Yum, tasty mutations...

mutation t@sting

 documentation

Prediction

disease causing

 Model: simple_aae, prob: 0.999999476454299 (classification due to ClinVar, real probability is shown anyway)      (explain)
Summary
  • amino acid sequence changed
  • known disease mutation at this position (HGMD CM980578)
  • known disease mutation: rs6668 (pathogenic)
  • protein features (might be) affected
 hyperlink
analysed issue analysis result
name of alteration no title
alteration (phys. location) chr2:71909727C>TN/A show variant in all transcripts   IGV
HGNC symbol DYSF
Ensembl transcript ID ENST00000409366
Genbank transcript ID NM_001130983
UniProt peptide O75923
alteration type single base exchange
alteration region CDS
DNA changes c.6190C>T
cDNA.6331C>T
g.228876C>T
AA changes R2064C Score: 180 explain score(s)
position(s) of altered AA
if AA alteration in CDS		 2064
frameshift no
known variant Reference ID: rs121908955
databasehomozygous (T/T)heterozygousallele carriers
1000G---
ExAC055

known disease mutation: rs6668 (pathogenic for Autosomal recessive limb-girdle muscular dystrophy type 2B|Qualitative or quantitative defects of dysferlin|Miyoshi muscular dystrophy 1|not provided) dbSNP  NCBI variation viewer
known disease mutation at this position, please check HGMD for details (HGMD ID CM980578)

known disease mutation at this position, please check HGMD for details (HGMD ID CM980578)
known disease mutation at this position, please check HGMD for details (HGMD ID CM980578)
regulatory features H3K27me3, Histone, Histone 3 Lysine 27 Tri-Methylation
H3K36me3, Histone, Histone 3 Lysine 36 Tri-Methylation
phyloP / phastCons
PhyloPPhastCons
(flanking)1.651
1.0791
(flanking)5.4291
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 increased228883wt: 0.2192 / mu: 0.2321 (marginal change - not scored)wt: CATCCTGTGGCGGCGTTTCCGGTGGGCCATCATCCTCTTCA
mu: CATCCTGTGGCGGTGTTTCCGGTGGGCCATCATCCTCTTCA		 tccg|GTGG
distance from splice site 68
Kozak consensus sequence altered? N/A
conservation
protein level for non-synonymous changes
speciesmatchgeneaaalignment
Human      2064PYKTMKFILWRRFRWAIILFIILF
mutated  not conserved    2064PYKTMKFILWRCFRWAIILFIIL
Ptroglodytes  all identical  ENSPTRG00000012049  2035PYKTMKFILWRRFRWAI
Mmulatta  all identical  ENSMMUG00000007176  2012PYKTMKFILWRRFR
Fcatus  all identical  ENSFCAG00000004357  2012PYKTMKFILWRRFRCAI
Mmusculus  all identical  ENSMUSG00000033788  2062PYKTMKFILWRRFRC
Ggallus  all identical  ENSGALG00000016105  870PYKTLKYILWRRYKWLLILA
Trubripes  no homologue    
Drerio  all identical  ENSDARG00000007370  1802PYKTFRFIVWRRFKWLILGLFIL
Dmelanogaster  no homologue    
Celegans  no alignment  T05E8.1  n/a
Xtropicalis  no homologue    
protein features
start (aa)end (aa)featuredetails 
20472067TRANSMEMHelical; (Potential).lost
length of protein normal
AA sequence altered yes
position of stopcodon in wt / mu CDS 6309 / 6309
position (AA) of stopcodon in wt / mu AA sequence 2103 / 2103
position of stopcodon in wt / mu cDNA 6450 / 6450
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 142 / 142
chromosome 2
strand 1
last intron/exon boundary 6412
theoretical NMD boundary in CDS 6220
length of CDS 6309
coding sequence (CDS) position 6190
cDNA position
(for ins/del: last normal base / first normal base)		 6331
gDNA position
(for ins/del: last normal base / first normal base)		 228876
chromosomal position
(for ins/del: last normal base / first normal base)		 71909727
original gDNA sequence snippet TGAAGTTCATCCTGTGGCGGCGTTTCCGGTGGGCCATCATC
altered gDNA sequence snippet TGAAGTTCATCCTGTGGCGGTGTTTCCGGTGGGCCATCATC
original cDNA sequence snippet TGAAGTTCATCCTGTGGCGGCGTTTCCGGTGGGCCATCATC
altered cDNA sequence snippet TGAAGTTCATCCTGTGGCGGTGTTTCCGGTGGGCCATCATC
wildtype AA sequence MLCCLLVRAS NLPSAKKDRR SDPVASLTFR GVKKRTKVIK NSVNPVWNEG FEWDLKGIPL
DQGSELHVVV KDHETMGRNR FLGEAKVPLR EVLATPSLSA SFNAPLLDTK KQPTGASLVL
QVSYTPLPGA VPLFPPPTPL EPSPTLPDLD VVADTGGEED TEDQGLTGDE AEPFLDQSGG
PGAPTTPRKL PSRPPPHYPG IKRKRSAPTS RKLLSDKPQD FQIRVQVIEG RQLPGVNIKP
VVKVTAAGQT KRTRIHKGNS PLFNETLFFN LFDSPGELFD EPIFITVVDS RSLRTDALLG
EFRMDVGTIY REPRHAYLRK WLLLSDPDDF SAGARGYLKT SLCVLGPGDE APLERKDPSE
DKEDIESNLL RPTGVALRGA HFCLKVFRAE DLPQMDDAVM DNVKQIFGFE SNKKNLVDPF
VEVSFAGKML CSKILEKTAN PQWNQNITLP AMFPSMCEKM RIRIIDWDRL THNDIVATTY
LSMSKISAPG GEIEEEPAGA VKPSKASDLD DYLGFLPTFG PCYINLYGSP REFTGFPDPY
TELNTGKGEG VAYRGRLLLS LETKLVEHSE QKVEDLPADD ILRVEKYLRR RKYSLFAAFY
SATMLQDVDD AIQFEVSIGN YGNKFDMTCL PLASTTQYSR AVFDGCHYYY LPWGNVKPVV
VLSSYWEDIS HRIETQNQLL GIADRLEAGL EQVHLALKAQ CSTEDVDSLV AQLTDELIAG
CSQPLGDIHE TPSATHLDQY LYQLRTHHLS QITEAALALK LGHSELPAAL EQAEDWLLRL
RALAEEPQNS LPDIVIWMLQ GDKRVAYQRV PAHQVLFSRR GANYCGKNCG KLQTIFLKYP
MEKVPGARMP VQIRVKLWFG LSVDEKEFNQ FAEGKLSVFA ETYENETKLA LVGNWGTTGL
TYPKFSDVTG KIKLPKDSFR PSAGWTWAGD WFVCPEKTLL HDMDAGHLSF VEEVFENQTR
LPGGQWIYMS DNYTDVNGEK VLPKDDIECP LGWKWEDEEW STDLNRAVDE QGWEYSITIP
PERKPKHWVP AEKMYYTHRR RRWVRLRRRD LSQMEALKRH RQAEAEGEGW EYASLFGWKF
HLEYRKTDAF RRRRWRRRME PLEKTGPAAV FALEGALGGV MDDKSEDSMS VSTLSFGVNR
PTISCIFDYG NRYHLRCYMY QARDLAAMDK DSFSDPYAIV SFLHQSQKTV VVKNTLNPTW
DQTLIFYEIE IFGEPATVAE QPPSIVVELY DHDTYGADEF MGRCICQPSL ERMPRLAWFP
LTRGSQPSGE LLASFELIQR EKPAIHHIPG FEVQETSRIL DESEDTDLPY PPPQREANIY
MVPQNIKPAL QRTAIEILAW GLRNMKSYQL ANISSPSLVV ECGGQTVQSC VIRNLRKNPN
FDICTLFMEV MLPREELYCP PITVKVIDNR QFGRRPVVGQ CTIRSLESFL CDPYSAESPS
PQGGPDDVSL LSPGEDVLID IDDKEPLIPI QLADGLSSLA PTNTASPPSS PHEEEFIDWW
SKFFASIGER EKCGSYLEKD FDTLKVYDTQ LENVEAFEGL SDFCNTFKLY RGKTQEETED
PSVIGEFKGL FKIYPLPEDP AIPMPPRQFH QLAAQGPQEC LVRIYIVRAF GLQPKDPNGK
CDPYIKISIG KKSVSDQDNY IPCTLEPVFG KMFELTCTLP LEKDLKITLY DYDLLSKDEK
IGETVVDLEN RLLSKFGARC GLPQTYCVSG PNQWRDQLRP SQLLHLFCQQ HRVKAPVYRT
DRVMFQDKEY SIEEIEAGRI PNPHLGPVEE RLALHVLQQQ GLVPEHVESR PLYSPLQPDI
EQGKLQMWVD LFPKALGRPG PPFNITPRRA RRFFLRCIIW NTRDVILDDL SLTGEKMSDI
YVKGWMIGFE EHKQKTDVHY RSLGGEGNFN WRFIFPFDYL PAEQVCTIAK KDAFWRLDKT
ESKIPARVVF QIWDNDKFSF DDFLGSLQLD LNRMPKPAKT AKKCSLDQLD DAFHPEWFVS
LFEQKTVKGW WPCVAEEGEK KILAGKLEMT LEIVAESEHE ERPAGQGRDE PNMNPKLEDP
RRPDTSFLWF TSPYKTMKFI LWRRFRWAII LFIILFILLL FLAIFIYAFP NYAAMKLVKP
FS*
mutated AA sequence MLCCLLVRAS NLPSAKKDRR SDPVASLTFR GVKKRTKVIK NSVNPVWNEG FEWDLKGIPL
DQGSELHVVV KDHETMGRNR FLGEAKVPLR EVLATPSLSA SFNAPLLDTK KQPTGASLVL
QVSYTPLPGA VPLFPPPTPL EPSPTLPDLD VVADTGGEED TEDQGLTGDE AEPFLDQSGG
PGAPTTPRKL PSRPPPHYPG IKRKRSAPTS RKLLSDKPQD FQIRVQVIEG RQLPGVNIKP
VVKVTAAGQT KRTRIHKGNS PLFNETLFFN LFDSPGELFD EPIFITVVDS RSLRTDALLG
EFRMDVGTIY REPRHAYLRK WLLLSDPDDF SAGARGYLKT SLCVLGPGDE APLERKDPSE
DKEDIESNLL RPTGVALRGA HFCLKVFRAE DLPQMDDAVM DNVKQIFGFE SNKKNLVDPF
VEVSFAGKML CSKILEKTAN PQWNQNITLP AMFPSMCEKM RIRIIDWDRL THNDIVATTY
LSMSKISAPG GEIEEEPAGA VKPSKASDLD DYLGFLPTFG PCYINLYGSP REFTGFPDPY
TELNTGKGEG VAYRGRLLLS LETKLVEHSE QKVEDLPADD ILRVEKYLRR RKYSLFAAFY
SATMLQDVDD AIQFEVSIGN YGNKFDMTCL PLASTTQYSR AVFDGCHYYY LPWGNVKPVV
VLSSYWEDIS HRIETQNQLL GIADRLEAGL EQVHLALKAQ CSTEDVDSLV AQLTDELIAG
CSQPLGDIHE TPSATHLDQY LYQLRTHHLS QITEAALALK LGHSELPAAL EQAEDWLLRL
RALAEEPQNS LPDIVIWMLQ GDKRVAYQRV PAHQVLFSRR GANYCGKNCG KLQTIFLKYP
MEKVPGARMP VQIRVKLWFG LSVDEKEFNQ FAEGKLSVFA ETYENETKLA LVGNWGTTGL
TYPKFSDVTG KIKLPKDSFR PSAGWTWAGD WFVCPEKTLL HDMDAGHLSF VEEVFENQTR
LPGGQWIYMS DNYTDVNGEK VLPKDDIECP LGWKWEDEEW STDLNRAVDE QGWEYSITIP
PERKPKHWVP AEKMYYTHRR RRWVRLRRRD LSQMEALKRH RQAEAEGEGW EYASLFGWKF
HLEYRKTDAF RRRRWRRRME PLEKTGPAAV FALEGALGGV MDDKSEDSMS VSTLSFGVNR
PTISCIFDYG NRYHLRCYMY QARDLAAMDK DSFSDPYAIV SFLHQSQKTV VVKNTLNPTW
DQTLIFYEIE IFGEPATVAE QPPSIVVELY DHDTYGADEF MGRCICQPSL ERMPRLAWFP
LTRGSQPSGE LLASFELIQR EKPAIHHIPG FEVQETSRIL DESEDTDLPY PPPQREANIY
MVPQNIKPAL QRTAIEILAW GLRNMKSYQL ANISSPSLVV ECGGQTVQSC VIRNLRKNPN
FDICTLFMEV MLPREELYCP PITVKVIDNR QFGRRPVVGQ CTIRSLESFL CDPYSAESPS
PQGGPDDVSL LSPGEDVLID IDDKEPLIPI QLADGLSSLA PTNTASPPSS PHEEEFIDWW
SKFFASIGER EKCGSYLEKD FDTLKVYDTQ LENVEAFEGL SDFCNTFKLY RGKTQEETED
PSVIGEFKGL FKIYPLPEDP AIPMPPRQFH QLAAQGPQEC LVRIYIVRAF GLQPKDPNGK
CDPYIKISIG KKSVSDQDNY IPCTLEPVFG KMFELTCTLP LEKDLKITLY DYDLLSKDEK
IGETVVDLEN RLLSKFGARC GLPQTYCVSG PNQWRDQLRP SQLLHLFCQQ HRVKAPVYRT
DRVMFQDKEY SIEEIEAGRI PNPHLGPVEE RLALHVLQQQ GLVPEHVESR PLYSPLQPDI
EQGKLQMWVD LFPKALGRPG PPFNITPRRA RRFFLRCIIW NTRDVILDDL SLTGEKMSDI
YVKGWMIGFE EHKQKTDVHY RSLGGEGNFN WRFIFPFDYL PAEQVCTIAK KDAFWRLDKT
ESKIPARVVF QIWDNDKFSF DDFLGSLQLD LNRMPKPAKT AKKCSLDQLD DAFHPEWFVS
LFEQKTVKGW WPCVAEEGEK KILAGKLEMT LEIVAESEHE ERPAGQGRDE PNMNPKLEDP
RRPDTSFLWF TSPYKTMKFI LWRCFRWAII LFIILFILLL FLAIFIYAFP NYAAMKLVKP
FS*
speed 0.99 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