Variant report

Variant	rs12246891
Chromosome Location	chr10:28338027-28338028
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:28332388..28334708-chr10:28335974..28338490,2	K562	blood:
2	chr10:28329005..28330814-chr10:28337139..28340091,2	K562	blood:

Extended variants
information (count: 43 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:36)

rs_ID	r²[population]
rs10508729	1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];0.90[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10508730	1.00[CEU][hapmap];0.85[ASN][1000 genomes]
rs11006804	0.91[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11006808	0.86[ASN][1000 genomes]
rs11006811	0.95[ASN][1000 genomes]
rs11006874	1.00[CEU][hapmap]
rs12241297	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12244891	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12249305	1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12255657	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12266822	0.89[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12268477	0.83[AFR][1000 genomes]
rs12268684	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12268764	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12412297	0.85[ASN][1000 genomes]
rs17831032	1.00[CEU][hapmap];0.85[ASN][1000 genomes]
rs17831062	1.00[CEU][hapmap];0.82[ASN][1000 genomes]
rs1937806	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2253165	0.93[ASN][1000 genomes]
rs2368290	0.91[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3780856	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3780857	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3780858	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3802518	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3802522	1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];0.90[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs57575764	0.82[ASN][1000 genomes]
rs58270577	0.85[ASN][1000 genomes]
rs60563943	0.82[ASN][1000 genomes]
rs6481498	1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];0.83[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs73606064	0.85[ASN][1000 genomes]
rs73606068	0.82[ASN][1000 genomes]
rs73606069	0.81[ASN][1000 genomes]
rs74127187	0.91[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7903206	0.90[JPT][hapmap];0.81[ASN][1000 genomes]
rs7919932	0.81[JPT][hapmap]
rs7921547	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv917149	chr10:28018919-28688694	Enhancers Active TSS Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
2	nsv831815	chr10:28235661-28407533	Strong transcription Enhancers Bivalent/Poised TSS Weak transcription Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases
3	nsv1052182	chr10:28259142-28361830	Strong transcription Weak transcription ZNF genes & repeats Bivalent/Poised TSS Enhancers Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
4	nsv1042524	chr10:28290149-28506812	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Active TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
5	nsv831816	chr10:28304698-28493635	Enhancers Flanking Active TSS Strong transcription Weak transcription ZNF genes & repeats Active TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
6	nsv894988	chr10:28337570-28410989	Weak transcription Strong transcription Enhancers Flanking Active TSS Genic enhancers ZNF genes & repeats Active TSS	Chromatin interactive region lncRNA miRNA target site	1 gene(s)	inside rSNPs	diseases
7	nsv525448	chr10:28337570-28563732	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:19 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:28330000-28345000	Weak transcription	Pancreas	Pancrea
2	chr10:28331200-28345000	Weak transcription	Aorta	Aorta
3	chr10:28334200-28341200	Weak transcription	Monocytes-CD14+_RO01746	blood
4	chr10:28334800-28341800	Weak transcription	Primary monocytes fromperipheralblood	blood
5	chr10:28335000-28345800	Weak transcription	Brain Angular Gyrus	brain
6	chr10:28335600-28345000	Weak transcription	Fetal Stomach	stomach
7	chr10:28336200-28349400	Weak transcription	Gastric	stomach
8	chr10:28336400-28346000	Weak transcription	Pancreatic Islets	Pancreatic Islet
9	chr10:28336600-28345600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
10	chr10:28336800-28346600	Weak transcription	Primary hematopoietic stem cells	blood
11	chr10:28337000-28339400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
12	chr10:28337200-28339400	Weak transcription	Primary T cells from cord blood	blood
13	chr10:28337400-28341800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
14	chr10:28337400-28342600	Weak transcription	Primary T helper cells fromperipheralblood	blood
15	chr10:28337400-28347400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
16	chr10:28337600-28342400	Weak transcription	Primary T helper cells PMA-I stimulated	--
17	chr10:28337800-28338600	Enhancers	NHDF-Ad	bronchial
18	chr10:28337800-28345000	Weak transcription	Fetal Intestine Small	intestine
19	chr10:28337800-28346000	Weak transcription	Skeletal Muscle Male	skeletal muscle

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links