Yum, tasty mutations...

mutation t@sting

 documentation

Prediction

disease causing

 Model: simple_aae, prob: 0.999999997355949 (classification due to ClinVar, real probability is shown anyway)      (explain)
Summary
  • amino acid sequence changed
  • known disease mutation at this position (HGMD CI991949)
  • known disease mutation at this position (HGMD CM960002)
  • known disease mutation: rs21024 (pathogenic)
  • protein features (might be) affected
  • splice site changes
 hyperlink
analysed issue analysis result
name of alteration no title
alteration (phys. location) chr17:7125522C>TN/A show variant in all transcripts   IGV
HGNC symbol ACADVL
Ensembl transcript ID ENST00000350303
Genbank transcript ID NM_001033859
UniProt peptide P49748
alteration type single base exchange
alteration region CDS
DNA changes c.713C>T
cDNA.835C>T
g.5079C>T
AA changes T238M Score: 81 explain score(s)
position(s) of altered AA
if AA alteration in CDS		 238
frameshift no
known variant Reference ID: rs113994168
databasehomozygous (T/T)heterozygousallele carriers
1000G---
ExAC022

known disease mutation: rs21024 (pathogenic for Very long chain acyl-CoA dehydrogenase deficiency|not provided) dbSNP  NCBI variation viewer
known disease mutation at this position, please check HGMD for details (HGMD ID CM960002)

known disease mutation at this position, please check HGMD for details (HGMD ID CM960002)
known disease mutation at this position, please check HGMD for details (HGMD ID CI991949)

known disease mutation at this position, please check HGMD for details (HGMD ID CM960002)
known disease mutation at this position, please check HGMD for details (HGMD ID CI991949)
known disease mutation at this position, please check HGMD for details (HGMD ID CI991949)

known disease mutation at this position, please check HGMD for details (HGMD ID CM960002)
known disease mutation at this position, please check HGMD for details (HGMD ID CI991949)
known disease mutation at this position, please check HGMD for details (HGMD ID CI991949)
known disease mutation at this position, please check HGMD for details (HGMD ID CM960002)
regulatory features PolII, Polymerase, RNA Polymerase II
H3K36me3, Histone, Histone 3 Lysine 36 Tri-Methylation
H4K20me1, Histone, Histone 4 Lysine 20 mono-methylation
phyloP / phastCons
PhyloPPhastCons
(flanking)4.4691
3.8170.999
(flanking)-1.1090.529
explain score(s) and/or inspect your position(s) in in UCSC Genome Browser
splice sites
effectgDNA positionscorewt detection sequence exon-intron border
Acc increased5090wt: 0.60 / mu: 0.74wt: ACATCTTCACGGTCTTTGCCAAGACACCAGTTACAGATCCA
mu: ACATCTTCATGGTCTTTGCCAAGACACCAGTTACAGATCCA		 gcca|AGAC
Acc increased5088wt: 0.43 / mu: 0.52wt: AGACATCTTCACGGTCTTTGCCAAGACACCAGTTACAGATC
mu: AGACATCTTCATGGTCTTTGCCAAGACACCAGTTACAGATC		 ttgc|CAAG
distance from splice site 27
Kozak consensus sequence altered? N/A
conservation
protein level for non-synonymous changes
speciesmatchgeneaaalignment
Human      238WISNGGLADIFTVFAKTPVTDPAT
mutated  not conserved    238WISNGGLADIFMVF
Ptroglodytes  all identical  ENSPTRG00000008664  283WISNGGLADIFTVF
Mmulatta  all identical  ENSMMUG00000010538  260WIRQSASHFSPYPPPNSRPRCSPNGGLADIFTVFAKTPVTDPA
Fcatus  no homologue    
Mmusculus  all identical  ENSMUSG00000018574  261WISNGGLADIFTVFAKTPIKDAA
Ggallus  no homologue    
Trubripes  all identical  ENSTRUG00000013710  262WISNGGLAEIFTVFAKTPMKDPK
Drerio  all identical  ENSDARG00000016687  265WISNGGTAEIFTVFAKTPVKDEK
Dmelanogaster  all identical  FBgn0034432  233WISNGGIAEIMTVFAQTEQVDPK
Celegans  all identical  E04F6.5  229WISNGGFADVFTVFAQTPVKQ-A
Xtropicalis  all identical  ENSXETG00000031271  58WISNGGIADVFTVF
protein features
start (aa)end (aa)featuredetails 
41482REGIONCatalytic.lost
238251STRANDlost
249251NP_BINDFAD.might get lost (downstream of altered splice site)
252255TURNmight get lost (downstream of altered splice site)
257268STRANDmight get lost (downstream of altered splice site)
270272TURNmight get lost (downstream of altered splice site)
275285STRANDmight get lost (downstream of altered splice site)
276276MOD_RESN6-acetyllysine (By similarity).might get lost (downstream of altered splice site)
286288HELIXmight get lost (downstream of altered splice site)
289293STRANDmight get lost (downstream of altered splice site)
307318STRANDmight get lost (downstream of altered splice site)
319321HELIXmight get lost (downstream of altered splice site)
322325STRANDmight get lost (downstream of altered splice site)
329365HELIXmight get lost (downstream of altered splice site)
331331CROSSLNKGlycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin) (By similarity).might get lost (downstream of altered splice site)
331331MOD_RESN6-acetyllysine.might get lost (downstream of altered splice site)
338341REGIONSubstrate binding (By similarity).might get lost (downstream of altered splice site)
366366BINDINGFAD (By similarity).might get lost (downstream of altered splice site)
373375HELIXmight get lost (downstream of altered splice site)
377405HELIXmight get lost (downstream of altered splice site)
412437HELIXmight get lost (downstream of altered splice site)
435439NP_BINDFAD (By similarity).might get lost (downstream of altered splice site)
439442HELIXmight get lost (downstream of altered splice site)
448455HELIXmight get lost (downstream of altered splice site)
456459HELIXmight get lost (downstream of altered splice site)
461463STRANDmight get lost (downstream of altered splice site)
462462ACT_SITEProton acceptor.might get lost (downstream of altered splice site)
462463REGIONSubstrate binding.might get lost (downstream of altered splice site)
463463BINDINGSubstrate; via amide nitrogen (By similarity).might get lost (downstream of altered splice site)
464466NP_BINDFAD.might get lost (downstream of altered splice site)
465485HELIXmight get lost (downstream of altered splice site)
483516REGIONMembrane-anchoring (Probable).might get lost (downstream of altered splice site)
486488HELIXmight get lost (downstream of altered splice site)
522524TURNmight get lost (downstream of altered splice site)
527529HELIXmight get lost (downstream of altered splice site)
530554HELIXmight get lost (downstream of altered splice site)
555560HELIXmight get lost (downstream of altered splice site)
562591HELIXmight get lost (downstream of altered splice site)
596622HELIXmight get lost (downstream of altered splice site)
627644HELIXmight get lost (downstream of altered splice site)
length of protein normal
AA sequence altered yes
position of stopcodon in wt / mu CDS 1902 / 1902
position (AA) of stopcodon in wt / mu AA sequence 634 / 634
position of stopcodon in wt / mu cDNA 2024 / 2024
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 123 / 123
chromosome 17
strand 1
last intron/exon boundary 1884
theoretical NMD boundary in CDS 1711
length of CDS 1902
coding sequence (CDS) position 713
cDNA position
(for ins/del: last normal base / first normal base)		 835
gDNA position
(for ins/del: last normal base / first normal base)		 5079
chromosomal position
(for ins/del: last normal base / first normal base)		 7125522
original gDNA sequence snippet GGGCCTAGCAGACATCTTCACGGTCTTTGCCAAGACACCAG
altered gDNA sequence snippet GGGCCTAGCAGACATCTTCATGGTCTTTGCCAAGACACCAG
original cDNA sequence snippet GGGCCTAGCAGACATCTTCACGGTCTTTGCCAAGACACCAG
altered cDNA sequence snippet GGGCCTAGCAGACATCTTCATGGTCTTTGCCAAGACACCAG
wildtype AA sequence MQAARMAASL GRQLLRLGGG SSRLTALLGQ PRPGPARRPY AGGAAQESKS FAVGMFKGQL
TTDQVFPYPS VLNEEQTQFL KELVEPVSRF FEEVNDPAKN DALEMVEETT WQGLKELGAF
GLQVPSELGG VGLCNTQYAR LVEIVGMHDL GVGITLGAHQ SIGFKGILLF GTKAQKEKYL
PKLASGETVA AFCLTEPSSG SDAASIRTSA VPSPCGKYYT LNGSKLWISN GGLADIFTVF
AKTPVTDPAT GAVKEKITAF VVERGFGGIT HGPPEKKMGI KASNTAEVFF DGVRVPSENV
LGEVGSGFKV AMHILNNGRF GMAAALAGTM RGIIAKAVDH ATNRTQFGEK IHNFGLIQEK
LARMVMLQYV TESMAYMVSA NMDQGATDFQ IEAAISKIFG SEAAWKVTDE CIQIMGGMGF
MKEPGVERVL RDLRIFRIFE GTNDILRLFV ALQGCMDKGK ELSGLGSALK NPFGNAGLLL
GEAGKQLRRR AGLGSGLSLS GLVHPELSRS GELAVRALEQ FATVVEAKLI KHKKGIVNEQ
FLLQRLADGA IDLYAMVVVL SRASRSLSEG HPTAQHEKML CDTWCIEAAA RIREGMAALQ
SDPWQQELYR NFKSISKALV ERGGVVTSNP LGF*
mutated AA sequence MQAARMAASL GRQLLRLGGG SSRLTALLGQ PRPGPARRPY AGGAAQESKS FAVGMFKGQL
TTDQVFPYPS VLNEEQTQFL KELVEPVSRF FEEVNDPAKN DALEMVEETT WQGLKELGAF
GLQVPSELGG VGLCNTQYAR LVEIVGMHDL GVGITLGAHQ SIGFKGILLF GTKAQKEKYL
PKLASGETVA AFCLTEPSSG SDAASIRTSA VPSPCGKYYT LNGSKLWISN GGLADIFMVF
AKTPVTDPAT GAVKEKITAF VVERGFGGIT HGPPEKKMGI KASNTAEVFF DGVRVPSENV
LGEVGSGFKV AMHILNNGRF GMAAALAGTM RGIIAKAVDH ATNRTQFGEK IHNFGLIQEK
LARMVMLQYV TESMAYMVSA NMDQGATDFQ IEAAISKIFG SEAAWKVTDE CIQIMGGMGF
MKEPGVERVL RDLRIFRIFE GTNDILRLFV ALQGCMDKGK ELSGLGSALK NPFGNAGLLL
GEAGKQLRRR AGLGSGLSLS GLVHPELSRS GELAVRALEQ FATVVEAKLI KHKKGIVNEQ
FLLQRLADGA IDLYAMVVVL SRASRSLSEG HPTAQHEKML CDTWCIEAAA RIREGMAALQ
SDPWQQELYR NFKSISKALV ERGGVVTSNP LGF*
speed 0.54 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