Variant report

Variant	rs62390618
Chromosome Location	chr6:1626055-1626056
allele	C/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	SUZ12	chr6:1623838-1626528	NT2-D1	testis:	n/a	n/a

Variant related genes	Relation type
GMDS	TF binding region

Extended variants
information (count: 23 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:4)

rs_ID	r²[population]
rs11759759	0.83[AFR][1000 genomes]
rs62390615	0.83[AFR][1000 genomes]
rs62390617	0.83[AFR][1000 genomes]
rs62390636	1.00[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:19 , 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	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
3	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
4	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
5	nsv1034039	chr6:1427061-1691837	Enhancers Flanking Bivalent TSS/Enh Weak transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Active TSS 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 target site	32 gene(s)	inside rSNPs	diseases
6	nsv538088	chr6:1427061-1691837	Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Active TSS Enhancers Weak transcription ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
7	nsv530548	chr6:1441421-2351608	Weak transcription Enhancers Bivalent/Poised TSS ZNF genes & repeats Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	76 gene(s)	inside rSNPs	diseases
8	nsv1027393	chr6:1446300-1692019	Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Enhancers Active TSS Transcr. at gene 5' and 3' Strong transcription Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
9	nsv538089	chr6:1446300-1692019	Bivalent Enhancer Weak transcription Active TSS Enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
10	nsv1016859	chr6:1460020-1645819	Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS Enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
11	nsv883376	chr6:1535043-1635082	Flanking Bivalent TSS/Enh Bivalent/Poised TSS Strong transcription Bivalent Enhancer Enhancers Flanking Active TSS Weak transcription Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
12	nsv491607	chr6:1580681-1951526	Strong transcription Weak transcription Enhancers Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Active TSS Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
13	nsv1016594	chr6:1590030-1702529	Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription Weak transcription Bivalent/Poised TSS Active TSS Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
14	nsv823394	chr6:1590091-1629146	Flanking Bivalent TSS/Enh Bivalent Enhancer Enhancers Bivalent/Poised TSS Weak transcription Flanking Active TSS 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 target site	24 gene(s)	inside rSNPs	diseases
15	nsv883379	chr6:1593851-1628902	Bivalent Enhancer Flanking Bivalent TSS/Enh Enhancers Weak transcription Bivalent/Poised TSS Flanking Active TSS Strong transcription Active TSS Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
16	nsv823395	chr6:1595031-1629521	Bivalent Enhancer Enhancers Flanking Bivalent TSS/Enh Weak transcription Bivalent/Poised TSS Active TSS Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
17	nsv883381	chr6:1595216-1628902	Flanking Active TSS Active TSS Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
18	nsv823396	chr6:1597359-1629106	Bivalent Enhancer Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Weak transcription Strong transcription Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
19	nsv530888	chr6:1605768-1739933	Flanking Bivalent TSS/Enh Enhancers Weak transcription Bivalent Enhancer Bivalent/Poised TSS Strong transcription Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:1616800-1631400	Weak transcription	Hela-S3	cervix
2	chr6:1622400-1626600	Strong transcription	HepG2	liver
3	chr6:1622600-1629000	Active TSS	Aorta	Aorta
4	chr6:1623400-1626800	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
5	chr6:1624000-1626800	Bivalent/Poised TSS	Brain Dorsolateral Prefrontal Cortex	brain
6	chr6:1624400-1626400	Bivalent/Poised TSS	iPS-15b Cell Line	embryonic stem cell
7	chr6:1624400-1626600	Bivalent/Poised TSS	Brain Anterior Caudate	brain
8	chr6:1625200-1634000	Weak transcription	Gastric	stomach
9	chr6:1625400-1626400	Flanking Bivalent TSS/Enh	HUVEC	blood vessel
10	chr6:1625600-1626200	Bivalent Enhancer	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
11	chr6:1625600-1627000	Flanking Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
12	chr6:1625800-1626200	Bivalent Enhancer	ES-I3 Cell Line	embryonic stem cell
13	chr6:1625800-1626200	Bivalent Enhancer	Ganglion Eminence derived primary cultured neurospheres	brain
14	chr6:1625800-1626200	Bivalent Enhancer	Liver	Liver
15	chr6:1625800-1626200	Bivalent/Poised TSS	Skeletal Muscle Male	skeletal muscle
16	chr6:1625800-1626400	Bivalent Enhancer	HUES6 Cell Line	embryonic stem cell
17	chr6:1625800-1626400	Bivalent Enhancer	Primary monocytes fromperipheralblood	blood
18	chr6:1625800-1626400	Bivalent Enhancer	Primary neutrophils fromperipheralblood	blood
19	chr6:1625800-1626400	Bivalent Enhancer	Primary hematopoietic stem cells short term culture	blood
20	chr6:1625800-1626400	Bivalent Enhancer	Primary T helper memory cells from peripheral blood 2	blood
21	chr6:1625800-1626400	Bivalent Enhancer	Primary T helper 17 cells PMA-I stimulated	--
22	chr6:1625800-1626400	Bivalent Enhancer	Primary Natural Killer cells fromperipheralblood	blood
23	chr6:1625800-1626400	Bivalent Enhancer	Primary T killer naive cells fromperipheralblood	blood
24	chr6:1625800-1626400	Bivalent Enhancer	Primary mononuclear cells fromperipheralblood	Blood
25	chr6:1625800-1626400	Bivalent Enhancer	Esophagus	oesophagus
26	chr6:1625800-1626400	Flanking Active TSS	Fetal Adrenal Gland	Adrenal Gland
27	chr6:1625800-1626400	Enhancers	Lung	lung
28	chr6:1625800-1626400	Enhancers	Pancreas	Pancrea
29	chr6:1625800-1626600	Bivalent Enhancer	H1 Derived Mesenchymal Stem Cells	ES cell derived
30	chr6:1625800-1626600	Bivalent Enhancer	Primary B cells from peripheral blood	blood
31	chr6:1625800-1626600	Bivalent Enhancer	Primary T cells fromperipheralblood	blood
32	chr6:1625800-1626800	Bivalent Enhancer	Primary hematopoietic stem cells G-CSF-mobilized Female	--
33	chr6:1625800-1626800	Bivalent Enhancer	Cortex derived primary cultured neurospheres	brain
34	chr6:1625800-1627000	Flanking Active TSS	Osteobl	bone
35	chr6:1625800-1628000	Bivalent Enhancer	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
36	chr6:1625800-1639400	Weak transcription	Ovary	ovary
37	chr6:1626000-1626200	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
38	chr6:1626000-1626200	Enhancers	Breast Myoepithelial Primary Cells	Breast
39	chr6:1626000-1626200	Bivalent Enhancer	Primary T cells from cord blood	blood
40	chr6:1626000-1626200	Bivalent Enhancer	Primary T killer memory cells from peripheral blood	blood
41	chr6:1626000-1626200	Bivalent Enhancer	Duodenum Smooth Muscle	Duodenum
42	chr6:1626000-1626400	Bivalent Enhancer	Primary T helper naive cells fromperipheralblood	blood
43	chr6:1626000-1626400	Bivalent/Poised TSS	Brain Hippocampus Middle	brain
44	chr6:1626000-1626400	Bivalent Enhancer	Fetal Brain Female	brain
45	chr6:1626000-1626600	Bivalent Enhancer	Primary hematopoietic stem cells	blood
46	chr6:1626000-1626800	Bivalent Enhancer	Primary T helper naive cells from peripheral blood	blood
47	chr6:1626000-1627000	Bivalent Enhancer	Primary T helper cells PMA-I stimulated	--
48	chr6:1626000-1627000	Bivalent Enhancer	Primary T helper cells fromperipheralblood	blood
49	chr6:1626000-1627000	Bivalent Enhancer	Primary hematopoietic stem cells G-CSF-mobilized Male	--
50	chr6:1626000-1627000	Flanking Bivalent TSS/Enh	Fetal Kidney	kidney

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links