Variant report

Variant	rs2562787
Chromosome Location	chr7:26335922-26335923
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr7:26331702..26333313-chr7:26334773..26336506,2	MCF-7	breast:
2	chr7:26335544..26340174-chr7:26340481..26343647,5	K562	blood:
3	chr7:26335516..26340174-chr7:26340453..26343647,5	K562	blood:
4	chr7:26240319..26241875-chr7:26333855..26336720,2	K562	blood:

Variant related genes	Relation type
ENSG00000122565	Chromatin interaction
ENSG00000086300	Chromatin interaction
ENSG00000122566	Chromatin interaction

Extended variants
information (count: 20 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs11770835	0.88[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs17153451	1.00[JPT][hapmap]
rs2391267	0.88[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs2562788	1.00[CEU][hapmap];1.00[CHB][hapmap];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2893246	1.00[JPT][hapmap]
rs4263654	1.00[JPT][hapmap]
rs60123787	1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6461931	1.00[JPT][hapmap]
rs66824314	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6967109	1.00[JPT][hapmap]
rs73066415	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73066420	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73066426	1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs73066502	1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7805221	0.88[AMR][1000 genomes];0.89[ASN][1000 genomes]

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	nsv1021308	chr7:26116605-26419720	Weak transcription Active TSS Enhancers Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	166 gene(s)	inside rSNPs	diseases
2	nsv1018971	chr7:26161228-26380361	Strong transcription Flanking Active TSS Weak transcription Genic enhancers Enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	165 gene(s)	inside rSNPs	diseases
3	nsv1018352	chr7:26298095-26341825	Active TSS Enhancers Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
4	nsv1029596	chr7:26302739-26737913	Flanking Active TSS Weak transcription Enhancers Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Active TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases
5	nsv538804	chr7:26302739-26737913	Strong transcription Weak transcription Flanking Active TSS Enhancers Genic enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:43 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:26332400-26347000	Weak transcription	HMEC	breast
2	chr7:26332600-26337200	Weak transcription	Lung	lung
3	chr7:26332600-26347400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
4	chr7:26332600-26347400	Weak transcription	Sigmoid Colon	Sigmoid Colon
5	chr7:26332800-26342000	Weak transcription	Fetal Intestine Small	intestine
6	chr7:26332800-26343000	Weak transcription	Spleen	Spleen
7	chr7:26332800-26346200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
8	chr7:26332800-26346400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
9	chr7:26332800-26346600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
10	chr7:26333400-26344600	Weak transcription	Placenta	Placenta
11	chr7:26333600-26346600	Weak transcription	Brain Inferior Temporal Lobe	brain
12	chr7:26333600-26351400	Weak transcription	Skeletal Muscle Female	skeletal muscle
13	chr7:26333800-26346800	Weak transcription	Pancreas	Pancrea
14	chr7:26334000-26337800	Weak transcription	Liver	Liver
15	chr7:26334000-26338400	Weak transcription	Brain Cingulate Gyrus	brain
16	chr7:26334000-26341000	Weak transcription	HepG2	liver
17	chr7:26334200-26338600	Genic enhancers	Primary B cells from peripheral blood	blood
18	chr7:26334200-26346200	Weak transcription	K562	blood
19	chr7:26334400-26341000	Weak transcription	Brain Angular Gyrus	brain
20	chr7:26334600-26340200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
21	chr7:26334600-26344800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
22	chr7:26334600-26344800	Weak transcription	Thymus	Thymus
23	chr7:26334800-26337400	Genic enhancers	Primary B cells from cord blood	blood
24	chr7:26334800-26340800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
25	chr7:26335000-26336000	Genic enhancers	Monocytes-CD14+_RO01746	blood
26	chr7:26335000-26336200	Genic enhancers	Primary Natural Killer cells fromperipheralblood	blood
27	chr7:26335000-26340600	Weak transcription	Primary T cells fromperipheralblood	blood
28	chr7:26335000-26340800	Weak transcription	Primary T cells from cord blood	blood
29	chr7:26335000-26344600	Weak transcription	Fetal Thymus	thymus
30	chr7:26335000-26344800	Weak transcription	Primary T helper cells fromperipheralblood	blood
31	chr7:26335000-26353000	Weak transcription	GM12878-XiMat	blood
32	chr7:26335200-26336000	Genic enhancers	Primary neutrophils fromperipheralblood	blood
33	chr7:26335200-26336600	Genic enhancers	Primary monocytes fromperipheralblood	blood
34	chr7:26335200-26340000	Weak transcription	Primary hematopoietic stem cells	blood
35	chr7:26335200-26342200	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
36	chr7:26335200-26344800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
37	chr7:26335200-26344800	Weak transcription	Primary T helper cells PMA-I stimulated	--
38	chr7:26335200-26344800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
39	chr7:26335200-26386400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
40	chr7:26335400-26340600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
41	chr7:26335400-26343200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
42	chr7:26335600-26336400	Enhancers	Fetal Brain Male	brain
43	chr7:26335800-26337800	Weak transcription	Primary hematopoietic stem cells short term culture	blood

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