Variant report

Variant	rs2941509
Chromosome Location	chr17:37921194-37921195
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr17:37920829-37921247	GM12878	blood:	n/a	n/a
2	POLR2A	chr17:37920857-37921376	GM12891	blood:	n/a	n/a
3	POLR2A	chr17:37920745-37921637	GM12878	blood:	n/a	n/a
4	POLR2A	chr17:37920744-37921660	GM12878	blood:	n/a	n/a
5	POLR2A	chr17:37920428-37924037	GM12891	blood:	n/a	n/a
6	POLR2A	chr17:37920702-37923877	GM18505	blood:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr17:37779913..37781548-chr17:37921179..37923723,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000264198	TF binding region

Extended variants
information (count: 142 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:139)

rs_ID	r²[population]
rs12709364	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12937330	0.91[ASW][hapmap];1.00[CEU][hapmap];1.00[TSI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12938117	1.00[EUR][1000 genomes]
rs12938617	0.96[EUR][1000 genomes]
rs12938749	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12940616	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12942660	1.00[CEU][hapmap];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12943633	0.91[ASW][hapmap];1.00[TSI][hapmap]
rs12945253	1.00[CEU][hapmap];0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12946040	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12946188	1.00[CEU][hapmap];0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12946792	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12947480	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs12952146	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13313561	1.00[CEU][hapmap];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13313564	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs13313573	1.00[CEU][hapmap];0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13380871	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1453560	0.91[ASW][hapmap];1.00[CEU][hapmap];0.81[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs1510475	1.00[CEU][hapmap];0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16965367	1.00[CEU][hapmap];0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17676923	0.83[EUR][1000 genomes]
rs2313429	1.00[CEU][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28392589	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28403951	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28449671	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28535471	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28537796	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28580691	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28621669	1.00[EUR][1000 genomes]
rs28648398	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28661421	1.00[EUR][1000 genomes]
rs28695941	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28723017	1.00[EUR][1000 genomes]
rs28842324	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28880017	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28896477	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs3169572	1.00[CEU][hapmap];1.00[GIH][hapmap]
rs34016964	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34053394	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34291217	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34344462	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34485135	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34518282	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34582264	0.88[EUR][1000 genomes]
rs34599546	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34640000	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34654193	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34758895	0.92[EUR][1000 genomes]
rs34864615	0.96[EUR][1000 genomes]
rs34925681	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34988504	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35088469	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35105110	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35130019	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs35336365	0.86[EUR][1000 genomes]
rs35352075	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35397078	0.88[EUR][1000 genomes]
rs35405174	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35506518	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35938199	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs36097841	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4337325	1.00[CEU][hapmap];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4622539	1.00[EUR][1000 genomes]
rs56928975	0.96[EUR][1000 genomes]
rs58075375	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs66763967	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs67135646	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs67571561	0.85[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs67600807	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs67605703	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs71369788	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs71369791	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs71369792	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7211998	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7217133	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7224641	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73302152	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73304123	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7503018	0.91[ASW][hapmap];1.00[CEU][hapmap];1.00[TSI][hapmap];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs8067523	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs8068125	1.00[EUR][1000 genomes]
rs8068894	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs8069531	1.00[CEU][hapmap];0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs8069893	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs8072612	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs8076347	0.91[ASW][hapmap];1.00[CEU][hapmap];1.00[TSI][hapmap];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs8078409	0.88[EUR][1000 genomes]
rs8079075	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs9652838	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs9652840	1.00[CEU][hapmap];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9891131	1.00[GIH][hapmap]
rs9892781	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9894370	1.00[CEU][hapmap];0.92[EUR][1000 genomes]
rs9894680	1.00[EUR][1000 genomes]
rs9894898	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9898031	1.00[CEU][hapmap];0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9898464	1.00[EUR][1000 genomes]
rs9899006	1.00[EUR][1000 genomes]
rs9899336	1.00[CEU][hapmap];0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9899345	1.00[CEU][hapmap];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9900019	1.00[CEU][hapmap];0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9900538	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs9900541	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9901483	0.91[ASW][hapmap];1.00[CEU][hapmap];1.00[TSI][hapmap];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9901617	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9901917	0.81[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs9902621	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9904277	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9904834	1.00[CEU][hapmap];0.81[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs9905881	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9907096	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs9907291	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9907564	1.00[EUR][1000 genomes]
rs9907794	1.00[EUR][1000 genomes]
rs9907966	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs9907988	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs9908694	0.91[ASW][hapmap];1.00[CEU][hapmap];1.00[TSI][hapmap];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9908983	1.00[CEU][hapmap];0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9909365	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9909432	0.89[EUR][1000 genomes]
rs9910678	1.00[GIH][hapmap]
rs9911069	1.00[CEU][hapmap];0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9911634	0.91[ASW][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9911669	1.00[CEU][hapmap];0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9911688	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[TSI][hapmap];0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9912095	1.00[EUR][1000 genomes]
rs9913044	1.00[CEU][hapmap];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs9913596	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9913769	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[TSI][hapmap];0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9913795	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9913957	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[TSI][hapmap];0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9914302	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9914516	1.00[CEU][hapmap];0.83[EUR][1000 genomes]
rs9914665	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9914757	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs9915509	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs9915797	0.92[EUR][1000 genomes]
rs9916259	1.00[CEU][hapmap];1.00[EUR][1000 genomes]

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	nsv908207	chr17:37709422-37922259	Weak transcription Genic enhancers Strong transcription Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	46 gene(s)	inside rSNPs	diseases
2	nsv1064787	chr17:37892843-38054410	Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Strong transcription Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	33 gene(s)	inside rSNPs	diseases
3	nsv543342	chr17:37892843-38054410	Active TSS Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	33 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:26 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr17:37912000-37930400	Weak transcription	Esophagus	oesophagus
2	chr17:37912800-37927400	Weak transcription	Sigmoid Colon	Sigmoid Colon
3	chr17:37913600-37926400	Genic enhancers	Fetal Thymus	thymus
4	chr17:37914400-37921200	Weak transcription	Rectal Mucosa Donor 29	rectum
5	chr17:37914400-37921600	Weak transcription	Spleen	Spleen
6	chr17:37915800-37926000	Genic enhancers	Primary T cells fromperipheralblood	blood
7	chr17:37916000-37922400	Weak transcription	Duodenum Mucosa	Duodenum
8	chr17:37917000-37922800	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
9	chr17:37917000-37922800	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
10	chr17:37917000-37925800	Genic enhancers	Thymus	Thymus
11	chr17:37917200-37923000	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
12	chr17:37917600-37923000	Strong transcription	Primary B cells from cord blood	blood
13	chr17:37918400-37929400	Weak transcription	Colonic Mucosa	Colon
14	chr17:37919200-37923000	Genic enhancers	Primary T helper naive cells from peripheral blood	blood
15	chr17:37919200-37926000	Genic enhancers	Primary T killer memory cells from peripheral blood	blood
16	chr17:37919400-37922600	Strong transcription	Primary T helper memory cells from peripheral blood 1	blood
17	chr17:37919600-37921200	Strong transcription	Primary T helper cells PMA-I stimulated	--
18	chr17:37920000-37922200	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
19	chr17:37920000-37922800	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
20	chr17:37920000-37930000	Genic enhancers	Primary Natural Killer cells fromperipheralblood	blood
21	chr17:37920600-37922200	Genic enhancers	Primary T helper memory cells from peripheral blood 2	blood
22	chr17:37920600-37922800	Strong transcription	Primary T cells from cord blood	blood
23	chr17:37920800-37931000	Genic enhancers	Primary B cells from peripheral blood	blood
24	chr17:37921000-37923600	Genic enhancers	GM12878-XiMat	blood
25	chr17:37921000-37923800	Genic enhancers	Primary T killer naive cells fromperipheralblood	blood
26	chr17:37921000-37926600	Genic enhancers	Primary T helper cells fromperipheralblood	blood

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