Variant report

Variant	rs7873365
Chromosome Location	chr9:6899149-6899150
allele	A/G
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	SP1	chr9:6899149-6899780	HepG2	liver:	n/a	n/a
2	FOXA2	chr9:6898933-6899679	HepG2	liver:	n/a	n/a
3	NFIC	chr9:6899115-6899760	HepG2	liver:	n/a	n/a
4	ARID3A	chr9:6899014-6899731	HepG2	liver:	n/a	n/a
5	FOXA1	chr9:6899133-6899809	HepG2	liver:	n/a	n/a
6	FOXA1	chr9:6899097-6899789	HepG2	liver:	n/a	n/a
7	TCF7L2	chr9:6899036-6899507	HepG2	liver:	n/a	n/a
8	MYBL2	chr9:6899107-6899822	HepG2	liver:	n/a	n/a

Variant related genes	Relation type
ENSG00000224972	TF binding region

Extended variants
information (count: 29 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs10117958	0.85[CHB][hapmap];0.97[GIH][hapmap];1.00[TSI][hapmap];0.82[EUR][1000 genomes]
rs10120163	0.81[GIH][hapmap];1.00[TSI][hapmap]
rs10975874	0.85[CHB][hapmap];0.82[EUR][1000 genomes]
rs10975890	0.82[CEU][hapmap]
rs10975902	1.00[TSI][hapmap]
rs10975906	1.00[TSI][hapmap]
rs10975922	1.00[TSI][hapmap]
rs12342436	0.82[CEU][hapmap]
rs13440337	1.00[TSI][hapmap]
rs3818890	0.82[CEU][hapmap]
rs946927	1.00[TSI][hapmap]

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:96 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:6869600-6909400	Weak transcription	Rectal Smooth Muscle	rectum
2	chr9:6869800-6908000	Weak transcription	Fetal Stomach	stomach
3	chr9:6871000-6902200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
4	chr9:6874200-6902400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
5	chr9:6875000-6902600	Weak transcription	HSMM	muscle
6	chr9:6878200-6902400	Weak transcription	NHDF-Ad	bronchial
7	chr9:6879800-6902400	Weak transcription	Osteobl	bone
8	chr9:6880800-6907000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
9	chr9:6882800-6912000	Weak transcription	Skeletal Muscle Male	skeletal muscle
10	chr9:6883000-6911800	Weak transcription	Psoas Muscle	Psoas
11	chr9:6887600-6902600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
12	chr9:6887600-6911800	Weak transcription	Stomach Smooth Muscle	stomach
13	chr9:6888400-6902600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
14	chr9:6889600-6929000	Weak transcription	Colon Smooth Muscle	Colon
15	chr9:6890000-6902400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
16	chr9:6890000-6902400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
17	chr9:6890000-6912000	Weak transcription	Spleen	Spleen
18	chr9:6890000-6987200	Weak transcription	Aorta	Aorta
19	chr9:6890200-6900200	Weak transcription	Esophagus	oesophagus
20	chr9:6890400-6911400	Weak transcription	Primary neutrophils fromperipheralblood	blood
21	chr9:6890600-6901400	Weak transcription	A549	lung
22	chr9:6890800-6902400	Weak transcription	Muscle Satellite Cultured Cells	--
23	chr9:6891000-6899600	Weak transcription	Placenta	Placenta
24	chr9:6891600-6901200	Weak transcription	H1 Cell Line	embryonic stem cell
25	chr9:6891800-6902400	Weak transcription	HUES6 Cell Line	embryonic stem cell
26	chr9:6891800-6907000	Weak transcription	HUES64 Cell Line	embryonic stem cell
27	chr9:6893000-6909400	Strong transcription	Primary B cells from cord blood	blood
28	chr9:6893800-6908200	Weak transcription	Colonic Mucosa	Colon
29	chr9:6893800-6981600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
30	chr9:6894000-6902400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
31	chr9:6894000-6921200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
32	chr9:6894400-6902400	Weak transcription	Skeletal Muscle Female	skeletal muscle
33	chr9:6894400-6906800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
34	chr9:6894800-6900400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
35	chr9:6894800-6901400	Weak transcription	Primary hematopoietic stem cells	blood
36	chr9:6894800-6902600	Weak transcription	HUES48 Cell Line	embryonic stem cell
37	chr9:6894800-6902800	Weak transcription	Adipose Nuclei	Adipose
38	chr9:6894800-6911800	Weak transcription	Sigmoid Colon	Sigmoid Colon
39	chr9:6894800-6912000	Weak transcription	Fetal Muscle Leg	muscle
40	chr9:6894800-6922000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
41	chr9:6894800-6931600	Weak transcription	Dnd41	blood
42	chr9:6895000-6902400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
43	chr9:6895200-6905400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
44	chr9:6895400-6901600	Weak transcription	Primary T helper cells fromperipheralblood	blood
45	chr9:6895400-6902400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
46	chr9:6895400-6902600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
47	chr9:6895600-6899200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
48	chr9:6895600-6902400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
49	chr9:6895600-6902400	Weak transcription	Left Ventricle	heart
50	chr9:6895600-6902400	Weak transcription	Right Ventricle	heart

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