Variant report

Variant	rs10844636
Chromosome Location	chr12:9888016-9888017
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 108 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:104)

rs_ID	r²[population]
rs1008610	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1044771	0.85[JPT][hapmap]
rs10466829	1.00[CHB][hapmap];0.93[CHD][hapmap];0.95[JPT][hapmap];0.94[ASN][1000 genomes]
rs10492165	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs10492166	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs10743819	0.92[ASN][1000 genomes]
rs10743823	0.86[JPT][hapmap];0.84[ASN][1000 genomes]
rs10772046	0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10772062	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10772070	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10772071	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10772072	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10772073	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10772074	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10772079	0.86[AFR][1000 genomes];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10772085	1.00[CHB][hapmap];0.95[JPT][hapmap];0.94[ASN][1000 genomes]
rs10772087	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[YRI][hapmap];0.91[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10772090	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10772091	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10772092	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10772094	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10772102	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10772108	0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10844380	0.81[ASN][1000 genomes]
rs10844427	0.83[EUR][1000 genomes]
rs10844456	0.86[CEU][hapmap];0.89[CHB][hapmap];0.90[JPT][hapmap];0.83[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10844468	0.83[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10844503	0.87[CEU][hapmap];0.89[CHB][hapmap];0.90[JPT][hapmap];0.83[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10844537	0.82[CEU][hapmap];0.88[CHB][hapmap];0.90[JPT][hapmap];0.83[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10844562	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10844569	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10844597	0.89[ASN][1000 genomes]
rs10844609	0.84[CEU][hapmap];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10844610	0.91[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10844615	0.89[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.95[GIH][hapmap];0.95[JPT][hapmap];1.00[TSI][hapmap];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10844617	1.00[CHB][hapmap];0.95[JPT][hapmap];0.94[ASN][1000 genomes]
rs10844620	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[YRI][hapmap];0.91[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10844622	0.96[ASN][1000 genomes]
rs10844626	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10844627	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10844630	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10844632	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10844633	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10844635	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10844637	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10844638	0.89[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.94[MKK][hapmap];0.98[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10844639	0.97[AFR][1000 genomes];0.94[AMR][1000 genomes];0.83[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10844640	0.92[AFR][1000 genomes];0.91[AMR][1000 genomes];0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10844657	0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10844682	0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10844706	0.90[JPT][hapmap]
rs11052372	0.83[CEU][hapmap];0.89[CHB][hapmap];0.87[CHD][hapmap];0.85[JPT][hapmap];0.88[TSI][hapmap];0.83[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11052423	0.87[CEU][hapmap];0.89[CHB][hapmap];0.87[CHD][hapmap];0.85[JPT][hapmap];0.88[TSI][hapmap];0.83[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11052426	0.87[CEU][hapmap];0.89[CHB][hapmap];0.90[JPT][hapmap];0.83[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11052552	0.89[CHB][hapmap];0.85[CHD][hapmap];0.90[JPT][hapmap];0.89[ASN][1000 genomes]
rs11052604	0.83[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11052710	1.00[CHB][hapmap];0.95[JPT][hapmap];0.94[ASN][1000 genomes]
rs11052713	0.89[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11052717	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11052750	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11052751	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11052752	0.95[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11052756	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11052877	0.90[CHB][hapmap];1.00[JPT][hapmap];0.80[ASN][1000 genomes]
rs12227655	0.90[CEU][hapmap];0.89[CHB][hapmap];0.95[JPT][hapmap];0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12228641	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12304510	0.96[ASN][1000 genomes]
rs12317499	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs17806710	0.87[CEU][hapmap];0.89[CHB][hapmap];0.87[CHD][hapmap];0.90[JPT][hapmap];0.88[TSI][hapmap];0.83[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1985788	0.81[ASN][1000 genomes]
rs2058560	0.85[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2080206	0.81[ASN][1000 genomes]
rs2080211	0.84[JPT][hapmap]
rs2098298	0.94[JPT][hapmap]
rs2114870	0.87[CEU][hapmap];0.89[CHB][hapmap];0.81[JPT][hapmap];0.86[TSI][hapmap];0.82[ASN][1000 genomes]
rs2192437	0.94[ASN][1000 genomes]
rs2268146	0.94[CHB][hapmap];0.88[CHD][hapmap];0.95[JPT][hapmap];0.94[ASN][1000 genomes]
rs2401390	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2401391	1.00[CHB][hapmap];0.95[JPT][hapmap];0.94[ASN][1000 genomes]
rs2401393	1.00[CHB][hapmap];0.93[CHD][hapmap];0.95[JPT][hapmap];0.94[ASN][1000 genomes]
rs2401394	0.94[ASN][1000 genomes]
rs2401395	0.94[ASN][1000 genomes]
rs3764021	0.89[CHB][hapmap];0.85[CHD][hapmap];0.85[JPT][hapmap];0.89[ASN][1000 genomes]
rs3764022	0.87[CEU][hapmap];0.89[CHB][hapmap];0.85[JPT][hapmap];0.83[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4763839	0.83[ASN][1000 genomes]
rs4763840	0.85[CHB][hapmap];0.95[JPT][hapmap];0.84[ASN][1000 genomes]
rs4763879	0.82[JPT][hapmap]
rs7296241	1.00[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.86[YRI][hapmap];0.91[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7306304	1.00[CHB][hapmap];0.95[JPT][hapmap];0.94[ASN][1000 genomes]
rs7306557	1.00[CHB][hapmap];0.95[JPT][hapmap];0.94[ASN][1000 genomes]
rs7307111	0.92[ASN][1000 genomes]
rs7310460	0.85[JPT][hapmap]
rs741199	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs741200	0.82[ASN][1000 genomes]
rs7956831	0.97[ASN][1000 genomes]
rs7964018	0.82[ASN][1000 genomes]
rs7968401	0.87[ASN][1000 genomes]
rs7970116	1.00[CHB][hapmap];0.93[CHD][hapmap];0.95[JPT][hapmap];0.94[ASN][1000 genomes]
rs7973535	0.94[ASN][1000 genomes]
rs7973638	1.00[CHB][hapmap];0.95[JPT][hapmap];0.94[ASN][1000 genomes]
rs7974396	0.89[JPT][hapmap]
rs7976584	0.94[ASN][1000 genomes]
rs7977720	0.92[ASN][1000 genomes]
rs917911	0.95[JPT][hapmap]

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	esv2758293	chr12:9371595-9923529	Weak transcription Enhancers Active TSS ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Genic enhancers Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	40 gene(s)	inside rSNPs	diseases
2	esv2759878	chr12:9371595-9923529	Weak transcription Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA	40 gene(s)	inside rSNPs	diseases
3	nsv983235	chr12:9852218-9893776	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
4	esv2757490	chr12:9855958-9888553	Weak transcription Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs10844636	CLEC2D	cis	multi-tissue	Pritchard
rs10844636	DCAL1	cis	multi-tissue	Pritchard

Chromatin state (count:25 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:9885000-9892000	Enhancers	Primary hematopoietic stem cells	blood
2	chr12:9885800-9889200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
3	chr12:9885800-9889400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
4	chr12:9885800-9889600	Weak transcription	Rectal Mucosa Donor 31	rectum
5	chr12:9885800-9890600	Weak transcription	Primary T cells fromperipheralblood	blood
6	chr12:9885800-9892400	Enhancers	Primary hematopoietic stem cells short term culture	blood
7	chr12:9886000-9889400	Weak transcription	Rectal Mucosa Donor 29	rectum
8	chr12:9886000-9889600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
9	chr12:9886000-9890600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
10	chr12:9886000-9891800	Enhancers	Primary monocytes fromperipheralblood	blood
11	chr12:9886000-9892000	Enhancers	Primary B cells from peripheral blood	blood
12	chr12:9886000-9894600	Enhancers	Primary B cells from cord blood	blood
13	chr12:9886200-9889000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
14	chr12:9886200-9889000	Weak transcription	Primary T helper cells fromperipheralblood	blood
15	chr12:9886200-9889200	Weak transcription	Primary T cells from cord blood	blood
16	chr12:9886200-9889200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
17	chr12:9886200-9889200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
18	chr12:9886200-9889400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
19	chr12:9886600-9889000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
20	chr12:9886600-9889400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
21	chr12:9886800-9889000	Weak transcription	Primary T helper cells PMA-I stimulated	--
22	chr12:9886800-9889000	Enhancers	Monocytes-CD14+_RO01746	blood
23	chr12:9887000-9888200	Weak transcription	GM12878-XiMat	blood
24	chr12:9887600-9889400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
25	chr12:9887600-9893800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links