mutation t@sting

documentation

Prediction

disease causing

Model: without_aae, prob: 1 (classification due to ClinVar, real probability is shown anyway) (explain)

Summary

known disease mutation at this position (HGMD CM012892)
known disease mutation: rs5799 (pathogenic)
splice site changes

hyperlink

analysed issue

analysis result

name of alteration

no title

alteration (phys. location)

chr9:136313839T>GN/A show variant in all transcripts IGV

HGNC symbol

ADAMTS13

Ensembl transcript ID

ENST00000536611

Genbank transcript ID

N/A

UniProt peptide

N/A

alteration type

single base exchange

alteration region

3'UTR

DNA changes

cDNA.2035T>G
g.34362T>G

AA changes

N/A

position(s) of altered AA
if AA alteration in CDS

N/A

frameshift

N/A

known variant

Reference ID: rs121908468
Allele 'G' was neither found in ExAC nor 1000G.
known disease mutation: rs5799 (pathogenic for Upshaw-Schulman syndrome) dbSNP NCBI variation viewer
known disease mutation at this position, please check HGMD for details (HGMD ID CM012892)

known disease mutation at this position, please check HGMD for details (HGMD ID CM012892)
known disease mutation at this position, please check HGMD for details (HGMD ID CM012892)

regulatory features

H3K4me2, Histone, Histone 3 Lysine 4 Di-Methylation
H3K27me3, Histone, Histone 3 Lysine 27 Tri-Methylation
PolII, Polymerase, RNA Polymerase II
H3K36me3, Histone, Histone 3 Lysine 36 Tri-Methylation
H3K4me3, Histone, Histone 3 Lysine 4 Tri-Methylation
DNase1, Open Chromatin, DNase1 Hypersensitive Site
HNF4A, Transcription Factor, HNF4A Transcription Factor Binding

phyloP / phastCons

	PhyloP	PhastCons
(flanking)	-1.585	0.032
	1.978	0.948
(flanking)	4.271	0.995

explain score(s) and/or inspect your position(s) in in UCSC Genome Browser

splice sites

splice site change occurs after stopcodon (at aa 474)

effect	gDNA position	score	detection sequence	exon-intron border
Acc decreased	34371	wt: 0.89 / mu: 0.62	wt: AGGCTGTCCCGTGCCCTGCTCGGTGAGTGAGGGGAGCAAGA mu: AGGCTGTCCCGGGCCCTGCTCGGTGAGTGAGGGGAGCAAGA	gctc\|GGTG

distance from splice site

Kozak consensus sequence altered?

N/A

conservation
protein level for non-synonymous changes

N/A

protein features

N/A

length of protein

N/A

AA sequence altered

N/A

position of stopcodon in wt / mu CDS

N/A

position (AA) of stopcodon in wt / mu AA sequence

N/A

position of stopcodon in wt / mu cDNA

N/A

poly(A) signal

signal is predicted to be ok

conservation
nucleotide level for all changes - no scoring up to now

N/A

position of start ATG in wt / mu cDNA

621 / 621

chromosome

strand

last intron/exon boundary

2046

theoretical NMD boundary in CDS

1375

length of CDS

1095

coding sequence (CDS) position

N/A

cDNA position
(for ins/del: last normal base / first normal base)

2035

gDNA position
(for ins/del: last normal base / first normal base)

34362

chromosomal position
(for ins/del: last normal base / first normal base)

136313839

original gDNA sequence snippet

AGGTCTGCCAGGCTGTCCCGTGCCCTGCTCGGTGAGTGAGG

altered gDNA sequence snippet

AGGTCTGCCAGGCTGTCCCGGGCCCTGCTCGGTGAGTGAGG

original cDNA sequence snippet

AGGTCTGCCAGGCTGTCCCGTGCCCTGCTCGGTGGCAGTAC

altered cDNA sequence snippet

AGGTCTGCCAGGCTGTCCCGGGCCCTGCTCGGTGGCAGTAC

wildtype AA sequence

MDMCQALSCH TDPLDQSSCS RLLVPLLDGT ECGVEKWCSK GRCRSLVELT PIAAVHGRWS
SWGPRSPCSR SCGGGVVTRR RQCNNPRPAF GGRACVGADL QAEMCNTQAC EKTQLEFMSQ
QCARTDGQPL RSSPGGASFY HWGAAVPHSQ GDALCRHMCR AIGESFIMKR GDSFLDGTRC
MPSGPREDGT LSLCVSGSCR TFGCDGRMDS QQVWDRCQVC GGDNSTCSPR KGSFTAGRAR
EYVTFLTVTP NLTSVYIANH RPLFTHLAVR IGGRYVVAGK MSISPNTTYP SLLEDGRVEY
RVALTEDRLP RLEEIRIWGP LQEDADIQVG GVRAQLMHIS WWSRPGLGER DLCARGRWPG
GSSD*

mutated AA sequence

N/A

speed

0.52 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