Yum, tasty mutations...

mutation t@sting

 documentation

Prediction

disease causing

 Model: simple_aae, prob: 0.999999808928075 (classification due to ClinVar, real probability is shown anyway)      (explain)
Summary
  • amino acid sequence changed
  • known disease mutation at this position (HGMD CM010307)
  • known disease mutation: rs15991 (pathogenic)
  • protein features (might be) affected
 hyperlink
analysed issue analysis result
name of alteration no title
alteration (phys. location) chr7:31010798T>AN/A show variant in all transcripts   IGV
HGNC symbol GHRHR
Ensembl transcript ID ENST00000409904
Genbank transcript ID N/A
UniProt peptide Q02643
alteration type single base exchange
alteration region CDS
DNA changes c.239T>A
cDNA.497T>A
g.32515T>A
AA changes L80H Score: 99 explain score(s)
position(s) of altered AA
if AA alteration in CDS		 80
frameshift no
known variant Reference ID: rs121918118
databasehomozygous (A/A)heterozygousallele carriers
1000G011
ExAC011

known disease mutation: rs15991 (pathogenic for Isolated growth hormone deficiency, type 4) dbSNP  NCBI variation viewer
known disease mutation at this position, please check HGMD for details (HGMD ID CM010307)

known disease mutation at this position, please check HGMD for details (HGMD ID CM010307)
known disease mutation at this position, please check HGMD for details (HGMD ID CM010307)
regulatory features H3K27me3, Histone, Histone 3 Lysine 27 Tri-Methylation
H3K36me3, Histone, Histone 3 Lysine 36 Tri-Methylation
phyloP / phastCons
PhyloPPhastCons
(flanking)5.0261
4.1660.998
(flanking)0.9660.574
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 increased32518wt: 0.5644 / mu: 0.5843 (marginal change - not scored)wt: CATCTCTATTGTAGCCCTCTTCGTGGCCATCACCATCCTGG
mu: CATCTCTATTGTAGCCCACTTCGTGGCCATCACCATCCTGG		 tctt|CGTG
distance from splice site 34
Kozak consensus sequence altered? N/A
conservation
protein level for non-synonymous changes
speciesmatchgeneaaalignment
Human      80YTVGHSISIVALFVAITILVALRR
mutated  not conserved    80YTVGHSISIVAHFVAITILVALR
Ptroglodytes  all identical  ENSPTRG00000019048  144YTMGHSISIVALFVAIT
Mmulatta  all identical  ENSMMUG00000011764  80YTMGHSISIVALFVAITILVALR
Fcatus  all identical  ENSFCAG00000002543  142YTLGHSISAVTLFVAITILLALR
Mmusculus  all identical  ENSMUSG00000004654  144YTTGHSISIVALCVAIA
Ggallus  all identical  ENSGALG00000005212  141YTVGYSLSITSLIIAVT
Trubripes  all identical  ENSTRUG00000017747  147YTIGYSVSLVLLAVAVS
Drerio  no homologue    
Dmelanogaster  no homologue    
Celegans  no homologue    
Xtropicalis  no homologue    
protein features
start (aa)end (aa)featuredetails 
23132TOPO_DOMExtracellular (Potential).lost
8084HELIXlost
length of protein normal
AA sequence altered yes
position of stopcodon in wt / mu CDS 1080 / 1080
position (AA) of stopcodon in wt / mu AA sequence 360 / 360
position of stopcodon in wt / mu cDNA 1338 / 1338
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 259 / 259
chromosome 7
strand 1
last intron/exon boundary 1213
theoretical NMD boundary in CDS 904
length of CDS 1080
coding sequence (CDS) position 239
cDNA position
(for ins/del: last normal base / first normal base)		 497
gDNA position
(for ins/del: last normal base / first normal base)		 32515
chromosomal position
(for ins/del: last normal base / first normal base)		 31010798
original gDNA sequence snippet TAGCATCTCTATTGTAGCCCTCTTCGTGGCCATCACCATCC
altered gDNA sequence snippet TAGCATCTCTATTGTAGCCCACTTCGTGGCCATCACCATCC
original cDNA sequence snippet TAGCATCTCTATTGTAGCCCTCTTCGTGGCCATCACCATCC
altered cDNA sequence snippet TAGCATCTCTATTGTAGCCCACTTCGTGGCCATCACCATCC
wildtype AA sequence MVPGTPSPLL GRGKELWLES LACLPGAVKR DCTITGWSEP FPPYPVACPV PLELLAEEES
YFSTVKIIYT VGHSISIVAL FVAITILVAL RRLHCPRNYV HTQLFTTFIL KAGAVFLKDA
ALFHSDDTDH CSFSTVLCKV SVAASHFATM TNFSWLLAEA VYLNCLLAST SPSSRRAFWW
LVLAGWGLPV LFTGTWVSCK LAFEDIACWD LDDTSPYWWI IKGPIVLSVG VNFGLFLNII
RILVRKLEPA QGSLHTQSQY WRLSKSTLFL IPLFGIHYII FNFLPDNAGL GIRLPLELGL
GSFQGFIVAI LYCFLNQEVR TEISRKWHGH DPELLPAWRT RAKWTTPSRS AAKVLTSMC*
mutated AA sequence MVPGTPSPLL GRGKELWLES LACLPGAVKR DCTITGWSEP FPPYPVACPV PLELLAEEES
YFSTVKIIYT VGHSISIVAH FVAITILVAL RRLHCPRNYV HTQLFTTFIL KAGAVFLKDA
ALFHSDDTDH CSFSTVLCKV SVAASHFATM TNFSWLLAEA VYLNCLLAST SPSSRRAFWW
LVLAGWGLPV LFTGTWVSCK LAFEDIACWD LDDTSPYWWI IKGPIVLSVG VNFGLFLNII
RILVRKLEPA QGSLHTQSQY WRLSKSTLFL IPLFGIHYII FNFLPDNAGL GIRLPLELGL
GSFQGFIVAI LYCFLNQEVR TEISRKWHGH DPELLPAWRT RAKWTTPSRS AAKVLTSMC*
speed 0.79 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