT QSRSGYIPSG HSLGTPEPAP
RASLESVPPG RSYSPYDYQP CLAGPNQDFH SKSPASSSLP AFLPTTHSPP GPQQPPASLP
GLTAQPLLSP KEATSDPSRT PEEEPLNLEG LVAHRVAGVQ AREKQPAEPP APLRRRAASD
GQYENQSPEA TSPRSPGVRS PVQCVSPELA LTIALNPGGR PKEPHLHSYK EAFEEMEGTS
PSSPPPSGVR SPPGLAKTPL SALGLKPHNP ADILLHPTGE PRSYVESVAR TAVAGPRAQD
SEPKSFSAPA TQAYGHEIPL RNGTLGGSFV SPSPLSTSSP ILSADSTSVG SFPSGESSDQ
GPRTPTQPLL ESGFRSGSLG QPSPSAQRNY QSSSPLPTVG SSYSSPDYSL QHFSSSPESQ
ARAQFSVAGV HTVPGSPQAR HRTVGTNTPP SPGFGRRAIN PSMAAPSSPS LSHHQMMGPP
GTGFHGSTVS SPQSSAATTP GSPSLCRHPA GVYQVSGLHN KVATTPGSPS LGRHPGAHQG
NLASGLHSNA IASPGSPSLG RHLGGSGSVV PGSPCLDRHV AYGGYSTPED RRPTLSRQSS
ASGYQAPSTP SFPVSPAYYP GLSSPATSPS PDSAAFRQGS PTPALPEKRR MSVGDRAGSL
PNYATINGKV SSPVASGMSS PSGGSTVSFS HTLPDFSKYS MPDNSPETRA KVKFVQDTSK
YWYKPEISRE QAIALLKDQE PGAFIIRDSH SFRGAYGLAM KVSSPPPTIM QQNKKGDMTH
ELVRHFLIET GPRGVKLKGC PNEPNFGSLS ALVYQHSIIP LALPCKLVIP NRDPTDESKD
SSGPANSTAD LLKQGAACNV LFVNSVDMES LTGPQAISKA TSETLAADPT PAATIVHFKV
SAQGITLTDN QRKLFFRRHY PLNTVTFCDL DPQERKWMKT EGGAPAKLFG FVARKQGSTT
DNACHLFAEL DPNQPASAIV NFVSKVMLNA GQKR*
speed 0.35 s
All positions are in basepairs (bp) if not explicitly stated differently.
AA/aa: amino acid; CDS: coding sequence; mu: mutated; NMD: nonsense-mediated mRNA decay; nt: nucleotide; wt: wildtype; TGP: 1000 Genomes Project
back to results table

Problems