Yum, tasty mutations...

mutation t@sting

 documentation

Prediction

polymorphism

 Model: simple_aae, prob: 0.999999819523561 (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) chr11:118405068A>GN/A show variant in all transcripts   IGV
HGNC symbol TMEM25
Ensembl transcript ID ENST00000354284
Genbank transcript ID NM_001144037
UniProt peptide Q86YD3
alteration type single base exchange
alteration region CDS
DNA changes c.1025A>G
cDNA.1088A>G
g.3313A>G
AA changes Q342R Score: 43 explain score(s)
position(s) of altered AA
if AA alteration in CDS		 342
frameshift no
known variant Reference ID: rs12289253
databasehomozygous (G/G)heterozygousallele carriers
1000G3008981198
ExAC31251716720292
regulatory features CTCF, Transcription Factor, CCCTC-binding factor
DNase1, Open Chromatin, DNase1 Hypersensitive Site
Gene Associated, Regulatory Feature, Gene associated regulatory feature
H3K36me3, Histone, Histone 3 Lysine 36 Tri-Methylation
phyloP / phastCons
PhyloPPhastCons
(flanking)0.6320.999
0.2880.999
(flanking)2.7761
explain score(s) and/or inspect your position(s) in in UCSC Genome Browser
splice sites alteration within used splice site, likely to disturb normal splicing
effectgDNA positionscoredetection sequence  exon-intron border
Donor lost3314sequence motif lost- wt: CAAG|gtac
 mu: CGAG.gtac
Acc marginally increased3309wt: 0.8363 / mu: 0.9140 (marginal change - not scored)wt: AGCCCGGCGGCCTCCTCACCAGCCAAGGTACTGGGGAAGGG
mu: AGCCCGGCGGCCTCCTCACCAGCCGAGGTACTGGGGAAGGG		 acca|GCCA
Donor marginally decreased3314wt: 0.8633 / mu: 0.7911 (marginal change - not scored)wt: AGCCAAGGTACTGGG
mu: AGCCGAGGTACTGGG		 CCAA|ggta
distance from splice site 3
Kozak consensus sequence altered? N/A
conservation
protein level for non-synonymous changes
speciesmatchgeneaaalignment
Human      342LDPEPGGLLTSQGRRNQDKDA*
mutated  all conserved    342LDPEPGGLLTSRGRRNQDKDA
Ptroglodytes  all conserved  ENSPTRG00000004347  343LDPEPGGLLTSRG
Mmulatta  all conserved  ENSMMUG00000005492  342LDPEPGGLLTSRG
Fcatus  all conserved  ENSFCAG00000011792  342LDPEPGGLLTSRG
Mmusculus  all conserved  ENSMUSG00000002032  342LEAEPGGLLTSRG
Ggallus  no homologue    
Trubripes  all conserved  ENSTRUG00000003875  316AQQNPGGVYAARG
Drerio  no alignment  ENSDARG00000077203  n/a
Dmelanogaster  no homologue    
Celegans  no homologue    
Xtropicalis  no alignment  ENSXETG00000032181  n/a
protein features
start (aa)end (aa)featuredetails 
254366TOPO_DOMCytoplasmic (Potential).lost
length of protein normal
AA sequence altered yes
position of stopcodon in wt / mu CDS 1056 / 1056
position (AA) of stopcodon in wt / mu AA sequence 352 / 352
position of stopcodon in wt / mu cDNA 1119 / 1119
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 64 / 64
chromosome 11
strand 1
last intron/exon boundary 1091
theoretical NMD boundary in CDS 977
length of CDS 1056
coding sequence (CDS) position 1025
cDNA position
(for ins/del: last normal base / first normal base)		 1088
gDNA position
(for ins/del: last normal base / first normal base)		 3313
chromosomal position
(for ins/del: last normal base / first normal base)		 118405068
original gDNA sequence snippet CGGCGGCCTCCTCACCAGCCAAGGTACTGGGGAAGGGGCCT
altered gDNA sequence snippet CGGCGGCCTCCTCACCAGCCGAGGTACTGGGGAAGGGGCCT
original cDNA sequence snippet CGGCGGCCTCCTCACCAGCCAAGGAAGAAGAAATCAGGACA
altered cDNA sequence snippet CGGCGGCCTCCTCACCAGCCGAGGAAGAAGAAATCAGGACA
wildtype AA sequence MALPPGPAAL RHTLLLLPAL LSSGWGELEP QIDGQTWAER ALRENERHAF TCRVAGGPGT
PRLAWYLDGQ LQEASTSRLL SVGGEAFSGG TSTFTVTAHR AQHELNCSLQ DPRSGRSANA
SVILNVQFKP EIAQVGAKYQ EAQGPGLLVV LFALVRANPP ANVTWIDQDG PVTVNTSDFL
VLDAQNYPWL TNHTVQLQLR SLAHNLSVVA TNDVGVTSAS LPAPGLLATR VEVPLLGIVV
AAGLALGTLV GFSTLVACLV CRKEKKTKGP SRHPSLISSD SNNLKLNNVR LPRENMSLPS
NLQLNDLTPD SRAVKPADRQ MAQNNSRPEL LDPEPGGLLT SQGRRNQDKD A*
mutated AA sequence MALPPGPAAL RHTLLLLPAL LSSGWGELEP QIDGQTWAER ALRENERHAF TCRVAGGPGT
PRLAWYLDGQ LQEASTSRLL SVGGEAFSGG TSTFTVTAHR AQHELNCSLQ DPRSGRSANA
SVILNVQFKP EIAQVGAKYQ EAQGPGLLVV LFALVRANPP ANVTWIDQDG PVTVNTSDFL
VLDAQNYPWL TNHTVQLQLR SLAHNLSVVA TNDVGVTSAS LPAPGLLATR VEVPLLGIVV
AAGLALGTLV GFSTLVACLV CRKEKKTKGP SRHPSLISSD SNNLKLNNVR LPRENMSLPS
NLQLNDLTPD SRAVKPADRQ MAQNNSRPEL LDPEPGGLLT SRGRRNQDKD A*
speed 1.01 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