Variant report

Variant	rs11007002
Chromosome Location	chr10:28595682-28595683
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:28590374..28593337-chr10:28595037..28598622,5	MCF-7	breast:
2	chr10:28593200..28596095-chr10:28620526..28622698,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000150054	Chromatin interaction

Extended variants
information (count: 27 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:23)

rs_ID	r²[population]
rs11006932	0.80[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs11006948	1.00[AFR][1000 genomes]
rs11006952	1.00[AFR][1000 genomes]
rs11006955	0.86[AMR][1000 genomes]
rs11006971	1.00[AFR][1000 genomes]
rs11006972	1.00[AFR][1000 genomes]
rs11006980	0.87[AFR][1000 genomes]
rs11006981	1.00[AFR][1000 genomes]
rs11006982	1.00[AFR][1000 genomes]
rs11006996	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12355677	1.00[AFR][1000 genomes]
rs12356457	0.87[AFR][1000 genomes]
rs12357385	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12358648	1.00[AFR][1000 genomes]
rs41406248	0.87[AFR][1000 genomes]
rs61845938	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs61845939	0.90[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs61845943	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61845945	1.00[ASN][1000 genomes]
rs7090006	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7100335	1.00[AFR][1000 genomes]
rs7100619	1.00[AFR][1000 genomes]
rs7923023	1.00[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 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	nsv1041555	chr10:28419399-29304934	Flanking Bivalent TSS/Enh Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS Genic enhancers Strong transcription Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	46 gene(s)	inside rSNPs	diseases
3	nsv1037863	chr10:28419399-29378871	Enhancers Flanking Active TSS Weak transcription Active TSS Strong transcription Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	46 gene(s)	inside rSNPs	diseases
4	nsv540521	chr10:28419399-29378871	Flanking Active TSS Enhancers Weak transcription Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	46 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	chr10:28592600-28595800	Weak transcription	Right Ventricle	heart
2	chr10:28592800-28606600	Weak transcription	Colon Smooth Muscle	Colon
3	chr10:28593000-28607600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
4	chr10:28593200-28595800	Weak transcription	Pancreas	Pancrea
5	chr10:28593200-28597400	Enhancers	Primary monocytes fromperipheralblood	blood
6	chr10:28593200-28600200	Weak transcription	Psoas Muscle	Psoas
7	chr10:28593200-28603000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
8	chr10:28593200-28605800	Weak transcription	Primary T cells fromperipheralblood	blood
9	chr10:28593200-28615400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
10	chr10:28593400-28596400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
11	chr10:28593400-28597400	Enhancers	Primary neutrophils fromperipheralblood	blood
12	chr10:28593400-28613400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
13	chr10:28593400-28615200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
14	chr10:28593600-28596000	Weak transcription	Primary T helper cells PMA-I stimulated	--
15	chr10:28593600-28596000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
16	chr10:28594000-28606600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
17	chr10:28594200-28595800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
18	chr10:28594200-28596200	Weak transcription	Primary T helper cells fromperipheralblood	blood
19	chr10:28595000-28597200	Enhancers	Monocytes-CD14+_RO01746	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links