Variant report

Variant	rs576714850
Chromosome Location	chr6:1390020-1390021
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	EGR1	chr6:1389436-1390223	H1-hESC	embryonic stem cell:	n/a	n/a
2	POLR2A	chr6:1389734-1390141	MCF10A-Er-Src	breast:	n/a	n/a
3	POLR2A	chr6:1389366-1390078	HEK293	kidney:	n/a	n/a
4	CEBPB	chr6:1389752-1390118	HepG2	liver:	n/a	chr6:1389929-1389938 chr6:1389929-1389938 chr6:1389929-1389938 chr6:1389929-1389938
5	POLR2A	chr6:1389741-1391081	A549	lung:	n/a	n/a
6	CEBPB	chr6:1389738-1390126	Hela-S3	cervix:	n/a	chr6:1389929-1389938 chr6:1389929-1389938 chr6:1389929-1389938 chr6:1389929-1389938
7	SMARCB1	chr6:1389746-1391674	Hela-S3	cervix:	n/a	n/a
8	POLR2A	chr6:1389666-1390132	Hela-S3	cervix:	n/a	n/a
9	MAZ	chr6:1388958-1390677	IMR90	lung:	n/a	chr6:1389407-1389417
10	CEBPB	chr6:1389743-1390112	K562	blood:	n/a	chr6:1389929-1389938 chr6:1389929-1389938 chr6:1389929-1389938 chr6:1389929-1389938
11	ZNF263	chr6:1388324-1390160	HEK293-T-REx	kidney:	n/a	chr6:1389597-1389606 chr6:1388635-1388644 chr6:1388634-1388655
12	POLR2A	chr6:1389657-1391996	Hela-S3	cervix:	n/a	n/a
13	CEBPB	chr6:1389779-1390104	HepG2	liver:	n/a	chr6:1389929-1389938 chr6:1389929-1389938 chr6:1389929-1389938 chr6:1389929-1389938
14	CEBPB	chr6:1389808-1390073	HepG2	liver:	n/a	chr6:1389929-1389938 chr6:1389929-1389938 chr6:1389929-1389938 chr6:1389929-1389938
15	POLR2A	chr6:1389690-1390122	IMR90	lung:	n/a	n/a
16	CTBP2	chr6:1389053-1391565	H1-hESC	embryonic stem cell:	n/a	n/a
17	POLR2A	chr6:1389213-1390169	Hela-S3	cervix:	n/a	n/a
18	POLR2A	chr6:1389962-1390076	A549	lung:	n/a	n/a
19	RCOR1	chr6:1389544-1390033	Hela-S3	cervix:	n/a	n/a
20	MAZ	chr6:1389524-1390075	Hela-S3	cervix:	n/a	n/a
21	FOXP2	chr6:1389567-1390057	PFSK-1	brain:	n/a	n/a
22	CEBPD	chr6:1389791-1390068	HepG2	liver:	n/a	chr6:1389929-1389938
23	HDAC2	chr6:1389744-1390067	HepG2	liver:	n/a	n/a
24	MAX	chr6:1389680-1390062	Hela-S3	cervix:	n/a	n/a
25	CEBPB	chr6:1389787-1390147	ECC-1	luminal epithelium:	n/a	chr6:1389929-1389938 chr6:1389929-1389938 chr6:1389929-1389938 chr6:1389929-1389938
26	POLR2A	chr6:1389740-1390106	Hela-S3	cervix:	n/a	n/a
27	POLR2A	chr6:1389766-1390170	MCF10A-Er-Src	breast:	n/a	n/a
28	E2F1	chr6:1389765-1391236	Hela-S3	cervix:	n/a	chr6:1390438-1390449 chr6:1390075-1390084
29	POLR2A	chr6:1389732-1390127	A549	lung:	n/a	n/a
30	HA-E2F1	chr6:1389604-1391383	Hela-S3	cervix:	n/a	chr6:1390438-1390449 chr6:1390075-1390084
31	CEBPB	chr6:1389728-1390126	A549	lung:	n/a	chr6:1389929-1389938 chr6:1389929-1389938 chr6:1389929-1389938 chr6:1389929-1389938
32	CEBPB	chr6:1389781-1390116	A549	lung:	n/a	chr6:1389929-1389938 chr6:1389929-1389938 chr6:1389929-1389938 chr6:1389929-1389938
33	CEBPB	chr6:1389739-1390124	IMR90	lung:	n/a	chr6:1389929-1389938 chr6:1389929-1389938 chr6:1389929-1389938 chr6:1389929-1389938
34	CEBPB	chr6:1389752-1390066	H1-hESC	embryonic stem cell:	n/a	chr6:1389929-1389938 chr6:1389929-1389938 chr6:1389929-1389938 chr6:1389929-1389938
35	POLR2A	chr6:1389991-1390084	A549	lung:	n/a	n/a
36	CHD1	chr6:1388277-1394777	IMR90	lung:	n/a	chr6:1389414-1389424
37	POLR2A	chr6:1389744-1390063	Hela-S3	cervix:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:1389385..1390191-chr9:130213802..130214756,2	Hela-S3	cervix:

Variant related genes	Relation type
FOXF2	TF binding region
ENSG00000261730	TF binding region
ENSG00000148356	Chromatin interaction

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

Variant overlapped rSNPs/rCNVs (count:20 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1024111	chr6:1231850-1730146	Flanking Active TSS Bivalent/Poised TSS Active TSS Enhancers Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Weak transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
2	nsv883369	chr6:1244837-1416849	Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
3	nsv1017614	chr6:1248650-1423502	Flanking Bivalent TSS/Enh Bivalent Enhancer Active TSS Flanking Active TSS Bivalent/Poised TSS Enhancers Weak transcription Strong transcription Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
4	nsv1021924	chr6:1254891-1736995	Flanking Active TSS Enhancers Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Weak transcription Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
5	nsv538082	chr6:1254891-1736995	Bivalent/Poised TSS Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Weak transcription Transcr. at gene 5' and 3' Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
6	nsv1029972	chr6:1307337-1391814	Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS Flanking Active TSS Weak transcription Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	9 gene(s)	inside rSNPs	diseases
7	nsv1015744	chr6:1307337-1395551	Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Weak transcription Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA	9 gene(s)	inside rSNPs	diseases
8	nsv1027053	chr6:1307337-1397924	Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS Weak transcription Enhancers Flanking Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
9	nsv1027089	chr6:1313404-1391814	Flanking Bivalent TSS/Enh Weak transcription Bivalent Enhancer Enhancers Transcr. at gene 5' and 3' Flanking Active TSS Active TSS Bivalent/Poised TSS Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	8 gene(s)	inside rSNPs	diseases
10	nsv1031351	chr6:1313404-1395551	Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Enhancers Transcr. at gene 5' and 3' Active TSS Flanking Active TSS Weak transcription Strong transcription ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA	8 gene(s)	inside rSNPs	diseases
11	nsv1028654	chr6:1313404-1397924	Flanking Bivalent TSS/Enh Weak transcription Active TSS Bivalent Enhancer Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Enhancers ZNF genes & repeats Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
12	nsv1022280	chr6:1313404-1406015	Bivalent/Poised TSS Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Enhancers Weak transcription Transcr. at gene 5' and 3' Strong transcription Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
13	nsv538087	chr6:1313404-1406015	Enhancers Weak transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
14	nsv883370	chr6:1349828-1426790	Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Weak transcription Strong transcription Flanking Active TSS Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	5 gene(s)	inside rSNPs	diseases
15	nsv917248	chr6:1365437-1627813	Bivalent/Poised TSS Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Weak transcription ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	37 gene(s)	inside rSNPs	diseases
16	nsv883371	chr6:1374277-1416849	Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Active TSS Enhancers Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
17	nsv883372	chr6:1374277-1426790	Bivalent Enhancer Enhancers Weak transcription Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	5 gene(s)	inside rSNPs	diseases
18	esv3340220	chr6:1388928-1391901	Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS Weak transcription Transcr. at gene 5' and 3' Enhancers	TF binding region CpG island Chromatin interactive region miRNA	4 gene(s)	inside rSNPs	n/a
19	esv3326377	chr6:1388978-1391526	Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Enhancers Weak transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region miRNA	4 gene(s)	inside rSNPs	n/a
20	esv3375080	chr6:1389978-1392526	Bivalent Enhancer Flanking Active TSS Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Weak transcription Enhancers	TF binding region CpG island Chromatin interactive region miRNA	4 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:73 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:1387400-1390800	Bivalent/Poised TSS	Colonic Mucosa	Colon
2	chr6:1387600-1390800	Active TSS	NHLF	lung
3	chr6:1387800-1392800	Active TSS	Colon Smooth Muscle	Colon
4	chr6:1388000-1390600	Enhancers	Spleen	Spleen
5	chr6:1388000-1395200	Bivalent/Poised TSS	Rectal Mucosa Donor 31	rectum
6	chr6:1388200-1394400	Bivalent/Poised TSS	Fetal Lung	lung
7	chr6:1388400-1390600	Active TSS	Lung	lung
8	chr6:1388400-1391400	Bivalent/Poised TSS	H9 Cell Line	embryonic stem cell
9	chr6:1388600-1390400	Bivalent Enhancer	Primary hematopoietic stem cells G-CSF-mobilized Female	--
10	chr6:1388600-1393000	Active TSS	NHDF-Ad	bronchial
11	chr6:1388800-1390600	Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
12	chr6:1388800-1391800	Bivalent Enhancer	Liver	Liver
13	chr6:1389000-1391200	Active TSS	Right Atrium	heart
14	chr6:1389000-1391400	Bivalent/Poised TSS	iPS-18 Cell Line	embryonic stem cell
15	chr6:1389000-1391800	Bivalent/Poised TSS	iPS-15b Cell Line	embryonic stem cell
16	chr6:1389000-1392600	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
17	chr6:1389200-1390600	Bivalent/Poised TSS	Ganglion Eminence derived primary cultured neurospheres	brain
18	chr6:1389200-1390800	Active TSS	Aorta	Aorta
19	chr6:1389200-1391000	Bivalent/Poised TSS	HUES48 Cell Line	embryonic stem cell
20	chr6:1389200-1391000	Active TSS	Sigmoid Colon	Sigmoid Colon
21	chr6:1389200-1391400	Bivalent/Poised TSS	HUES64 Cell Line	embryonic stem cell
22	chr6:1389200-1391400	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
23	chr6:1389200-1391800	Bivalent/Poised TSS	HUES6 Cell Line	embryonic stem cell
24	chr6:1389400-1390200	Weak transcription	Gastric	stomach
25	chr6:1389400-1390200	Active TSS	Pancreas	Pancrea
26	chr6:1389400-1390400	Bivalent/Poised TSS	H1 Cell Line	embryonic stem cell
27	chr6:1389400-1390400	Bivalent Enhancer	H1 Derived Mesenchymal Stem Cells	ES cell derived
28	chr6:1389400-1390400	Bivalent Enhancer	ES-UCSF4 Cell Line	embryonic stem cell
29	chr6:1389400-1390400	Active TSS	Psoas Muscle	Psoas
30	chr6:1389400-1390400	Bivalent/Poised TSS	Skeletal Muscle Female	skeletal muscle
31	chr6:1389400-1391200	Bivalent/Poised TSS	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
32	chr6:1389400-1391200	Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
33	chr6:1389400-1391200	Active TSS	Stomach Smooth Muscle	stomach
34	chr6:1389600-1390200	Bivalent/Poised TSS	Right Ventricle	heart
35	chr6:1389600-1390200	Weak transcription	A549	lung
36	chr6:1389600-1390400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
37	chr6:1389600-1390400	Bivalent/Poised TSS	Cortex derived primary cultured neurospheres	brain
38	chr6:1389600-1390400	Bivalent/Poised TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
39	chr6:1389600-1390400	Bivalent/Poised TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
40	chr6:1389600-1390400	Active TSS	Foreskin Melanocyte Primary Cells skin03	Skin
41	chr6:1389600-1390400	Active TSS	Adipose Nuclei	Adipose
42	chr6:1389600-1390400	Bivalent Enhancer	Monocytes-CD14+_RO01746	blood
43	chr6:1389600-1390600	Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
44	chr6:1389600-1390800	Bivalent/Poised TSS	HepG2	liver
45	chr6:1389600-1391000	Bivalent/Poised TSS	HSMM	muscle
46	chr6:1389600-1391200	Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
47	chr6:1389600-1391200	Active TSS	Osteobl	bone
48	chr6:1389600-1392800	Active TSS	Hela-S3	cervix
49	chr6:1389800-1390200	Bivalent/Poised TSS	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
50	chr6:1389800-1390200	Flanking Bivalent TSS/Enh	Primary hematopoietic stem cells G-CSF-mobilized Male	--

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links