Variant report

Variant	rs303903
Chromosome Location	chr6:25042940-25042941
allele	A/T
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	PML	chr6:25042170-25043982	GM12878	blood:	n/a	n/a
2	CTCF	chr6:25042900-25043050	HepG2	liver:	n/a	chr6:25042972-25042980 chr6:25042972-25042985 chr6:25042971-25042979
3	CTCF	chr6:25042860-25043010	GM12873	blood:	n/a	chr6:25042972-25042980 chr6:25042972-25042985 chr6:25042971-25042979
4	CTCF	chr6:25042900-25043050	GM12867	blood:	n/a	chr6:25042972-25042980 chr6:25042972-25042985 chr6:25042971-25042979
5	CTCF	chr6:25042925-25042986	GM20000	blood:	n/a	chr6:25042972-25042980 chr6:25042972-25042985 chr6:25042971-25042979
6	CTCF	chr6:25042900-25043050	SAEC	small airway:	n/a	chr6:25042972-25042980 chr6:25042972-25042985 chr6:25042971-25042979
7	CTCF	chr6:25042880-25043030	GM12865	blood:	n/a	chr6:25042972-25042980 chr6:25042972-25042985 chr6:25042971-25042979
8	CEBPB	chr6:25042495-25043183	GM12878	blood:	n/a	n/a
9	CTCF	chr6:25042900-25043050	GM12872	blood:	n/a	chr6:25042972-25042980 chr6:25042972-25042985 chr6:25042971-25042979
10	CTCF	chr6:25042866-25043073	MCF-7	breast:	n/a	chr6:25042972-25042980 chr6:25042972-25042985 chr6:25042971-25042979
11	CTCF	chr6:25042915-25043022	LNCaP	prostate:	n/a	chr6:25042972-25042980 chr6:25042972-25042985 chr6:25042971-25042979
12	FOXM1	chr6:25042320-25043220	GM12878	blood:	n/a	n/a
13	CTCF	chr6:25042900-25043050	WERI-Rb-1	eye:	n/a	chr6:25042972-25042980 chr6:25042972-25042985 chr6:25042971-25042979
14	CTCF	chr6:25042860-25043057	GM19238	blood:	n/a	chr6:25042972-25042980 chr6:25042972-25042985 chr6:25042971-25042979
15	CTCF	chr6:25042919-25043109	Spleen_OC	spleen:	n/a	chr6:25042972-25042980 chr6:25042972-25042985 chr6:25042971-25042979
16	CTCF	chr6:25042860-25043010	HBMEC	blood vessel:	n/a	chr6:25042972-25042980 chr6:25042972-25042985 chr6:25042971-25042979
17	TBP	chr6:25041146-25042953	GM12878	blood:	n/a	n/a
18	CTCF	chr6:25042920-25043028	Hela-S3	cervix:	n/a	chr6:25042972-25042980 chr6:25042972-25042985 chr6:25042971-25042979
19	CTCF	chr6:25042860-25043010	GM12868	blood:	n/a	chr6:25042972-25042980 chr6:25042972-25042985 chr6:25042971-25042979
20	CTCF	chr6:25042920-25043070	GM12871	blood:	n/a	chr6:25042972-25042980 chr6:25042972-25042985 chr6:25042971-25042979
21	RELA	chr6:25042155-25043993	GM18951	blood:	n/a	n/a
22	NFIC	chr6:25041052-25044467	GM12878	blood:	n/a	n/a
23	CTCF	chr6:25042882-25043056	GM12891	blood:	n/a	chr6:25042972-25042980 chr6:25042972-25042985 chr6:25042971-25042979
24	CTCF	chr6:25042840-25042990	GM12878	blood:	n/a	chr6:25042972-25042980 chr6:25042972-25042985 chr6:25042971-25042979
25	FOXM1	chr6:25042741-25043826	GM12878	blood:	n/a	n/a
26	CTCF	chr6:25042900-25043050	Hela-S3	cervix:	n/a	chr6:25042972-25042980 chr6:25042972-25042985 chr6:25042971-25042979
27	MAX	chr6:25042825-25043190	MCF-7	breast:	n/a	n/a
28	CTCF	chr6:25042888-25043043	GM12878	blood:	n/a	chr6:25042972-25042980 chr6:25042972-25042985 chr6:25042971-25042979
29	ZEB1	chr6:25042793-25043163	GM12878	blood:	n/a	chr6:25042968-25042975 chr6:25042966-25042975
30	CTCF	chr6:25042900-25043050	HCT-116	colon:	n/a	chr6:25042972-25042980 chr6:25042972-25042985 chr6:25042971-25042979
31	CTCF	chr6:25042900-25043050	GM12864	blood:	n/a	chr6:25042972-25042980 chr6:25042972-25042985 chr6:25042971-25042979
32	CTCF	chr6:25042880-25043030	HEK293	kidney:	n/a	chr6:25042972-25042980 chr6:25042972-25042985 chr6:25042971-25042979
33	CTCF	chr6:25042900-25043050	GM12875	blood:	n/a	chr6:25042972-25042980 chr6:25042972-25042985 chr6:25042971-25042979
34	CTCF	chr6:25042880-25043030	HRE	kidney:	n/a	chr6:25042972-25042980 chr6:25042972-25042985 chr6:25042971-25042979
35	CTCF	chr6:25042880-25043030	NHEK	skin:	n/a	chr6:25042972-25042980 chr6:25042972-25042985 chr6:25042971-25042979
36	CTCF	chr6:25042851-25043103	MCF-7	breast:	n/a	chr6:25042972-25042980 chr6:25042972-25042985 chr6:25042971-25042979
37	CTCF	chr6:25042882-25043073	MCF-7	breast:	n/a	chr6:25042972-25042980 chr6:25042972-25042985 chr6:25042971-25042979
38	CTCF	chr6:25042860-25043010	GM12874	blood:	n/a	chr6:25042972-25042980 chr6:25042972-25042985 chr6:25042971-25042979
39	CTCF	chr6:25042860-25043010	GM12870	blood:	n/a	chr6:25042972-25042980 chr6:25042972-25042985 chr6:25042971-25042979
40	CTCF	chr6:25042860-25043010	SAEC	small airway:	n/a	chr6:25042972-25042980 chr6:25042972-25042985 chr6:25042971-25042979
41	CHD1	chr6:25041115-25043023	GM12878	blood:	n/a	n/a
42	ZNF143	chr6:25042881-25043148	GM12878	blood:	n/a	n/a
43	POLR2A	chr6:25041928-25043097	Raji	blood:	n/a	n/a
44	CTCF	chr6:25042925-25043000	GM12892	blood:	n/a	chr6:25042972-25042980 chr6:25042972-25042985 chr6:25042971-25042979
45	RAD21	chr6:25042840-25043103	H1-hESC	embryonic stem cell:	n/a	n/a
46	CTCF	chr6:25042920-25043070	GM12864	blood:	n/a	chr6:25042972-25042980 chr6:25042972-25042985 chr6:25042971-25042979
47	CTCF	chr6:25042909-25043040	LNCaP	prostate:	n/a	chr6:25042972-25042980 chr6:25042972-25042985 chr6:25042971-25042979
48	RUNX3	chr6:25042723-25044045	GM12878	blood:	n/a	n/a
49	CTCF	chr6:25042860-25043010	HMEC	breast:	n/a	chr6:25042972-25042980 chr6:25042972-25042985 chr6:25042971-25042979
50	POLR2A	chr6:25042191-25043634	GM12878	blood:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:25029897..25032330-chr6:25040931..25043429,2	K562	blood:

Variant related genes	Relation type
FAM65B	TF binding region
ENSG00000272053	TF binding region
ENSG00000244618	Chromatin interaction

Extended variants
information (count: 6 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:1)

rs_ID	r²[population]
rs303905	1.00[YRI][hapmap]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1022966	chr6:24763776-25154212	Flanking Active TSS Weak transcription Active TSS Enhancers Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
2	nsv538160	chr6:24763776-25154212	Active TSS Strong transcription Flanking Active TSS Enhancers Bivalent Enhancer Weak transcription Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
3	nsv1023989	chr6:24930362-25285679	Weak transcription Active TSS Enhancers Strong transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	43 gene(s)	inside rSNPs	diseases
4	nsv830610	chr6:24951741-25124239	Weak transcription Enhancers Flanking Active TSS Strong transcription Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases
5	nsv830611	chr6:25039374-25199112	Flanking Active TSS Enhancers Strong transcription Weak transcription Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:35 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:25035200-25044600	Weak transcription	Right Atrium	heart
2	chr6:25039000-25043800	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
3	chr6:25040200-25043000	Flanking Active TSS	Primary T helper cells fromperipheralblood	blood
4	chr6:25040600-25043200	Flanking Active TSS	Primary hematopoietic stem cells	blood
5	chr6:25041000-25043000	Flanking Active TSS	Primary T cells from cord blood	blood
6	chr6:25041000-25043000	Flanking Active TSS	Primary hematopoietic stem cells short term culture	blood
7	chr6:25041200-25043000	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
8	chr6:25041400-25043200	Flanking Active TSS	Primary T helper naive cells fromperipheralblood	blood
9	chr6:25041800-25043200	Enhancers	Spleen	Spleen
10	chr6:25041800-25043400	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
11	chr6:25041800-25044000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
12	chr6:25042000-25043000	Weak transcription	Placenta	Placenta
13	chr6:25042200-25043000	Enhancers	Fetal Kidney	kidney
14	chr6:25042200-25050200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
15	chr6:25042400-25043000	Flanking Active TSS	Primary T helper naive cells from peripheral blood	blood
16	chr6:25042400-25043000	Flanking Active TSS	Primary Natural Killer cells fromperipheralblood	blood
17	chr6:25042400-25043200	Flanking Active TSS	Primary T helper 17 cells PMA-I stimulated	--
18	chr6:25042400-25043400	Flanking Active TSS	Primary T helper cells PMA-I stimulated	--
19	chr6:25042400-25043400	Flanking Active TSS	Dnd41	blood
20	chr6:25042400-25044200	Flanking Active TSS	GM12878-XiMat	blood
21	chr6:25042600-25043000	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
22	chr6:25042600-25043000	Flanking Active TSS	Primary T helper memory cells from peripheral blood 2	blood
23	chr6:25042600-25043000	Flanking Active TSS	Primary T killer naive cells fromperipheralblood	blood
24	chr6:25042600-25043000	Flanking Active TSS	Primary T killer memory cells from peripheral blood	blood
25	chr6:25042600-25043000	Flanking Active TSS	Thymus	Thymus
26	chr6:25042800-25043000	Flanking Active TSS	Primary T cells effector/memory enriched fromperipheralblood	blood
27	chr6:25042800-25043200	Flanking Active TSS	Primary T cells fromperipheralblood	blood
28	chr6:25042800-25043200	Flanking Active TSS	Primary T regulatory cells fromperipheralblood	blood
29	chr6:25042800-25043400	Enhancers	Primary mononuclear cells fromperipheralblood	Blood
30	chr6:25042800-25043600	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
31	chr6:25042800-25043800	Enhancers	Primary B cells from cord blood	blood
32	chr6:25042800-25043800	Enhancers	Fetal Thymus	thymus
33	chr6:25042800-25044200	Enhancers	Primary B cells from peripheral blood	blood
34	chr6:25042800-25044400	Weak transcription	HUES64 Cell Line	embryonic stem cell
35	chr6:25042800-25044400	Enhancers	Primary monocytes fromperipheralblood	blood

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