Variant report

Variant	rs6582509
Chromosome Location	chr12:44999673-44999674
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 46 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:43)

rs_ID	r²[population]
rs1037433	0.90[YRI][hapmap]
rs10785513	0.92[CEU][hapmap];0.86[GIH][hapmap];0.83[MEX][hapmap];1.00[TSI][hapmap];0.83[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs10880658	0.90[YRI][hapmap]
rs10880659	0.86[YRI][hapmap]
rs10880666	0.84[ASW][hapmap]
rs10880673	0.81[YRI][hapmap]
rs11182552	1.00[CEU][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11182556	0.80[YRI][hapmap]
rs11182562	0.89[CEU][hapmap];0.82[CHB][hapmap];0.81[JPT][hapmap];0.91[YRI][hapmap];0.86[AFR][1000 genomes];0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12314678	0.99[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12815257	0.90[YRI][hapmap]
rs1470803	0.95[CHB][hapmap];0.98[CHD][hapmap];0.88[GIH][hapmap];0.95[JPT][hapmap];0.99[ASN][1000 genomes]
rs1545496	1.00[CEU][hapmap];0.87[CHD][hapmap];0.98[GIH][hapmap];0.96[MEX][hapmap];0.98[TSI][hapmap];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs1563043	0.83[YRI][hapmap]
rs17094865	0.99[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17094882	0.81[CHB][hapmap];0.86[CHD][hapmap];0.81[GIH][hapmap];0.81[JPT][hapmap];0.88[ASN][1000 genomes]
rs1966856	0.88[ASN][1000 genomes]
rs2060839	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2060841	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2060842	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2060895	1.00[ASW][hapmap];1.00[CEU][hapmap];0.86[CHD][hapmap];0.93[GIH][hapmap];0.81[LWK][hapmap];0.95[MEX][hapmap];0.89[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2060896	1.00[ASW][hapmap];0.96[CEU][hapmap];0.89[CHD][hapmap];0.93[GIH][hapmap];0.96[MEX][hapmap];0.89[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2060897	0.85[ASN][1000 genomes]
rs2060898	0.86[CHD][hapmap];0.86[GIH][hapmap];0.82[JPT][hapmap];0.85[ASN][1000 genomes]
rs2060899	0.95[CHB][hapmap];0.95[CHD][hapmap];0.88[GIH][hapmap];1.00[JPT][hapmap];0.83[MKK][hapmap];0.99[ASN][1000 genomes]
rs2218943	0.84[CHD][hapmap];0.86[ASN][1000 genomes]
rs4544065	0.84[ASW][hapmap];0.86[YRI][hapmap]
rs4641544	0.85[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4768066	0.86[YRI][hapmap]
rs4768067	0.86[ASN][1000 genomes]
rs4768562	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];0.98[TSI][hapmap];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4768564	0.84[ASW][hapmap];0.90[YRI][hapmap]
rs633526	0.81[CHD][hapmap]
rs6582508	0.89[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7134952	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7304431	0.95[CHB][hapmap];1.00[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs7308509	0.85[YRI][hapmap]
rs765770	0.81[ASN][1000 genomes]
rs7958608	1.00[ASW][hapmap];1.00[CEU][hapmap];0.89[CHD][hapmap];0.95[GIH][hapmap];0.81[LWK][hapmap];1.00[MEX][hapmap];0.89[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.87[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7966743	1.00[CEU][hapmap];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7966744	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7968076	0.82[YRI][hapmap]
rs966383	0.86[YRI][hapmap]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1049818	chr12:44486312-45133783	Enhancers ZNF genes & repeats Weak transcription Active TSS Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
2	esv3378050	chr12:44963059-45264289	Weak transcription Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
3	esv2762976	chr12:44969431-45000228	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Active TSS Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	n/a

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:44966800-45000600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
2	chr12:44986600-45006600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
3	chr12:44986800-45015800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
4	chr12:44990400-45004800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
5	chr12:44992200-45006400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
6	chr12:44993000-45006800	Weak transcription	HUES48 Cell Line	embryonic stem cell
7	chr12:44994400-45004200	Weak transcription	Brain Germinal Matrix	brain
8	chr12:44995800-45001400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr12:44995800-45003000	Weak transcription	Fetal Brain Female	brain
10	chr12:44998000-45005600	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
11	chr12:44998200-45024400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
12	chr12:44998400-45001600	Weak transcription	Cortex derived primary cultured neurospheres	brain
13	chr12:44998600-45003000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr12:44998600-45005000	Strong transcription	Primary T killer naive cells fromperipheralblood	blood
15	chr12:44998800-45004800	Strong transcription	Primary T cells fromperipheralblood	blood
16	chr12:44998800-45018200	Weak transcription	HUES64 Cell Line	embryonic stem cell
17	chr12:44999400-44999800	Strong transcription	Primary T helper naive cells from peripheral blood	blood
18	chr12:44999400-45000200	Strong transcription	Primary T helper cells PMA-I stimulated	--
19	chr12:44999600-45005000	Strong transcription	Primary T helper cells fromperipheralblood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links