Yum, tasty mutations...

mutation t@sting

 documentation

Prediction

disease causing

 Model: simple_aae, prob: 0.999999867962734 (classification due to ClinVar, real probability is shown anyway)      (explain)
Summary
  • amino acid sequence changed
  • known disease mutation at this position (HGMD CM900082)
  • known disease mutation: rs234 (pathogenic)
  • protein features (might be) affected
  • splice site changes
 hyperlink
analysed issue analysis result
name of alteration no title
alteration (phys. location) chr22:43024239A>GN/A show variant in all transcripts   IGV
HGNC symbol CYB5R3
Ensembl transcript ID ENST00000352397
Genbank transcript ID NM_000398
UniProt peptide P00387
alteration type single base exchange
alteration region CDS
DNA changes c.382T>C
cDNA.635T>C
g.21336T>C
AA changes S128P Score: 74 explain score(s)
position(s) of altered AA
if AA alteration in CDS		 128
frameshift no
known variant Reference ID: rs121965006
databasehomozygous (G/G)heterozygousallele carriers
1000G---
ExAC011

known disease mutation: rs234 (pathogenic for Methemoglobinemia type 2) dbSNP  NCBI variation viewer
known disease mutation at this position, please check HGMD for details (HGMD ID CM900082)

known disease mutation at this position, please check HGMD for details (HGMD ID CM900082)
known disease mutation at this position, please check HGMD for details (HGMD ID CM900082)
regulatory features H3K36me3, Histone, Histone 3 Lysine 36 Tri-Methylation
phyloP / phastCons
PhyloPPhastCons
(flanking)1.7451
1.7631
(flanking)3.5781
explain score(s) and/or inspect your position(s) in in UCSC Genome Browser
splice sites
effectgDNA positionscorewt detection sequence exon-intron border
Donor marginally increased21327wt: 0.3044 / mu: 0.3192 (marginal change - not scored)wt: CTGGAGGGAAGATGT
mu: CTGGAGGGAAGATGC		 GGAG|ggaa
Donor gained213310.38mu: AGGGAAGATGCCTCA GGAA|gatg
Donor gained213350.53mu: AAGATGCCTCAGTAC GATG|cctc
distance from splice site 49
Kozak consensus sequence altered? N/A
conservation
protein level for non-synonymous changes
speciesmatchgeneaaalignment
Human      128THPKFPAGGKMSQYLESMQIGDTI
mutated  not conserved    128FPAGGKMPQYLESMQIGDT
Ptroglodytes  all identical  ENSPTRG00000014461  128FPAGGKMSQYLESMQIGDT
Mmulatta  all identical  ENSMMUG00000010198  128FPAGGKMSQYLESMQIGDT
Fcatus  no homologue    
Mmusculus  all identical  ENSMUSG00000018042  105THPKFPAGGKMSQYLENMKIGDT
Ggallus  all identical  ENSGALG00000014122  128FPDGGKMSQYLDNLKIGDT
Trubripes  all identical  ENSTRUG00000013823  126VHPKFPEGGKMSQYLESLKIG
Drerio  all identical  ENSDARG00000005891  125GGKMSQYLESLRIGDT
Dmelanogaster  all conserved  FBgn0036211  142SHPKFPAGGKMTQHLEQLELGDK
Celegans  all identical  T05H4.5  136TNEKFPEGGKMSQHLESLKIGDT
Xtropicalis  all identical  ENSXETG00000016513  130PEGGKMSQYLDSLRIDET
protein features
start (aa)end (aa)featuredetails 
40152DOMAINFAD-binding FR-type.lost
126133HELIXlost
130130MOD_RESPhosphotyrosine (By similarity).might get lost (downstream of altered splice site)
132147NP_BINDFAD (By similarity).might get lost (downstream of altered splice site)
139146STRANDmight get lost (downstream of altered splice site)
148153STRANDmight get lost (downstream of altered splice site)
156159STRANDmight get lost (downstream of altered splice site)
168171STRANDmight get lost (downstream of altered splice site)
171206NP_BINDFAD (By similarity).might get lost (downstream of altered splice site)
173180STRANDmight get lost (downstream of altered splice site)
181183HELIXmight get lost (downstream of altered splice site)
184195HELIXmight get lost (downstream of altered splice site)
187188CONFLICTML -> IV (in Ref. 4; CAA09006/CAA09007).might get lost (downstream of altered splice site)
191192CONFLICTIR -> MS (in Ref. 4; CAA09006/CAA09007).might get lost (downstream of altered splice site)
192192CONFLICTR -> G (in Ref. 11; AAA52306).might get lost (downstream of altered splice site)
203212STRANDmight get lost (downstream of altered splice site)
213215HELIXmight get lost (downstream of altered splice site)
219228HELIXmight get lost (downstream of altered splice site)
230232TURNmight get lost (downstream of altered splice site)
233234CONFLICTFK -> CN (in Ref. 4; CAA09006/CAA09007).might get lost (downstream of altered splice site)
233241STRANDmight get lost (downstream of altered splice site)
247252STRANDmight get lost (downstream of altered splice site)
255261HELIXmight get lost (downstream of altered splice site)
265267HELIXmight get lost (downstream of altered splice site)
270275STRANDmight get lost (downstream of altered splice site)
277282HELIXmight get lost (downstream of altered splice site)
280280CONFLICTI -> N (in Ref. 3; AAL87744).might get lost (downstream of altered splice site)
285291HELIXmight get lost (downstream of altered splice site)
295297HELIXmight get lost (downstream of altered splice site)
298300STRANDmight get lost (downstream of altered splice site)
length of protein normal
AA sequence altered yes
position of stopcodon in wt / mu CDS 906 / 906
position (AA) of stopcodon in wt / mu AA sequence 302 / 302
position of stopcodon in wt / mu cDNA 1159 / 1159
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 254 / 254
chromosome 22
strand -1
last intron/exon boundary 987
theoretical NMD boundary in CDS 683
length of CDS 906
coding sequence (CDS) position 382
cDNA position
(for ins/del: last normal base / first normal base)		 635
gDNA position
(for ins/del: last normal base / first normal base)		 21336
chromosomal position
(for ins/del: last normal base / first normal base)		 43024239
original gDNA sequence snippet TTCCCGCTGGAGGGAAGATGTCTCAGTACCTGGAGAGCATG
altered gDNA sequence snippet TTCCCGCTGGAGGGAAGATGCCTCAGTACCTGGAGAGCATG
original cDNA sequence snippet TTCCCGCTGGAGGGAAGATGTCTCAGTACCTGGAGAGCATG
altered cDNA sequence snippet TTCCCGCTGGAGGGAAGATGCCTCAGTACCTGGAGAGCATG
wildtype AA sequence MGAQLSTLGH MVLFPVWFLY SLLMKLFQRS TPAITLESPD IKYPLRLIDR EIISHDTRRF
RFALPSPQHI LGLPVGQHIY LSARIDGNLV VRPYTPISSD DDKGFVDLVI KVYFKDTHPK
FPAGGKMSQY LESMQIGDTI EFRGPSGLLV YQGKGKFAIR PDKKSNPIIR TVKSVGMIAG
GTGITPMLQV IRAIMKDPDD HTVCHLLFAN QTEKDILLRP ELEELRNKHS ARFKLWYTLD
RAPEAWDYGQ GFVNEEMIRD HLPPPEEEPL VLMCGPPPMI QYACLPNLDH VGHPTERCFV
F*
mutated AA sequence MGAQLSTLGH MVLFPVWFLY SLLMKLFQRS TPAITLESPD IKYPLRLIDR EIISHDTRRF
RFALPSPQHI LGLPVGQHIY LSARIDGNLV VRPYTPISSD DDKGFVDLVI KVYFKDTHPK
FPAGGKMPQY LESMQIGDTI EFRGPSGLLV YQGKGKFAIR PDKKSNPIIR TVKSVGMIAG
GTGITPMLQV IRAIMKDPDD HTVCHLLFAN QTEKDILLRP ELEELRNKHS ARFKLWYTLD
RAPEAWDYGQ GFVNEEMIRD HLPPPEEEPL VLMCGPPPMI QYACLPNLDH VGHPTERCFV
F*
speed 0.90 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