Variant report

Variant	rs10975879
Chromosome Location	chr9:6897357-6897358
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr9:6896046..6898374-chr9:6899883..6901481,2	K562	blood:
2	chr9:6896445..6898374-chr9:6899981..6902743,2	K562	blood:

Variant related genes	Relation type
ENSG00000224972	Chromatin interaction

Extended variants
information (count: 61 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:43)

rs_ID	r²[population]
rs10124740	0.81[CEU][hapmap]
rs10465096	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10758808	1.00[CEU][hapmap];0.86[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs10815472	0.88[CEU][hapmap];0.82[EUR][1000 genomes]
rs10815473	1.00[CEU][hapmap];0.91[EUR][1000 genomes]
rs10815474	0.85[EUR][1000 genomes]
rs10815475	1.00[CEU][hapmap];0.88[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs10815476	0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10815477	0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10815480	1.00[CEU][hapmap];0.81[CHB][hapmap];0.80[YRI][hapmap];0.83[AFR][1000 genomes];0.91[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs10975871	0.83[EUR][1000 genomes]
rs10975872	1.00[CEU][hapmap];0.87[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs10975875	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs10975878	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10975883	0.81[CEU][hapmap];0.84[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs10975884	0.81[CEU][hapmap]
rs10975888	0.87[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs10975889	0.90[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs10975895	0.95[ASN][1000 genomes]
rs10975896	0.94[ASN][1000 genomes]
rs11794905	0.84[ASN][1000 genomes]
rs12375929	0.81[CEU][hapmap];0.84[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs1417293	0.86[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs1557004	1.00[CEU][hapmap];0.84[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs1578324	0.81[ASN][1000 genomes]
rs3802406	1.00[CEU][hapmap];0.81[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs59967511	0.87[ASN][1000 genomes]
rs6477122	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.96[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6477123	1.00[CEU][hapmap];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs6477124	1.00[CEU][hapmap];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs6477125	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs6477126	1.00[CEU][hapmap];0.82[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs6477127	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs7019977	1.00[CEU][hapmap];0.93[YRI][hapmap];0.90[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs7021011	1.00[CEU][hapmap];0.81[CHB][hapmap];0.81[YRI][hapmap];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7021241	1.00[CEU][hapmap];0.82[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7033444	0.81[CEU][hapmap];0.84[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7036701	1.00[CEU][hapmap];0.88[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs7043713	1.00[CEU][hapmap];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs7048678	1.00[CEU][hapmap];0.86[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs7850907	1.00[CEU][hapmap];0.88[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7866109	1.00[CEU][hapmap];0.84[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs946926	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:18 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2752308	chr9:6523060-6899149	Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	73 gene(s)	inside rSNPs	diseases
2	nsv870402	chr9:6565246-7016784	Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	72 gene(s)	inside rSNPs	diseases
3	nsv1033539	chr9:6566610-7022554	Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Weak transcription Strong transcription Active TSS Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	72 gene(s)	inside rSNPs	diseases
4	nsv466111	chr9:6567841-7017391	Strong transcription Enhancers Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	72 gene(s)	inside rSNPs	diseases
5	nsv613208	chr9:6567841-7017391	Flanking Active TSS Weak transcription Enhancers Active TSS ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	72 gene(s)	inside rSNPs	diseases
6	nsv1024831	chr9:6573752-7018641	Enhancers Weak transcription Strong transcription Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	70 gene(s)	inside rSNPs	diseases
7	nsv892166	chr9:6602821-7222495	Strong transcription Enhancers Weak transcription Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	71 gene(s)	inside rSNPs	diseases
8	esv2752309	chr9:6670448-6908200	Weak transcription Active TSS Enhancers Flanking Active TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	70 gene(s)	inside rSNPs	diseases
9	nsv892181	chr9:6680477-7070962	Enhancers Strong transcription Active TSS Weak transcription ZNF genes & repeats Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	70 gene(s)	inside rSNPs	diseases
10	nsv870332	chr9:6694842-6911550	Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	30 gene(s)	inside rSNPs	diseases
11	nsv1016109	chr9:6712314-6924843	Bivalent/Poised TSS Enhancers Flanking Active TSS Weak transcription Genic enhancers Strong transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
12	nsv613252	chr9:6715730-7022554	Strong transcription Weak transcription Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
13	nsv831499	chr9:6723287-6930933	Active TSS Strong transcription Enhancers Weak transcription Flanking Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases
14	nsv1023906	chr9:6731786-7372132	Weak transcription ZNF genes & repeats Enhancers Bivalent Enhancer Strong transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
15	nsv1023461	chr9:6774993-7022554	Weak transcription Enhancers Strong transcription Genic enhancers Active TSS ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
16	nsv831500	chr9:6847952-6992535	Weak transcription Enhancers Strong transcription ZNF genes & repeats Active TSS Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
17	esv1801159	chr9:6865386-6901008	Weak transcription Strong transcription Enhancers Genic enhancers ZNF genes & repeats Active TSS Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
18	nsv831501	chr9:6868099-7058526	Weak transcription Enhancers Genic enhancers Strong transcription ZNF genes & repeats Active TSS Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:105 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:6869200-6898000	Weak transcription	Fetal Muscle Trunk	muscle
2	chr9:6869600-6909400	Weak transcription	Rectal Smooth Muscle	rectum
3	chr9:6869800-6908000	Weak transcription	Fetal Stomach	stomach
4	chr9:6871000-6902200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
5	chr9:6874200-6902400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
6	chr9:6875000-6902600	Weak transcription	HSMM	muscle
7	chr9:6878200-6902400	Weak transcription	NHDF-Ad	bronchial
8	chr9:6878600-6897800	Weak transcription	HSMMtube	muscle
9	chr9:6879800-6902400	Weak transcription	Osteobl	bone
10	chr9:6880800-6907000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
11	chr9:6882800-6912000	Weak transcription	Skeletal Muscle Male	skeletal muscle
12	chr9:6883000-6911800	Weak transcription	Psoas Muscle	Psoas
13	chr9:6884000-6897400	Weak transcription	Fetal Kidney	kidney
14	chr9:6887600-6902600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
15	chr9:6887600-6911800	Weak transcription	Stomach Smooth Muscle	stomach
16	chr9:6887800-6897400	Weak transcription	Cortex derived primary cultured neurospheres	brain
17	chr9:6888400-6902600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
18	chr9:6889600-6929000	Weak transcription	Colon Smooth Muscle	Colon
19	chr9:6890000-6902400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
20	chr9:6890000-6902400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
21	chr9:6890000-6912000	Weak transcription	Spleen	Spleen
22	chr9:6890000-6987200	Weak transcription	Aorta	Aorta
23	chr9:6890200-6900200	Weak transcription	Esophagus	oesophagus
24	chr9:6890400-6911400	Weak transcription	Primary neutrophils fromperipheralblood	blood
25	chr9:6890600-6901400	Weak transcription	A549	lung
26	chr9:6890800-6902400	Weak transcription	Muscle Satellite Cultured Cells	--
27	chr9:6891000-6899600	Weak transcription	Placenta	Placenta
28	chr9:6891600-6901200	Weak transcription	H1 Cell Line	embryonic stem cell
29	chr9:6891800-6902400	Weak transcription	HUES6 Cell Line	embryonic stem cell
30	chr9:6891800-6907000	Weak transcription	HUES64 Cell Line	embryonic stem cell
31	chr9:6892200-6898600	Strong transcription	Monocytes-CD14+_RO01746	blood
32	chr9:6892800-6898200	Strong transcription	Primary monocytes fromperipheralblood	blood
33	chr9:6893000-6909400	Strong transcription	Primary B cells from cord blood	blood
34	chr9:6893800-6897800	Weak transcription	Rectal Mucosa Donor 31	rectum
35	chr9:6893800-6908200	Weak transcription	Colonic Mucosa	Colon
36	chr9:6893800-6981600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
37	chr9:6894000-6897800	Strong transcription	Fetal Thymus	thymus
38	chr9:6894000-6898200	Strong transcription	Primary B cells from peripheral blood	blood
39	chr9:6894000-6902400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
40	chr9:6894000-6921200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
41	chr9:6894400-6902400	Weak transcription	Skeletal Muscle Female	skeletal muscle
42	chr9:6894400-6906800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
43	chr9:6894600-6898200	Strong transcription	Primary T cells from cord blood	blood
44	chr9:6894800-6897400	Weak transcription	Duodenum Smooth Muscle	Duodenum
45	chr9:6894800-6898000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
46	chr9:6894800-6900400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
47	chr9:6894800-6901400	Weak transcription	Primary hematopoietic stem cells	blood
48	chr9:6894800-6902600	Weak transcription	HUES48 Cell Line	embryonic stem cell
49	chr9:6894800-6902800	Weak transcription	Adipose Nuclei	Adipose
50	chr9:6894800-6911800	Weak transcription	Sigmoid Colon	Sigmoid Colon

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