Variant report

Variant	rs11007004
Chromosome Location	chr10:28599581-28599582
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	chr10:28590710..28592646-chr10:28598868..28601462,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000150054	Chromatin interaction

Extended variants
information (count: 40 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10826445	0.83[AMR][1000 genomes]
rs10826446	0.83[AMR][1000 genomes]
rs11006923	0.80[AMR][1000 genomes]
rs11006928	0.80[AMR][1000 genomes]
rs11006933	0.80[AMR][1000 genomes]
rs11006958	0.80[AMR][1000 genomes]
rs11006989	0.81[AMR][1000 genomes]
rs11006990	0.83[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs11006994	0.83[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs11006995	0.81[AMR][1000 genomes]
rs11006997	0.83[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs11006998	0.81[AMR][1000 genomes]
rs11007000	0.83[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs11007003	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11007005	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11007006	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11007010	0.88[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs11007012	0.87[ASN][1000 genomes]
rs11007013	0.88[ASN][1000 genomes]
rs12218186	0.88[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs12570440	0.81[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs1762186	0.86[ASN][1000 genomes]
rs1984853	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2368306	0.83[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs35016093	0.83[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs3842931	0.81[AMR][1000 genomes]
rs3843586	0.88[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs4598572	0.83[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs4604776	0.81[AMR][1000 genomes]
rs57441879	0.81[AMR][1000 genomes]
rs7901835	0.83[AMR][1000 genomes]
rs7902785	0.81[AMR][1000 genomes]
rs7903242	0.81[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs7916067	0.81[AMR][1000 genomes]
rs7916711	0.83[AMR][1000 genomes]
rs7916740	0.83[AMR][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:17 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:28592800-28606600	Weak transcription	Colon Smooth Muscle	Colon
2	chr10:28593000-28607600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
3	chr10:28593200-28600200	Weak transcription	Psoas Muscle	Psoas
4	chr10:28593200-28603000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
5	chr10:28593200-28605800	Weak transcription	Primary T cells fromperipheralblood	blood
6	chr10:28593200-28615400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
7	chr10:28593400-28613400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
8	chr10:28593400-28615200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
9	chr10:28594000-28606600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
10	chr10:28596800-28618800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
11	chr10:28597200-28605400	Weak transcription	Monocytes-CD14+_RO01746	blood
12	chr10:28597200-28611000	Weak transcription	Pancreas	Pancrea
13	chr10:28597400-28600800	Weak transcription	Primary T cells from cord blood	blood
14	chr10:28597400-28601200	Weak transcription	Primary T helper cells PMA-I stimulated	--
15	chr10:28597400-28606200	Weak transcription	Primary T helper cells fromperipheralblood	blood
16	chr10:28597400-28614000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
17	chr10:28597600-28613800	Weak transcription	Primary T helper naive cells from peripheral blood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links