Yum, tasty mutations...

mutation t@sting

 documentation

Prediction

disease causing

 Model: simple_aae, prob: 0.999999999999981 (classification due to ClinVar, real probability is shown anyway)      (explain)
Summary
  • amino acid sequence changed
  • known disease mutation at this position (HGMD CM950468)
  • known disease mutation at this position (HGMD CP995087)
  • known disease mutation: rs13275 (pathogenic)
  • protein features (might be) affected
 hyperlink
analysed issue analysis result
name of alteration no title
alteration (phys. location) chr10:123276891G>CN/A show variant in all transcripts   IGV
HGNC symbol FGFR2
Ensembl transcript ID ENST00000357555
Genbank transcript ID NM_001144915
UniProt peptide P21802
alteration type single base exchange
alteration region CDS
DNA changes c.759C>G
cDNA.1078C>G
g.81082C>G
AA changes C253W Score: 215 explain score(s)
position(s) of altered AA
if AA alteration in CDS		 253
frameshift no
known variant Reference ID: rs121918496
Allele 'C' was neither found in ExAC nor 1000G.
known disease mutation: rs13275 (pathogenic for Crouzon syndrome|FGFR2 related craniosynostosis) dbSNP  NCBI variation viewer
known disease mutation at this position, please check HGMD for details (HGMD ID CM950468)

known disease mutation at this position, please check HGMD for details (HGMD ID CM950468)
known disease mutation at this position, please check HGMD for details (HGMD ID CP995087)

known disease mutation at this position, please check HGMD for details (HGMD ID CM950468)
known disease mutation at this position, please check HGMD for details (HGMD ID CP995087)
known disease mutation at this position, please check HGMD for details (HGMD ID CM950468)

known disease mutation at this position, please check HGMD for details (HGMD ID CM950468)
known disease mutation at this position, please check HGMD for details (HGMD ID CP995087)
known disease mutation at this position, please check HGMD for details (HGMD ID CM950468)
known disease mutation at this position, please check HGMD for details (HGMD ID CP995087)
regulatory features H3K27me3, Histone, Histone 3 Lysine 27 Tri-Methylation
H3K36me3, Histone, Histone 3 Lysine 36 Tri-Methylation
phyloP / phastCons
PhyloPPhastCons
(flanking)1.9671
3.5051
(flanking)6.2681
explain score(s) and/or inspect your position(s) in in UCSC Genome Browser
splice sites no abrogation of potential splice sites
distance from splice site 59
Kozak consensus sequence altered? N/A
conservation
protein level for non-synonymous changes
speciesmatchgeneaaalignment
Human      253NVTFEDAGEYTCLAGNSIGISFHS
mutated  not conserved    253NVTFEDAGEYTWLAGNSIGISFH
Ptroglodytes  all identical  ENSPTRG00000003003  342NVTEADAGEYICKVSNYIGQANQ
Mmulatta  all identical  ENSMMUG00000009594  189TEADAGEYICKVSNYIGQANQ
Fcatus  no alignment  ENSFCAG00000003692  n/a
Mmusculus  all identical  ENSMUSG00000030849  361NVTFEDAGEYTCLAGNSIGISFH
Ggallus  all identical  ENSGALG00000009495  349NVTFEDAGEYTCLAGNSIGISFH
Trubripes  all identical  ENSTRUG00000017610  342NVTEEDAGEYICKVSNYIGEASQ
Drerio  all identical  ENSDARG00000058115  365NVTFEDAGEYTCLAGNSIGISYH
Dmelanogaster  all identical  FBgn0010389  277NVRMEQEGWYTCVESNSLGQSNS
Celegans  all identical  F58A3.2  485NVSLDDQGIYACLSGNSLGMSMA
Xtropicalis  all identical  ENSXETG00000015592  354NVSFEDAGEYTCIAGNSIGISQH
protein features
start (aa)end (aa)featuredetails 
22377TOPO_DOMExtracellular (Potential).lost
length of protein normal
AA sequence altered yes
position of stopcodon in wt / mu CDS 2124 / 2124
position (AA) of stopcodon in wt / mu AA sequence 708 / 708
position of stopcodon in wt / mu cDNA 2443 / 2443
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 320 / 320
chromosome 10
strand -1
last intron/exon boundary 2354
theoretical NMD boundary in CDS 1984
length of CDS 2124
coding sequence (CDS) position 759
cDNA position
(for ins/del: last normal base / first normal base)		 1078
gDNA position
(for ins/del: last normal base / first normal base)		 81082
chromosomal position
(for ins/del: last normal base / first normal base)		 123276891
original gDNA sequence snippet GACGCTGGGGAATATACGTGCTTGGCGGGTAATTCTATTGG
altered gDNA sequence snippet GACGCTGGGGAATATACGTGGTTGGCGGGTAATTCTATTGG
original cDNA sequence snippet GACGCTGGGGAATATACGTGCTTGGCGGGTAATTCTATTGG
altered cDNA sequence snippet GACGCTGGGGAATATACGTGGTTGGCGGGTAATTCTATTGG
wildtype AA sequence MVSWGRFICL VVVTMATLSL ARPSFSLVED TTLEPEDAIS SGDDEDDTDG AEDFVSENSN
NKRAPYWTNT EKMEKRLHAV PAANTVKFRC PAGGNPMPTM RWLKNGKEFK QEHRIGGYKV
RNQHWSLIME SVVPSDKGNY TCVVENEYGS INHTYHLDVV ERSPHRPILQ AGLPANASTV
VGGDVEFVCK VYSDAQPHIQ WIKHVEKNGS KYGPDGLPYL KVLKAAGVNT TDKEIEVLYI
RNVTFEDAGE YTCLAGNSIG ISFHSAWLTV LPAPGREKEI TASPDYLEIA IYCIGVFLIA
CMVVTVILCR MKNTTKKPDF SSQPAVHKLT KRIPLRRQVT VSAESSSSMN SNTPLVRITT
RLSSTADTPM LAGVSEYELP EDPKWEFPRD KLTLGKPLGE GCFGQVVMAE AVGIDKDKPK
EAVTVAVKML KDDATEKDLS DLVSEMEMMK MIGKHKNIIN LLGACTQDGP LYVIVEYASK
GNLREYLRAR RPPGMEYSYD INRVPEEQMT FKDLVSCTYQ LARGMEYLAS QKCIHRDLAA
RNVLVTENNV MKIADFGLAR DINNIDYYKK TTNGRLPVKW MAPEALFDRV YTHQSDVWSF
GVLMWEIFTL GGSPYPGIPV EELFKLLKEG HRMDKPANCT NELYMMMRDC WHAVPSQRPT
FKQLVEDLDR ILTLTTNEEE KKVSGAVDCH KPPCNPSHLP CVLAVDQ*
mutated AA sequence MVSWGRFICL VVVTMATLSL ARPSFSLVED TTLEPEDAIS SGDDEDDTDG AEDFVSENSN
NKRAPYWTNT EKMEKRLHAV PAANTVKFRC PAGGNPMPTM RWLKNGKEFK QEHRIGGYKV
RNQHWSLIME SVVPSDKGNY TCVVENEYGS INHTYHLDVV ERSPHRPILQ AGLPANASTV
VGGDVEFVCK VYSDAQPHIQ WIKHVEKNGS KYGPDGLPYL KVLKAAGVNT TDKEIEVLYI
RNVTFEDAGE YTWLAGNSIG ISFHSAWLTV LPAPGREKEI TASPDYLEIA IYCIGVFLIA
CMVVTVILCR MKNTTKKPDF SSQPAVHKLT KRIPLRRQVT VSAESSSSMN SNTPLVRITT
RLSSTADTPM LAGVSEYELP EDPKWEFPRD KLTLGKPLGE GCFGQVVMAE AVGIDKDKPK
EAVTVAVKML KDDATEKDLS DLVSEMEMMK MIGKHKNIIN LLGACTQDGP LYVIVEYASK
GNLREYLRAR RPPGMEYSYD INRVPEEQMT FKDLVSCTYQ LARGMEYLAS QKCIHRDLAA
RNVLVTENNV MKIADFGLAR DINNIDYYKK TTNGRLPVKW MAPEALFDRV YTHQSDVWSF
GVLMWEIFTL GGSPYPGIPV EELFKLLKEG HRMDKPANCT NELYMMMRDC WHAVPSQRPT
FKQLVEDLDR ILTLTTNEEE KKVSGAVDCH KPPCNPSHLP CVLAVDQ*
speed 1.11 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