Yum, tasty mutations...

mutation t@sting

 documentation

Prediction

disease causing

 Model: simple_aae, prob: 0.999999999813222 (classification due to ClinVar, real probability is shown anyway)      (explain)
Summary
  • amino acid sequence changed
  • known disease mutation at this position (HGMD CM920308)
  • known disease mutation: rs16136 (pathogenic)
  • protein features (might be) affected
 hyperlink
analysed issue analysis result
name of alteration no title
alteration (phys. location) chr7:44186186C>GN/A show variant in all transcripts   IGV
HGNC symbol GCK
Ensembl transcript ID ENST00000403799
Genbank transcript ID NM_000162
UniProt peptide P35557
alteration type single base exchange
alteration region CDS
DNA changes c.895G>C
cDNA.1365G>C
g.51584G>C
AA changes G299R Score: 125 explain score(s)
position(s) of altered AA
if AA alteration in CDS		 299
frameshift no
known variant Reference ID: rs104894009
Allele 'G' was neither found in ExAC nor 1000G.
known disease mutation: rs16136 (pathogenic for Maturity-onset diabetes of the young, type 2|not provided) dbSNP  NCBI variation viewer
known disease mutation at this position, please check HGMD for details (HGMD ID CM920308)

known disease mutation at this position, please check HGMD for details (HGMD ID CM920308)
known disease mutation at this position, please check HGMD for details (HGMD ID CM920308)
regulatory features Cmyc, Transcription Factor, Cmyc TF binding
DNase1, Open Chromatin, DNase1 Hypersensitive Site
E2F6, Transcription Factor, E2F6 Transcription Factor Binding
H3K27me3, Histone, Histone 3 Lysine 27 Tri-Methylation
H3K4me1, Histone, Histone 3 Lysine 4 Mono-Methylation
H3K4me2, Histone, Histone 3 Lysine 4 Di-Methylation
Max, Transcription Factor, Max TF binding
PolII, Polymerase, RNA Polymerase II
Promoter Associated, Regulatory Feature, Promoter like regulatory feature
USF1, Transcription Factor, USF1 Transcription Factor Binding
phyloP / phastCons
PhyloPPhastCons
(flanking)5.5581
5.6391
(flanking)5.6391
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 32
Kozak consensus sequence altered? N/A
conservation
protein level for non-synonymous changes
speciesmatchgeneaaalignment
Human      299LYEKLIGGKYMGELVRLVLLRLVD
mutated  not conserved    299LYEKLIGGKYMRELVRLVLLRLV
Ptroglodytes  all identical  ENSPTRG00000019140  298LYEKLIGGKYMGELVRLVLLRLV
Mmulatta  all identical  ENSMMUG00000002427  300LYEKLIGGKYMGELVRLVLLRLV
Fcatus  all identical  ENSFCAG00000014361  284LYEKLIGGKYMGELVRLVLLKLV
Mmusculus  all identical  ENSMUSG00000041798  299LYEKIIGGKYMGELVRLVLLKLV
Ggallus  no homologue    
Trubripes  no homologue    
Drerio  not conserved  ENSDARG00000068006  309LYLKCCGKKRSKINVLLIFKRTT
Dmelanogaster  all identical  FBgn0001186  374TFEKMISGMYMGEL
Celegans  all identical  F14B4.2  320LYEKMISGMYMGECARV
Xtropicalis  all identical  ENSXETG00000019003  299LYEKMIGGKYMGELVRL
protein features
start (aa)end (aa)featuredetails 
295311HELIXlost
length of protein normal
AA sequence altered yes
position of stopcodon in wt / mu CDS 1398 / 1398
position (AA) of stopcodon in wt / mu AA sequence 466 / 466
position of stopcodon in wt / mu cDNA 1868 / 1868
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 471 / 471
chromosome 7
strand -1
last intron/exon boundary 1724
theoretical NMD boundary in CDS 1203
length of CDS 1398
coding sequence (CDS) position 895
cDNA position
(for ins/del: last normal base / first normal base)		 1365
gDNA position
(for ins/del: last normal base / first normal base)		 51584
chromosomal position
(for ins/del: last normal base / first normal base)		 44186186
original gDNA sequence snippet TCATAGGTGGCAAGTACATGGGCGAGCTGGTGCGGCTTGTG
altered gDNA sequence snippet TCATAGGTGGCAAGTACATGCGCGAGCTGGTGCGGCTTGTG
original cDNA sequence snippet TCATAGGTGGCAAGTACATGGGCGAGCTGGTGCGGCTTGTG
altered cDNA sequence snippet TCATAGGTGGCAAGTACATGCGCGAGCTGGTGCGGCTTGTG
wildtype AA sequence MLDDRARMEA AKKEKVEQIL AEFQLQEEDL KKVMRRMQKE MDRGLRLETH EEASVKMLPT
YVRSTPEGSE VGDFLSLDLG GTNFRVMLVK VGEGEEGQWS VKTKHQMYSI PEDAMTGTAE
MLFDYISECI SDFLDKHQMK HKKLPLGFTF SFPVRHEDID KGILLNWTKG FKASGAEGNN
VVGLLRDAIK RRGDFEMDVV AMVNDTVATM ISCYYEDHQC EVGMIVGTGC NACYMEEMQN
VELVEGDEGR MCVNTEWGAF GDSGELDEFL LEYDRLVDES SANPGQQLYE KLIGGKYMGE
LVRLVLLRLV DENLLFHGEA SEQLRTRGAF ETRFVSQVES DTGDRKQIYN ILSTLGLRPS
TTDCDIVRRA CESVSTRAAH MCSAGLAGVI NRMRESRSED VMRITVGVDG SVYKLHPSFK
ERFHASVRRL TPSCEITFIE SEEGSGRGAA LVSAVACKKA CMLGQ*
mutated AA sequence MLDDRARMEA AKKEKVEQIL AEFQLQEEDL KKVMRRMQKE MDRGLRLETH EEASVKMLPT
YVRSTPEGSE VGDFLSLDLG GTNFRVMLVK VGEGEEGQWS VKTKHQMYSI PEDAMTGTAE
MLFDYISECI SDFLDKHQMK HKKLPLGFTF SFPVRHEDID KGILLNWTKG FKASGAEGNN
VVGLLRDAIK RRGDFEMDVV AMVNDTVATM ISCYYEDHQC EVGMIVGTGC NACYMEEMQN
VELVEGDEGR MCVNTEWGAF GDSGELDEFL LEYDRLVDES SANPGQQLYE KLIGGKYMRE
LVRLVLLRLV DENLLFHGEA SEQLRTRGAF ETRFVSQVES DTGDRKQIYN ILSTLGLRPS
TTDCDIVRRA CESVSTRAAH MCSAGLAGVI NRMRESRSED VMRITVGVDG SVYKLHPSFK
ERFHASVRRL TPSCEITFIE SEEGSGRGAA LVSAVACKKA CMLGQ*
speed 0.61 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