Variant report

Variant	rs10256826
Chromosome Location	chr7:149423250-149423251
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr7:149419104..149420797-chr7:149422409..149423917,2	MCF-7	breast:
2	chr7:149410965..149413404-chr7:149421372..149424384,3	K562	blood:

Variant related genes	Relation type
ENSG00000133619	Chromatin interaction

Extended variants
information (count: 41 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:32)

rs_ID	r²[population]
rs10231875	0.92[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10240931	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10256935	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10258658	0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10262457	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.93[MEX][hapmap];0.97[TSI][hapmap];0.83[YRI][hapmap];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10952835	0.94[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11979707	0.94[EUR][1000 genomes]
rs12666315	0.96[GIH][hapmap]
rs12670882	0.95[EUR][1000 genomes]
rs17171280	1.00[CEU][hapmap];1.00[CHB][hapmap];0.86[JPT][hapmap];0.94[TSI][hapmap];0.97[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs28647767	0.81[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs55727837	0.97[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56226490	0.94[EUR][1000 genomes]
rs56265968	0.92[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs57003278	0.93[AFR][1000 genomes]
rs60047316	0.92[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs60647533	0.92[EUR][1000 genomes]
rs66588543	0.94[EUR][1000 genomes]
rs67491931	0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs67647638	0.96[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs67657627	0.96[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs68129719	0.98[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs68139633	0.95[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6974082	0.96[GIH][hapmap]
rs73479712	0.98[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7791608	0.94[ASW][hapmap];0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.89[MKK][hapmap];1.00[TSI][hapmap];0.86[YRI][hapmap];0.81[AFR][1000 genomes];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7804205	0.87[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7808442	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs867152	0.95[EUR][1000 genomes]
rs885651	0.94[ASW][hapmap];0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];0.98[LWK][hapmap];0.87[MEX][hapmap];0.94[MKK][hapmap];0.97[TSI][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs885652	0.91[CEU][hapmap];1.00[CHB][hapmap];0.92[GIH][hapmap];0.86[JPT][hapmap];0.80[MEX][hapmap];0.94[TSI][hapmap];0.95[EUR][1000 genomes]
rs885653	0.91[CEU][hapmap];1.00[CHB][hapmap];0.86[JPT][hapmap];0.91[TSI][hapmap];0.95[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1034350	chr7:149264094-149666356	Weak transcription ZNF genes & repeats Enhancers Flanking Bivalent TSS/Enh Strong transcription Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
2	nsv539190	chr7:149264094-149666356	Flanking Active TSS Genic enhancers Weak transcription Active TSS Enhancers Bivalent Enhancer ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
3	nsv1023901	chr7:149364044-149747442	Enhancers Weak transcription Active TSS Bivalent Enhancer Strong transcription Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
4	nsv539191	chr7:149364044-149747442	Active TSS Enhancers Strong transcription Weak transcription Genic enhancers Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
5	nsv469576	chr7:149379626-149563233	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Strong transcription Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
6	nsv1031581	chr7:149386249-149570178	Weak transcription Flanking Active TSS Active TSS Enhancers Bivalent Enhancer ZNF genes & repeats Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
7	nsv539192	chr7:149386249-149570178	Genic enhancers Weak transcription Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Bivalent Enhancer Bivalent/Poised TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
8	nsv465199	chr7:149398065-149462621	Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS Strong transcription Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
9	nsv608979	chr7:149398065-149462621	Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Enhancers Bivalent/Poised TSS Strong transcription Weak transcription Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	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
rs10256826	ABCF2	cis	parietal	SCAN
rs10256826	ZNF862	cis	cerebellum	SCAN

Chromatin state (count:120 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:149412800-149438800	Weak transcription	Pancreatic Islets	Pancreatic Islet
2	chr7:149413000-149424000	Weak transcription	Fetal Kidney	kidney
3	chr7:149413000-149433200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
4	chr7:149413200-149426200	Weak transcription	Rectal Mucosa Donor 29	rectum
5	chr7:149413200-149432000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
6	chr7:149413200-149433600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
7	chr7:149413400-149424600	Weak transcription	HUVEC	blood vessel
8	chr7:149413400-149433400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
9	chr7:149414000-149430200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
10	chr7:149414800-149438800	Weak transcription	Fetal Brain Male	brain
11	chr7:149416000-149431200	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
12	chr7:149416000-149431400	Strong transcription	Ovary	ovary
13	chr7:149416000-149431600	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr7:149416000-149431800	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
15	chr7:149416000-149432000	Strong transcription	Fetal Intestine Small	intestine
16	chr7:149416000-149432400	Strong transcription	Primary T cells from cord blood	blood
17	chr7:149416000-149432800	Strong transcription	Fetal Brain Female	brain
18	chr7:149416200-149431000	Strong transcription	Primary T helper cells fromperipheralblood	blood
19	chr7:149416400-149432200	Strong transcription	Brain Germinal Matrix	brain
20	chr7:149416600-149424200	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
21	chr7:149416600-149430400	Strong transcription	Spleen	Spleen
22	chr7:149416600-149431400	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
23	chr7:149416600-149431600	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
24	chr7:149416800-149423400	Strong transcription	NHEK	skin
25	chr7:149416800-149425200	Strong transcription	Esophagus	oesophagus
26	chr7:149416800-149431000	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
27	chr7:149416800-149431400	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
28	chr7:149416800-149431800	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
29	chr7:149417000-149430200	Strong transcription	H9 Cell Line	embryonic stem cell
30	chr7:149417400-149423400	Strong transcription	Duodenum Smooth Muscle	Duodenum
31	chr7:149417400-149431400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
32	chr7:149417400-149431400	Strong transcription	Thymus	Thymus
33	chr7:149417600-149423400	Strong transcription	Primary T helper cells PMA-I stimulated	--
34	chr7:149417600-149423800	Strong transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
35	chr7:149417600-149424200	Weak transcription	HSMMtube	muscle
36	chr7:149417600-149432000	Strong transcription	Foreskin Fibroblast Primary Cells skin02	Skin
37	chr7:149417600-149432800	Strong transcription	Fetal Stomach	stomach
38	chr7:149417600-149438800	Weak transcription	GM12878-XiMat	blood
39	chr7:149417800-149424200	Strong transcription	iPS-18 Cell Line	embryonic stem cell
40	chr7:149417800-149427400	Strong transcription	HUES48 Cell Line	embryonic stem cell
41	chr7:149417800-149430800	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
42	chr7:149417800-149431600	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
43	chr7:149418000-149423400	Strong transcription	NHLF	lung
44	chr7:149418000-149426400	Weak transcription	Psoas Muscle	Psoas
45	chr7:149418000-149427000	Strong transcription	Fetal Lung	lung
46	chr7:149418000-149427200	Strong transcription	Fetal Intestine Large	intestine
47	chr7:149418000-149429000	Weak transcription	NHDF-Ad	bronchial
48	chr7:149418000-149430400	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
49	chr7:149418000-149430400	Strong transcription	Lung	lung
50	chr7:149418000-149430800	Strong transcription	Aorta	Aorta

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