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: ENST00000354484
Querying Taster for transcript #2: ENST00000393061
Querying Taster for transcript #3: ENST00000393060
MT speed 0 s - this script 4.014326 s

Results


genesymbolpredictionprobabilitymodelprediction
problem
splicingClinVaramino acid changesvariant typedbSNP IDprotein lengthfile
ADAMTSL2disease_causing_automatic0.999999998469883simple_aaeaffected0G811Rsingle base exchangers113994124show file
ADAMTSL2disease_causing_automatic0.999999998469883simple_aaeaffected0G920Rsingle base exchangers113994124show file
ADAMTSL2disease_causing_automatic0.999999998469883simple_aaeaffected0G811Rsingle base exchangers113994124show file

Taster files

Yum, tasty mutations...

mutation t@sting

documentation

Prediction

disease causing

Model: simple_aae, prob: 0.999999998469883 (classification due to ClinVar, real probability is shown anyway)      (explain)
Summary
  • amino acid sequence changed
  • known disease mutation at this position (HGMD CM083477)
  • known disease mutation: rs696 (pathogenic)
  • protein features (might be) affected
  • splice site changes
hyperlink
analysed issue analysis result
name of alteration no title
alteration (phys. location) chr9:136435468G>AN/A show variant in all transcripts   IGV
HGNC symbol ADAMTSL2
Ensembl transcript ID ENST00000354484
Genbank transcript ID NM_001145320
UniProt peptide Q86TH1
alteration type single base exchange
alteration region CDS
DNA changes c.2431G>A
cDNA.2988G>A
g.38183G>A
AA changes G811R Score: 125 explain score(s)
position(s) of altered AA
if AA alteration in CDS
811
frameshift no
known variant Reference ID: rs113994124
Allele 'A' was neither found in ExAC nor 1000G.
known disease mutation: rs696 (pathogenic for Geleophysic dysplasia 1) dbSNP  NCBI variation viewer
known disease mutation at this position, please check HGMD for details (HGMD ID CM083477)

known disease mutation at this position, please check HGMD for details (HGMD ID CM083477)
known disease mutation at this position, please check HGMD for details (HGMD ID CM083477)
regulatory features H3K27me3, Histone, Histone 3 Lysine 27 Tri-Methylation
phyloP / phastCons
PhyloPPhastCons
(flanking)-0.1240.99
4.8111
(flanking)4.8111
explain score(s) and/or inspect your position(s) in in UCSC Genome Browser
splice sites
effectgDNA positionscorewt detection sequence exon-intron border
Acc marginally increased38180wt: 0.2313 / mu: 0.2336 (marginal change - not scored)wt: GGCCTCAGTGCAACACCACCTGCGGGCGCGGGGTCAAGAAG
mu: GGCCTCAGTGCAACACCACCTGCAGGCGCGGGGTCAAGAAG
 acct|GCGG
Donor increased38186wt: 0.27 / mu: 0.52wt: GCGGGCGCGGGGTCA
mu: GCAGGCGCGGGGTCA
 GGGC|gcgg
Donor gained381830.88mu: CCTGCAGGCGCGGGG TGCA|ggcg
distance from splice site 16
Kozak consensus sequence altered? N/A
conservation
protein level for non-synonymous changes
speciesmatchgeneaaalignment
Human      811AQDWERCNTTCGRGVKKRLVLCME
mutated  not conserved    811AQDWERCNTTCRRGVKKRLVLCM
Ptroglodytes  all identical  ENSPTRG00000022572  912AQDWERCNTTCGRGVKKRLVLCM
Mmulatta  all identical  ENSMMUG00000017203  817AQDWERCNTTCGRGVKKRLVLCM
Fcatus  all identical  ENSFCAG00000019127  859AQDWERCNTTCGRGVKKRLVLCM
Mmusculus  all identical  ENSMUSG00000036040  817AQDWERCNTTCGRGVKKRLVLCM
Ggallus  not conserved  ENSGALG00000002955  829AHPWPFAESSRRRGGVQPRGLLQT
Trubripes  all identical  ENSTRUG00000009723  773SQEWERCNTTCGRGVKRRVVLCV
Drerio  all identical  ENSDARG00000074033  255AQDWERCNTTCGRGVKRRTVLCV
Dmelanogaster  no homologue    
Celegans  all identical  T19D2.1  851-SQWSDCSVNCGEGVQFRKRACF
Xtropicalis  all identical  ENSXETG00000023116  239SQDWERCNTTCGRGAKQ
protein features
start (aa)end (aa)featuredetails 
797851DOMAINTSP type-1 6.lost
853908DOMAINTSP type-1 7.might get lost (downstream of altered splice site)
912950DOMAINPLAC.might get lost (downstream of altered splice site)
length of protein normal
AA sequence altered yes
position of stopcodon in wt / mu CDS 2856 / 2856
position (AA) of stopcodon in wt / mu AA sequence 952 / 952
position of stopcodon in wt / mu cDNA 3413 / 3413
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 558 / 558
chromosome 9
strand 1
last intron/exon boundary 3295
theoretical NMD boundary in CDS 2687
length of CDS 2856
coding sequence (CDS) position 2431
cDNA position
(for ins/del: last normal base / first normal base)
2988
gDNA position
(for ins/del: last normal base / first normal base)
38183
chromosomal position
(for ins/del: last normal base / first normal base)
136435468
original gDNA sequence snippet CTCAGTGCAACACCACCTGCGGGCGCGGGGTCAAGAAGCGG
altered gDNA sequence snippet CTCAGTGCAACACCACCTGCAGGCGCGGGGTCAAGAAGCGG
original cDNA sequence snippet AGCGGTGCAACACCACCTGCGGGCGCGGGGTCAAGAAGCGG
altered cDNA sequence snippet AGCGGTGCAACACCACCTGCAGGCGCGGGGTCAAGAAGCGG
wildtype AA sequence MDGRWQCSCW AWFLLVLAVV AGDTVSTGST DNSPTSNSLE GGTDATAFWW GEWTKWTACS
RSCGGGVTSQ ERHCLQQRRK SVPGPGNRTC TGTSKRYQLC RVQECPPDGR SFREEQCVSF
NSHVYNGRTH QWKPLYPDDY VHISSKPCDL HCTTVDGQRQ LMVPARDGTS CKLTDLRGVC
VSGKCEPIGC DGVLFSTHTL DKCGICQGDG SSCTHVTGNY RKGNAHLGYS LVTHIPAGAR
DIQIVERKKS ADVLALADEA GYYFFNGNYK VDSPKNFNIA GTVVKYRRPM DVYETGIEYI
VAQGPTNQGL NVMVWNQNGK SPSITFEYTL LQPPHESRPQ PIYYGFSESA ESQGLDGAGL
MGFVPHNGSL YGQASSERLG LDNRLFGHPG LDMELGPSQG QETNEVCEQA GGGACEGPPR
GKGFRDRNVT GTPLTGDKDD EEVDTHFASQ EFFSANAISD QLLGAGSDLK DFTLNETVNS
IFAQGAPRSS LAESFFVDYE ENEGAGPYLL NGSYLELSSD RVANSSSEAP FPNVSTSLLT
SAGNRTHKAR TRPKARKQGV SPADMYRWKL SSHEPCSATC TTGVMSAYAM CVRYDGVEVD
DSYCDALTRP EPVHEFCAGR ECQPRWETSS WSECSRTCGE GYQFRVVRCW KMLSPGFDSS
VYSDLCEAAE AVRPEERKTC RNPACGPQWE MSEWSECTAK CGERSVVTRD IRCSEDEKLC
DPNTRPVGEK NCTGPPCDRQ WTVSDWGPCS GSCGQGRTIR HVYCKTSDGR VVPESQCQME
TKPLAIHPCG DKNCPAHWLA QDWERCNTTC GRGVKKRLVL CMELANGKPQ TRSGPECGLA
KKPPEESTCF ERPCFKWYTS PWSECTKTCG VGVRMRDVKC YQGTDIVRGC DPLVKPVGRQ
ACDLQPCPTE PPDDSCQDQP GTNCALAIKV NLCGHWYYSK ACCRSCRPPH S*
mutated AA sequence MDGRWQCSCW AWFLLVLAVV AGDTVSTGST DNSPTSNSLE GGTDATAFWW GEWTKWTACS
RSCGGGVTSQ ERHCLQQRRK SVPGPGNRTC TGTSKRYQLC RVQECPPDGR SFREEQCVSF
NSHVYNGRTH QWKPLYPDDY VHISSKPCDL HCTTVDGQRQ LMVPARDGTS CKLTDLRGVC
VSGKCEPIGC DGVLFSTHTL DKCGICQGDG SSCTHVTGNY RKGNAHLGYS LVTHIPAGAR
DIQIVERKKS ADVLALADEA GYYFFNGNYK VDSPKNFNIA GTVVKYRRPM DVYETGIEYI
VAQGPTNQGL NVMVWNQNGK SPSITFEYTL LQPPHESRPQ PIYYGFSESA ESQGLDGAGL
MGFVPHNGSL YGQASSERLG LDNRLFGHPG LDMELGPSQG QETNEVCEQA GGGACEGPPR
GKGFRDRNVT GTPLTGDKDD EEVDTHFASQ EFFSANAISD QLLGAGSDLK DFTLNETVNS
IFAQGAPRSS LAESFFVDYE ENEGAGPYLL NGSYLELSSD RVANSSSEAP FPNVSTSLLT
SAGNRTHKAR TRPKARKQGV SPADMYRWKL SSHEPCSATC TTGVMSAYAM CVRYDGVEVD
DSYCDALTRP EPVHEFCAGR ECQPRWETSS WSECSRTCGE GYQFRVVRCW KMLSPGFDSS
VYSDLCEAAE AVRPEERKTC RNPACGPQWE MSEWSECTAK CGERSVVTRD IRCSEDEKLC
DPNTRPVGEK NCTGPPCDRQ WTVSDWGPCS GSCGQGRTIR HVYCKTSDGR VVPESQCQME
TKPLAIHPCG DKNCPAHWLA QDWERCNTTC RRGVKKRLVL CMELANGKPQ TRSGPECGLA
KKPPEESTCF ERPCFKWYTS PWSECTKTCG VGVRMRDVKC YQGTDIVRGC DPLVKPVGRQ
ACDLQPCPTE PPDDSCQDQP GTNCALAIKV NLCGHWYYSK ACCRSCRPPH S*
speed 0.88 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

disease causing

Model: simple_aae, prob: 0.999999998469883 (classification due to ClinVar, real probability is shown anyway)      (explain)
Summary
  • amino acid sequence changed
  • known disease mutation at this position (HGMD CM083477)
  • known disease mutation: rs696 (pathogenic)
  • protein features (might be) affected
  • splice site changes
hyperlink
analysed issue analysis result
name of alteration no title
alteration (phys. location) chr9:136435468G>AN/A show variant in all transcripts   IGV
HGNC symbol ADAMTSL2
Ensembl transcript ID ENST00000393061
Genbank transcript ID NM_014694
UniProt peptide Q86TH1
alteration type single base exchange
alteration region CDS
DNA changes c.2758G>A
cDNA.3190G>A
g.38183G>A
AA changes G920R Score: 125 explain score(s)
position(s) of altered AA
if AA alteration in CDS
920
frameshift no
known variant Reference ID: rs113994124
Allele 'A' was neither found in ExAC nor 1000G.
known disease mutation: rs696 (pathogenic for Geleophysic dysplasia 1) dbSNP  NCBI variation viewer
known disease mutation at this position, please check HGMD for details (HGMD ID CM083477)

known disease mutation at this position, please check HGMD for details (HGMD ID CM083477)
known disease mutation at this position, please check HGMD for details (HGMD ID CM083477)
regulatory features H3K27me3, Histone, Histone 3 Lysine 27 Tri-Methylation
phyloP / phastCons
PhyloPPhastCons
(flanking)-0.1240.99
4.8111
(flanking)4.8111
explain score(s) and/or inspect your position(s) in in UCSC Genome Browser
splice sites
effectgDNA positionscorewt detection sequence exon-intron border
Acc marginally increased38180wt: 0.2313 / mu: 0.2336 (marginal change - not scored)wt: GGCCTCAGTGCAACACCACCTGCGGGCGCGGGGTCAAGAAG
mu: GGCCTCAGTGCAACACCACCTGCAGGCGCGGGGTCAAGAAG
 acct|GCGG
Donor increased38186wt: 0.27 / mu: 0.52wt: GCGGGCGCGGGGTCA
mu: GCAGGCGCGGGGTCA
 GGGC|gcgg
Donor gained381830.88mu: CCTGCAGGCGCGGGG TGCA|ggcg
distance from splice site 16
Kozak consensus sequence altered? N/A
conservation
protein level for non-synonymous changes
speciesmatchgeneaaalignment
Human      920AQDWERCNTTCGRGVKKRLVLCME
mutated  not conserved    920AQDWERCNTTCRRGVKKRLVLCM
Ptroglodytes  all identical  ENSPTRG00000022572  912AQDWERCNTTCGRGVKKRLVLCM
Mmulatta  all identical  ENSMMUG00000017203  817AQDWERCNTTCGRGVKKRLVLCM
Fcatus  all identical  ENSFCAG00000019127  859AQDWERCNTTCGRGVKKRLVLCM
Mmusculus  all identical  ENSMUSG00000036040  817AQDWERCNTTCGRGVKKRLVLCM
Ggallus  not conserved  ENSGALG00000002955  829AHPWPFAESSRRRGGVQPRGLLQT
Trubripes  all identical  ENSTRUG00000009723  773SQEWERCNTTCGRGVKRRVVLCV
Drerio  all identical  ENSDARG00000074033  255AQDWERCNTTCGRGVKRRTVLCV
Dmelanogaster  no homologue    
Celegans  all identical  T19D2.1  851-SQWSDCSVNCGEGVQFRKRACF
Xtropicalis  all identical  ENSXETG00000023116  239SQDWERCNTTCGRGAKQ
protein features
start (aa)end (aa)featuredetails 
912950DOMAINPLAC.lost
length of protein normal
AA sequence altered yes
position of stopcodon in wt / mu CDS 3183 / 3183
position (AA) of stopcodon in wt / mu AA sequence 1061 / 1061
position of stopcodon in wt / mu cDNA 3615 / 3615
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 433 / 433
chromosome 9
strand 1
last intron/exon boundary 3497
theoretical NMD boundary in CDS 3014
length of CDS 3183
coding sequence (CDS) position 2758
cDNA position
(for ins/del: last normal base / first normal base)
3190
gDNA position
(for ins/del: last normal base / first normal base)
38183
chromosomal position
(for ins/del: last normal base / first normal base)
136435468
original gDNA sequence snippet CTCAGTGCAACACCACCTGCGGGCGCGGGGTCAAGAAGCGG
altered gDNA sequence snippet CTCAGTGCAACACCACCTGCAGGCGCGGGGTCAAGAAGCGG
original cDNA sequence snippet AGCGGTGCAACACCACCTGCGGGCGCGGGGTCAAGAAGCGG
altered cDNA sequence snippet AGCGGTGCAACACCACCTGCAGGCGCGGGGTCAAGAAGCGG
wildtype AA sequence MLFEVGEGGG AGEEGKGRGR PGRSLCTHAA PARTAHLAPS ALRSARPFLW EDNLLTRSQG
LPDNHDQLVP DNLEAWALAG PRGLFPKRTL VIWKRIGAGL VVTVALLPRM DGRWQCSCWA
WFLLVLAVVA GDTVSTGSTD NSPTSNSLEG GTDATAFWWG EWTKWTACSR SCGGGVTSQE
RHCLQQRRKS VPGPGNRTCT GTSKRYQLCR VQECPPDGRS FREEQCVSFN SHVYNGRTHQ
WKPLYPDDYV HISSKPCDLH CTTVDGQRQL MVPARDGTSC KLTDLRGVCV SGKCEPIGCD
GVLFSTHTLD KCGICQGDGS SCTHVTGNYR KGNAHLGYSL VTHIPAGARD IQIVERKKSA
DVLALADEAG YYFFNGNYKV DSPKNFNIAG TVVKYRRPMD VYETGIEYIV AQGPTNQGLN
VMVWNQNGKS PSITFEYTLL QPPHESRPQP IYYGFSESAE SQGLDGAGLM GFVPHNGSLY
GQASSERLGL DNRLFGHPGL DMELGPSQGQ ETNEVCEQAG GGACEGPPRG KGFRDRNVTG
TPLTGDKDDE EVDTHFASQE FFSANAISDQ LLGAGSDLKD FTLNETVNSI FAQGAPRSSL
AESFFVDYEE NEGAGPYLLN GSYLELSSDR VANSSSEAPF PNVSTSLLTS AGNRTHKART
RPKARKQGVS PADMYRWKLS SHEPCSATCT TGVMSAYAMC VRYDGVEVDD SYCDALTRPE
PVHEFCAGRE CQPRWETSSW SECSRTCGEG YQFRVVRCWK MLSPGFDSSV YSDLCEAAEA
VRPEERKTCR NPACGPQWEM SEWSECTAKC GERSVVTRDI RCSEDEKLCD PNTRPVGEKN
CTGPPCDRQW TVSDWGPCSG SCGQGRTIRH VYCKTSDGRV VPESQCQMET KPLAIHPCGD
KNCPAHWLAQ DWERCNTTCG RGVKKRLVLC MELANGKPQT RSGPECGLAK KPPEESTCFE
RPCFKWYTSP WSECTKTCGV GVRMRDVKCY QGTDIVRGCD PLVKPVGRQA CDLQPCPTEP
PDDSCQDQPG TNCALAIKVN LCGHWYYSKA CCRSCRPPHS *
mutated AA sequence MLFEVGEGGG AGEEGKGRGR PGRSLCTHAA PARTAHLAPS ALRSARPFLW EDNLLTRSQG
LPDNHDQLVP DNLEAWALAG PRGLFPKRTL VIWKRIGAGL VVTVALLPRM DGRWQCSCWA
WFLLVLAVVA GDTVSTGSTD NSPTSNSLEG GTDATAFWWG EWTKWTACSR SCGGGVTSQE
RHCLQQRRKS VPGPGNRTCT GTSKRYQLCR VQECPPDGRS FREEQCVSFN SHVYNGRTHQ
WKPLYPDDYV HISSKPCDLH CTTVDGQRQL MVPARDGTSC KLTDLRGVCV SGKCEPIGCD
GVLFSTHTLD KCGICQGDGS SCTHVTGNYR KGNAHLGYSL VTHIPAGARD IQIVERKKSA
DVLALADEAG YYFFNGNYKV DSPKNFNIAG TVVKYRRPMD VYETGIEYIV AQGPTNQGLN
VMVWNQNGKS PSITFEYTLL QPPHESRPQP IYYGFSESAE SQGLDGAGLM GFVPHNGSLY
GQASSERLGL DNRLFGHPGL DMELGPSQGQ ETNEVCEQAG GGACEGPPRG KGFRDRNVTG
TPLTGDKDDE EVDTHFASQE FFSANAISDQ LLGAGSDLKD FTLNETVNSI FAQGAPRSSL
AESFFVDYEE NEGAGPYLLN GSYLELSSDR VANSSSEAPF PNVSTSLLTS AGNRTHKART
RPKARKQGVS PADMYRWKLS SHEPCSATCT TGVMSAYAMC VRYDGVEVDD SYCDALTRPE
PVHEFCAGRE CQPRWETSSW SECSRTCGEG YQFRVVRCWK MLSPGFDSSV YSDLCEAAEA
VRPEERKTCR NPACGPQWEM SEWSECTAKC GERSVVTRDI RCSEDEKLCD PNTRPVGEKN
CTGPPCDRQW TVSDWGPCSG SCGQGRTIRH VYCKTSDGRV VPESQCQMET KPLAIHPCGD
KNCPAHWLAQ DWERCNTTCR RGVKKRLVLC MELANGKPQT RSGPECGLAK KPPEESTCFE
RPCFKWYTSP WSECTKTCGV GVRMRDVKCY QGTDIVRGCD PLVKPVGRQA CDLQPCPTEP
PDDSCQDQPG TNCALAIKVN LCGHWYYSKA CCRSCRPPHS *
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

disease causing

Model: simple_aae, prob: 0.999999998469883 (classification due to ClinVar, real probability is shown anyway)      (explain)
Summary
  • amino acid sequence changed
  • known disease mutation at this position (HGMD CM083477)
  • known disease mutation: rs696 (pathogenic)
  • protein features (might be) affected
  • splice site changes
hyperlink
analysed issue analysis result
name of alteration no title
alteration (phys. location) chr9:136435468G>AN/A show variant in all transcripts   IGV
HGNC symbol ADAMTSL2
Ensembl transcript ID ENST00000393060
Genbank transcript ID N/A
UniProt peptide Q86TH1
alteration type single base exchange
alteration region CDS
DNA changes c.2431G>A
cDNA.2646G>A
g.38183G>A
AA changes G811R Score: 125 explain score(s)
position(s) of altered AA
if AA alteration in CDS
811
frameshift no
known variant Reference ID: rs113994124
Allele 'A' was neither found in ExAC nor 1000G.
known disease mutation: rs696 (pathogenic for Geleophysic dysplasia 1) dbSNP  NCBI variation viewer
known disease mutation at this position, please check HGMD for details (HGMD ID CM083477)

known disease mutation at this position, please check HGMD for details (HGMD ID CM083477)
known disease mutation at this position, please check HGMD for details (HGMD ID CM083477)
regulatory features H3K27me3, Histone, Histone 3 Lysine 27 Tri-Methylation
phyloP / phastCons
PhyloPPhastCons
(flanking)-0.1240.99
4.8111
(flanking)4.8111
explain score(s) and/or inspect your position(s) in in UCSC Genome Browser
splice sites
effectgDNA positionscorewt detection sequence exon-intron border
Acc marginally increased38180wt: 0.2313 / mu: 0.2336 (marginal change - not scored)wt: GGCCTCAGTGCAACACCACCTGCGGGCGCGGGGTCAAGAAG
mu: GGCCTCAGTGCAACACCACCTGCAGGCGCGGGGTCAAGAAG
 acct|GCGG
Donor increased38186wt: 0.27 / mu: 0.52wt: GCGGGCGCGGGGTCA
mu: GCAGGCGCGGGGTCA
 GGGC|gcgg
Donor gained381830.88mu: CCTGCAGGCGCGGGG TGCA|ggcg
distance from splice site 16
Kozak consensus sequence altered? N/A
conservation
protein level for non-synonymous changes
speciesmatchgeneaaalignment
Human      811AQDWERCNTTCGRGVKKRLVLCME
mutated  not conserved    811AQDWERCNTTCRRGVKKRLVLCM
Ptroglodytes  all identical  ENSPTRG00000022572  912AQDWERCNTTCGRGVKKRLVLCM
Mmulatta  all identical  ENSMMUG00000017203  817AQDWERCNTTCGRGVKKRLVLCM
Fcatus  all identical  ENSFCAG00000019127  859AQDWERCNTTCGRGVKKRLVLCM
Mmusculus  all identical  ENSMUSG00000036040  817AQDWERCNTTCGRGVKKRLVLCM
Ggallus  not conserved  ENSGALG00000002955  829AHPWPFAESSRRRGGVQPRGLLQT
Trubripes  all identical  ENSTRUG00000009723  773SQEWERCNTTCGRGVKRRVVLCV
Drerio  all identical  ENSDARG00000074033  255AQDWERCNTTCGRGVKRRTVLCV
Dmelanogaster  no homologue    
Celegans  all identical  T19D2.1  851-SQWSDCSVNCGEGVQFRKRACF
Xtropicalis  all identical  ENSXETG00000023116  239SQDWERCNTTCGRGAKQ
protein features
start (aa)end (aa)featuredetails 
797851DOMAINTSP type-1 6.lost
853908DOMAINTSP type-1 7.might get lost (downstream of altered splice site)
912950DOMAINPLAC.might get lost (downstream of altered splice site)
length of protein normal
AA sequence altered yes
position of stopcodon in wt / mu CDS 2856 / 2856
position (AA) of stopcodon in wt / mu AA sequence 952 / 952
position of stopcodon in wt / mu cDNA 3071 / 3071
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 216 / 216
chromosome 9
strand 1
last intron/exon boundary 2953
theoretical NMD boundary in CDS 2687
length of CDS 2856
coding sequence (CDS) position 2431
cDNA position
(for ins/del: last normal base / first normal base)
2646
gDNA position
(for ins/del: last normal base / first normal base)
38183
chromosomal position
(for ins/del: last normal base / first normal base)
136435468
original gDNA sequence snippet CTCAGTGCAACACCACCTGCGGGCGCGGGGTCAAGAAGCGG
altered gDNA sequence snippet CTCAGTGCAACACCACCTGCAGGCGCGGGGTCAAGAAGCGG
original cDNA sequence snippet AGCGGTGCAACACCACCTGCGGGCGCGGGGTCAAGAAGCGG
altered cDNA sequence snippet AGCGGTGCAACACCACCTGCAGGCGCGGGGTCAAGAAGCGG
wildtype AA sequence MDGRWQCSCW AWFLLVLAVV AGDTVSTGST DNSPTSNSLE GGTDATAFWW GEWTKWTACS
RSCGGGVTSQ ERHCLQQRRK SVPGPGNRTC TGTSKRYQLC RVQECPPDGR SFREEQCVSF
NSHVYNGRTH QWKPLYPDDY VHISSKPCDL HCTTVDGQRQ LMVPARDGTS CKLTDLRGVC
VSGKCEPIGC DGVLFSTHTL DKCGICQGDG SSCTHVTGNY RKGNAHLGYS LVTHIPAGAR
DIQIVERKKS ADVLALADEA GYYFFNGNYK VDSPKNFNIA GTVVKYRRPM DVYETGIEYI
VAQGPTNQGL NVMVWNQNGK SPSITFEYTL LQPPHESRPQ PIYYGFSESA ESQGLDGAGL
MGFVPHNGSL YGQASSERLG LDNRLFGHPG LDMELGPSQG QETNEVCEQA GGGACEGPPR
GKGFRDRNVT GTPLTGDKDD EEVDTHFASQ EFFSANAISD QLLGAGSDLK DFTLNETVNS
IFAQGAPRSS LAESFFVDYE ENEGAGPYLL NGSYLELSSD RVANSSSEAP FPNVSTSLLT
SAGNRTHKAR TRPKARKQGV SPADMYRWKL SSHEPCSATC TTGVMSAYAM CVRYDGVEVD
DSYCDALTRP EPVHEFCAGR ECQPRWETSS WSECSRTCGE GYQFRVVRCW KMLSPGFDSS
VYSDLCEAAE AVRPEERKTC RNPACGPQWE MSEWSECTAK CGERSVVTRD IRCSEDEKLC
DPNTRPVGEK NCTGPPCDRQ WTVSDWGPCS GSCGQGRTIR HVYCKTSDGR VVPESQCQME
TKPLAIHPCG DKNCPAHWLA QDWERCNTTC GRGVKKRLVL CMELANGKPQ TRSGPECGLA
KKPPEESTCF ERPCFKWYTS PWSECTKTCG VGVRMRDVKC YQGTDIVRGC DPLVKPVGRQ
ACDLQPCPTE PPDDSCQDQP GTNCALAIKV NLCGHWYYSK ACCRSCRPPH S*
mutated AA sequence MDGRWQCSCW AWFLLVLAVV AGDTVSTGST DNSPTSNSLE GGTDATAFWW GEWTKWTACS
RSCGGGVTSQ ERHCLQQRRK SVPGPGNRTC TGTSKRYQLC RVQECPPDGR SFREEQCVSF
NSHVYNGRTH QWKPLYPDDY VHISSKPCDL HCTTVDGQRQ LMVPARDGTS CKLTDLRGVC
VSGKCEPIGC DGVLFSTHTL DKCGICQGDG SSCTHVTGNY RKGNAHLGYS LVTHIPAGAR
DIQIVERKKS ADVLALADEA GYYFFNGNYK VDSPKNFNIA GTVVKYRRPM DVYETGIEYI
VAQGPTNQGL NVMVWNQNGK SPSITFEYTL LQPPHESRPQ PIYYGFSESA ESQGLDGAGL
MGFVPHNGSL YGQASSERLG LDNRLFGHPG LDMELGPSQG QETNEVCEQA GGGACEGPPR
GKGFRDRNVT GTPLTGDKDD EEVDTHFASQ EFFSANAISD QLLGAGSDLK DFTLNETVNS
IFAQGAPRSS LAESFFVDYE ENEGAGPYLL NGSYLELSSD RVANSSSEAP FPNVSTSLLT
SAGNRTHKAR TRPKARKQGV SPADMYRWKL SSHEPCSATC TTGVMSAYAM CVRYDGVEVD
DSYCDALTRP EPVHEFCAGR ECQPRWETSS WSECSRTCGE GYQFRVVRCW KMLSPGFDSS
VYSDLCEAAE AVRPEERKTC RNPACGPQWE MSEWSECTAK CGERSVVTRD IRCSEDEKLC
DPNTRPVGEK NCTGPPCDRQ WTVSDWGPCS GSCGQGRTIR HVYCKTSDGR VVPESQCQME
TKPLAIHPCG DKNCPAHWLA QDWERCNTTC RRGVKKRLVL CMELANGKPQ TRSGPECGLA
KKPPEESTCF ERPCFKWYTS PWSECTKTCG VGVRMRDVKC YQGTDIVRGC DPLVKPVGRQ
ACDLQPCPTE PPDDSCQDQP GTNCALAIKV NLCGHWYYSK ACCRSCRPPH S*
speed 0.96 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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Problems