Variant report

Variant	rs11968660
Chromosome Location	chr6:128044401-128044402
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 30 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs11755591	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs11758347	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11967932	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs11968661	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs72963789	0.94[EUR][1000 genomes]
rs72965715	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs72965720	0.81[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs72965725	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs72965729	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs72965734	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs72965737	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs72965742	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs72965748	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs72965750	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72968975	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs72970915	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs72970919	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7454627	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:12 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv886638	chr6:127954614-128087172	Enhancers Strong transcription Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
2	nsv886639	chr6:127954614-128109244	Strong transcription Weak transcription Enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
3	nsv886640	chr6:127961263-128096587	Strong transcription Weak transcription Enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Flanking Active TSS Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
4	nsv886641	chr6:127971136-128085283	Weak transcription Strong transcription Enhancers ZNF genes & repeats Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
5	nsv886642	chr6:127971136-128096587	Weak transcription Enhancers ZNF genes & repeats Strong transcription Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
6	nsv886643	chr6:127971136-128109244	Strong transcription Enhancers Weak transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
7	nsv886644	chr6:127976408-128109244	Weak transcription Genic enhancers Enhancers Strong transcription ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
8	nsv886645	chr6:127977160-128085283	Strong transcription Enhancers Weak transcription Genic enhancers ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
9	nsv886646	chr6:127977160-128087172	Weak transcription Strong transcription Enhancers Genic enhancers ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
10	nsv886647	chr6:127977160-128109244	Enhancers Weak transcription Strong transcription Genic enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
11	nsv886648	chr6:127983009-128109244	Enhancers Weak transcription Genic enhancers Strong transcription ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
12	nsv830799	chr6:128033100-128194511	Genic enhancers Enhancers Weak transcription Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:18 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:128024600-128051400	Strong transcription	Fetal Thymus	thymus
2	chr6:128025200-128047400	Strong transcription	Primary T cells from cord blood	blood
3	chr6:128026400-128049200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
4	chr6:128039800-128045400	Weak transcription	Colon Smooth Muscle	Colon
5	chr6:128039800-128046000	Weak transcription	Rectal Smooth Muscle	rectum
6	chr6:128039800-128069200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
7	chr6:128040400-128044600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
8	chr6:128040400-128052200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
9	chr6:128041000-128048600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
10	chr6:128041200-128050400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
11	chr6:128043400-128046600	Weak transcription	Ovary	ovary
12	chr6:128043800-128045600	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
13	chr6:128043800-128045600	Strong transcription	Thymus	Thymus
14	chr6:128043800-128047000	Strong transcription	Primary T cells fromperipheralblood	blood
15	chr6:128044000-128045800	Strong transcription	Primary T helper cells PMA-I stimulated	--
16	chr6:128044400-128044600	Strong transcription	Primary T helper naive cells from peripheral blood	blood
17	chr6:128044400-128045000	Strong transcription	Primary T helper cells fromperipheralblood	blood
18	chr6:128044400-128045800	Genic enhancers	Primary T killer naive cells fromperipheralblood	blood

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dbSNP/dbVar ID: rs12345 /nsv7879
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