mutation t@sting

Prediction

polymorphism

Model: without_aae, prob: 0.999989844050651 (classification due to TGP/ExAC, real probability is shown anyway) (explain)

Summary

homozygous in TGP or ExAC
known disease mutation at this position (HGMD CM032861)

hyperlink

analysed issue

analysis result

name of alteration

no title

alteration (phys. location)

chr17:41244435T>CN/A show variant in all transcripts IGV

HGNC symbol

BRCA1

Ensembl transcript ID

ENST00000393691

Genbank transcript ID

N/A

UniProt peptide

N/A

alteration type

single base exchange

alteration region

intron

DNA changes

g.77856A>G

AA changes

N/A

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

N/A

frameshift

N/A

known variant

Reference ID: rs16941

database	homozygous (C/C)	heterozygous	allele carriers
1000G	338	1005	1343
ExAC	7641	17485	25126

known disease mutation at this position, please check HGMD for details (HGMD ID CM032861)

regulatory features

H3K36me3, Histone, Histone 3 Lysine 36 Tri-Methylation

phyloP / phastCons

	PhyloP	PhastCons
(flanking)	1.757	0.035
	-0.304	0.035
(flanking)	1.393	0.176

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

splice sites

effect	gDNA position	score	wt detection sequence	exon-intron border
Donor marginally increased	77854	wt: 0.2554 / mu: 0.2582 (marginal change - not scored)	wt: TTTAAAGAAGCCAGC mu: TTTAAAGGAGCCAGC	TAAA\|gaag

distance from splice site

1386

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

N/A

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

N/A

position of start ATG in wt / mu cDNA

210 / 210

chromosome

strand

-1

last intron/exon boundary

2224

theoretical NMD boundary in CDS

1964

length of CDS

2139

coding sequence (CDS) position

N/A

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

N/A

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

77856

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

41244435

original gDNA sequence snippet

TAGAGAAAATGTTTTTAAAGAAGCCAGCTCAAGCAATATTA

altered gDNA sequence snippet

TAGAGAAAATGTTTTTAAAGGAGCCAGCTCAAGCAATATTA

original cDNA sequence snippet

N/A

altered cDNA sequence snippet

N/A

wildtype AA sequence

MLKLLNQKKG PSQCPLCKND ITKRSLQEST RFSQLVEELL KIICAFQLDT GLEYANSYNF
AKKENNSPEH LKDEVSIIQS MGYRNRAKRL LQSEPENPSL QETSLSVQLS NLGTVRTLRT
KQRIQPQKTS VYIELGSDSS EDTVNKATYC SVGDQELLQI TPQGTRDEIS LDSAKKAACE
FSETDVTNTE HHQPSNNDLN TTEKRAAERH PEKYQGEAAS GCESETSVSE DCSGLSSQSD
ILTTQQRDTM QHNLIKLQQE MAELEAVLEQ HGSQPSNSYP SIISDSSALE DLRNPEQSTS
EKVLTSQKSS EYPISQNPEG LSADKFEVSA DSSTSKNKEP GVERSSPSKC PSLDDRWYMH
SCSGSLQNRN YPSQEELIKV VDVEEQQLEE SGPHDLTETS YLPRQDLEGT PYLESGISLF
SDDPESDPSE DRAPESARVG NIPSSTSALK VPQLKVAESA QSPAAAHTTD TAGYNAMEES
VSREKPELTA STERVNKRMS MVVSGLTPEE FMLVYKFARK HHITLTNLIT EETTHVVMKT
DAEFVCERTL KYFLGIAGGK WVVSYFWVTQ SIKERKMLNE HDFEVRGDVV NGRNHQGPKR
ARESQDRKIF RGLEICCYGP FTNMPTDQLE WMVQLCGASV VKELSSFTLG TGVHPIVVVQ
PDAWTEDNGF HAIGQMCEAP VVTREWVLDS VALYQCQELD TYLIPQIPHS HY*

mutated AA sequence

N/A

speed

0.85 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