Yum, tasty mutations...

mutation t@sting

 documentation

Prediction

disease causing

 Model: simple_aae, prob: 0.999999958960215 (classification due to ClinVar, real probability is shown anyway)      (explain)
Summary
  • amino acid sequence changed
  • known disease mutation at this position (HGMD CM090396)
  • known disease mutation: rs8406 (pathogenic)
  • protein features (might be) affected
  • splice site changes
 hyperlink
analysed issue analysis result
name of alteration no title
alteration (phys. location) chr2:74605195C>TN/A show variant in all transcripts   IGV
HGNC symbol DCTN1
Ensembl transcript ID ENST00000409868
Genbank transcript ID N/A
UniProt peptide Q14203
alteration type single base exchange
alteration region CDS
DNA changes c.160G>A
cDNA.250G>A
g.14020G>A
AA changes G54R Score: 125 explain score(s)
position(s) of altered AA
if AA alteration in CDS		 54
frameshift no
known variant Reference ID: rs72466485
Allele 'T' was neither found in ExAC nor 1000G.
known disease mutation: rs8406 (pathogenic for Perry syndrome) dbSNP  NCBI variation viewer
known disease mutation at this position, please check HGMD for details (HGMD ID CM090396)

known disease mutation at this position, please check HGMD for details (HGMD ID CM090396)
known disease mutation at this position, please check HGMD for details (HGMD ID CM090396)
regulatory features H3K36me3, Histone, Histone 3 Lysine 36 Tri-Methylation
H3K9me1, Histone, Histone 3 Lysine 9 mono-methylation
H4K20me1, Histone, Histone 4 Lysine 20 mono-methylation
phyloP / phastCons
PhyloPPhastCons
(flanking)5.6981
3.0591
(flanking)0.541
explain score(s) and/or inspect your position(s) in in UCSC Genome Browser
splice sites
effectgDNA positionscorewt detection sequence exon-intron border
Donor increased14018wt: 0.78 / mu: 0.92wt: AAATGATGGAACTGT
mu: AAATGATAGAACTGT		 ATGA|tgga
Donor gained140160.49mu: AAAAATGATAGAACT AAAT|gata
distance from splice site 69
Kozak consensus sequence altered? N/A
conservation
protein level for non-synonymous changes
speciesmatchgeneaaalignment
Human      54VILDEAKGKNDGTVQGRKYFTCDE
mutated  not conserved    54VILDEAKGKNDRTVQGRK
Ptroglodytes  all identical  ENSPTRG00000030450  71VILDEAKGKNDGTVQGRK
Mmulatta  all identical  ENSMMUG00000015610  54VILDEAKGKNDGTVQGRK
Fcatus  not conserved  ENSFCAG00000008616  1138FLRAKEEQQDDTVYMGKVTFSCA
Mmusculus  all identical  ENSMUSG00000031865  71VILDEAKGKNDGTVQGRK
Ggallus  no homologue    
Trubripes  all identical  ENSTRUG00000017631  70VILDEAKGKNDGTV-GKR
Drerio  all identical  ENSDARG00000019743  54VILDEAKGKNDGTVQGKR
Dmelanogaster  all identical  FBgn0001108  50VVLDEPKGKNSGSIKGQQYFQCD
Celegans  no alignment  ZK593.5  n/a
Xtropicalis  all identical  ENSXETG00000011761  78VILDDSKGKNDGTVQGRR
protein features
start (aa)end (aa)featuredetails 
4890DOMAINCAP-Gly.lost
5155STRANDlost
5765STRANDmight get lost (downstream of altered splice site)
6773STRANDmight get lost (downstream of altered splice site)
6868MUTAGENK->A: Abolishes interaction with CLIP1.might get lost (downstream of altered splice site)
7678STRANDmight get lost (downstream of altered splice site)
8385TURNmight get lost (downstream of altered splice site)
8689STRANDmight get lost (downstream of altered splice site)
9090MUTAGENR->E: Abolishes interaction with CLIP1.might get lost (downstream of altered splice site)
9193HELIXmight get lost (downstream of altered splice site)
9496STRANDmight get lost (downstream of altered splice site)
105105MOD_RESPhosphoserine.might get lost (downstream of altered splice site)
108108MOD_RESPhosphothreonine.might get lost (downstream of altered splice site)
132138CONFLICTMissing (in Ref. 2; no nucleotide entry and 4; CAA67333).might get lost (downstream of altered splice site)
164191COMPBIASSer-rich.might get lost (downstream of altered splice site)
213547COILEDPotential.might get lost (downstream of altered splice site)
230230MOD_RESN6-acetyllysine.might get lost (downstream of altered splice site)
541541MOD_RESPhosphoserine (By similarity).might get lost (downstream of altered splice site)
712712CONFLICTD -> V (in Ref. 2; no nucleotide entry and 4; CAA67333).might get lost (downstream of altered splice site)
9431049COILEDPotential.might get lost (downstream of altered splice site)
10811081CONFLICTV -> M (in Ref. 6; AAP35404).might get lost (downstream of altered splice site)
11821211COILEDPotential.might get lost (downstream of altered splice site)
length of protein normal
AA sequence altered yes
position of stopcodon in wt / mu CDS 3771 / 3771
position (AA) of stopcodon in wt / mu AA sequence 1257 / 1257
position of stopcodon in wt / mu cDNA 3861 / 3861
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 91 / 91
chromosome 2
strand -1
last intron/exon boundary 3724
theoretical NMD boundary in CDS 3583
length of CDS 3771
coding sequence (CDS) position 160
cDNA position
(for ins/del: last normal base / first normal base)		 250
gDNA position
(for ins/del: last normal base / first normal base)		 14020
chromosomal position
(for ins/del: last normal base / first normal base)		 74605195
original gDNA sequence snippet AAGCAAAGGGCAAAAATGATGGAACTGTTCAAGGCAGGAAG
altered gDNA sequence snippet AAGCAAAGGGCAAAAATGATAGAACTGTTCAAGGCAGGAAG
original cDNA sequence snippet AAGCAAAGGGCAAAAATGATGGAACTGTTCAAGGCAGGAAG
altered cDNA sequence snippet AAGCAAAGGGCAAAAATGATAGAACTGTTCAAGGCAGGAAG
wildtype AA sequence MSAEASARPL RVGSRVEVIG KGHRGTVAYV GATLFATGKW VGVILDEAKG KNDGTVQGRK
YFTCDEGHGI FVRQSQIQVF EDGADTTSPE TPDSSASKVL KREGTDTTAK TSKLRGLKPK
KAPTARKTTT RRPKPTRPAS TGVAGASSSL GPSGSASAGE LSSSEPSTPA QTPLAAPIIP
TPVLTSPGAV PPLPSPSKEE EGLRAQVRDL EEKLETLRLK RAEDKAKLKE LEKHKIQLEQ
VQEWKSKMQE QQADLQRRLK EARKEAKEAL EAKERYMEEM ADTADAIEMA TLDKEMAEER
AESLQQEVEA LKERVDELTT DLEILKAEIE EKGSDGAASS YQLKQLEEQN ARLKDALVRM
RDLSSSEKQE HVKLQKLMEK KNQELEVVRQ QRERLQEELS QAESTIDELK EQVDAALGAE
EMVEMLTDRN LNLEEKVREL RETVGDLEAM NEMNDELQEN ARETELELRE QLDMAGARVR
EAQKRVEAAQ ETVADYQQTI KKYRQLTAHL QDVNRELTNQ QEASVERQQQ PPPETFDFKI
KFAETKAHAK AIEMELRQME VAQANRHMSL LTAFMPDSFL RPGGDHDCVL VLLLMPRLIC
KAELIRKQAQ EKFELSENCS ERPGLRGAAG EQLSFAAGLV YSLSLLQATL HRYEHALSQC
SVDVYKKVGS LYPEMSAHER SLDFLIELLH KDQLDETVNV EPLTKAIKYY QHLYSIHLAE
QPEDCTMQLA DHIKFTQSAL DCMSVEVGRL RAFLQGGQEA TDIALLLRDL ETSCSDIRQF
CKKIRRRMPG TDAPGIPAAL AFGPQVSDTL LDCRKHLTWV VAVLQEVAAA AAQLIAPLAE
NEGLLVAALE ELAFKASEQI YGTPSSSPYE CLRQSCNILI STMNKLATAM QEGEYDAERP
PSKPPPVELR AAALRAEITD AEGLGLKLED RETVIKELKK SLKIKGEELS EANVRLSLLE
KKLDSAAKDA DERIEKVQTR LEETQALLRK KEKEFEETMD ALQADIDQLE AEKAELKQRL
NSQSKRTIEG LRGPPPSGIA TLVSGIAGGA IPGQAPGSVP GPGLVKDSPL LLQQISAMRL
HISQLQHENS ILKGAQMKAS LASLPPLHVA KLSHEGPGSE LPAGALYRKT SQLLETLNQL
STHTHVVDIT RTSPAAKSPS AQLMEQVAQL KSLSDTVEKL KDEVLKETVS QRPGATVPTD
FATFPSSAFL RAKEEQQDDT VYMGKVTFSC AAGFGQRHRL VLTQEQLHQL HSRLIS*
mutated AA sequence MSAEASARPL RVGSRVEVIG KGHRGTVAYV GATLFATGKW VGVILDEAKG KNDRTVQGRK
YFTCDEGHGI FVRQSQIQVF EDGADTTSPE TPDSSASKVL KREGTDTTAK TSKLRGLKPK
KAPTARKTTT RRPKPTRPAS TGVAGASSSL GPSGSASAGE LSSSEPSTPA QTPLAAPIIP
TPVLTSPGAV PPLPSPSKEE EGLRAQVRDL EEKLETLRLK RAEDKAKLKE LEKHKIQLEQ
VQEWKSKMQE QQADLQRRLK EARKEAKEAL EAKERYMEEM ADTADAIEMA TLDKEMAEER
AESLQQEVEA LKERVDELTT DLEILKAEIE EKGSDGAASS YQLKQLEEQN ARLKDALVRM
RDLSSSEKQE HVKLQKLMEK KNQELEVVRQ QRERLQEELS QAESTIDELK EQVDAALGAE
EMVEMLTDRN LNLEEKVREL RETVGDLEAM NEMNDELQEN ARETELELRE QLDMAGARVR
EAQKRVEAAQ ETVADYQQTI KKYRQLTAHL QDVNRELTNQ QEASVERQQQ PPPETFDFKI
KFAETKAHAK AIEMELRQME VAQANRHMSL LTAFMPDSFL RPGGDHDCVL VLLLMPRLIC
KAELIRKQAQ EKFELSENCS ERPGLRGAAG EQLSFAAGLV YSLSLLQATL HRYEHALSQC
SVDVYKKVGS LYPEMSAHER SLDFLIELLH KDQLDETVNV EPLTKAIKYY QHLYSIHLAE
QPEDCTMQLA DHIKFTQSAL DCMSVEVGRL RAFLQGGQEA TDIALLLRDL ETSCSDIRQF
CKKIRRRMPG TDAPGIPAAL AFGPQVSDTL LDCRKHLTWV VAVLQEVAAA AAQLIAPLAE
NEGLLVAALE ELAFKASEQI YGTPSSSPYE CLRQSCNILI STMNKLATAM QEGEYDAERP
PSKPPPVELR AAALRAEITD AEGLGLKLED RETVIKELKK SLKIKGEELS EANVRLSLLE
KKLDSAAKDA DERIEKVQTR LEETQALLRK KEKEFEETMD ALQADIDQLE AEKAELKQRL
NSQSKRTIEG LRGPPPSGIA TLVSGIAGGA IPGQAPGSVP GPGLVKDSPL LLQQISAMRL
HISQLQHENS ILKGAQMKAS LASLPPLHVA KLSHEGPGSE LPAGALYRKT SQLLETLNQL
STHTHVVDIT RTSPAAKSPS AQLMEQVAQL KSLSDTVEKL KDEVLKETVS QRPGATVPTD
FATFPSSAFL RAKEEQQDDT VYMGKVTFSC AAGFGQRHRL VLTQEQLHQL HSRLIS*
speed 1.06 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