Variant report

Variant	rs10892454
Chromosome Location	chr11:119642827-119642828
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr11:119641454..119644378-chr11:119651426..119653026,2	MCF-7	breast:
2	chr11:119640548..119642898-chr11:119644678..119646239,2	MCF-7	breast:
3	chr11:119637512..119639689-chr11:119641320..119643671,2	K562	blood:

Extended variants
information (count: 39 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:38)

rs_ID	r²[population]
rs10790344	0.84[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10790345	0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10892456	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10892457	0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10892458	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10892459	0.90[EUR][1000 genomes]
rs10892460	0.90[EUR][1000 genomes]
rs10892461	0.90[EUR][1000 genomes]
rs11217495	0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11217501	0.90[EUR][1000 genomes]
rs11217502	0.90[EUR][1000 genomes]
rs11217503	0.90[EUR][1000 genomes]
rs11606569	0.90[EUR][1000 genomes]
rs12222723	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1466051	0.90[EUR][1000 genomes]
rs1466052	0.90[EUR][1000 genomes]
rs34809912	0.97[ASN][1000 genomes]
rs35121417	0.87[ASN][1000 genomes]
rs35662046	0.90[EUR][1000 genomes]
rs4258392	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4269933	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4301801	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4331115	0.90[EUR][1000 genomes]
rs4341549	0.89[EUR][1000 genomes]
rs4408323	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4418818	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4608095	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs5020632	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs5020633	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs5026369	0.86[EUR][1000 genomes]
rs6589772	0.86[EUR][1000 genomes]
rs6589776	0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs67007544	0.84[EUR][1000 genomes]
rs7103360	0.95[EUR][1000 genomes]
rs7926574	0.86[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7936400	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7942259	0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9326253	0.84[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:1 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv898423	chr11:119541332-119659753	Flanking Active TSS ZNF genes & repeats Enhancers Weak transcription Bivalent Enhancer Bivalent/Poised TSS Active TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs10892454	CD3E	cis	parietal	SCAN

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:119635400-119647000	Weak transcription	Right Ventricle	heart
2	chr11:119635800-119643800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
3	chr11:119641400-119643000	Weak transcription	Brain Substantia Nigra	brain
4	chr11:119641400-119649200	Weak transcription	GM12878-XiMat	blood
5	chr11:119641400-119652600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
6	chr11:119641600-119645000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
7	chr11:119641800-119643000	Weak transcription	Fetal Brain Male	brain
8	chr11:119641800-119644800	Enhancers	Fetal Brain Female	brain
9	chr11:119642800-119645000	Enhancers	Brain Hippocampus Middle	brain
10	chr11:119642800-119645800	Enhancers	Brain Germinal Matrix	brain

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