Variant report

Variant	rs542112478
Chromosome Location	chr6:1768166-1768167
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:6)
LncRNA
region (count:2)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:6 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr6:1767654..1768676-chr6:1832751..1833553,3	MCF-7	breast:
2	chr6:1759044..1762047-chr6:1765205..1768245,4	MCF-7	breast:
3	chr6:1762365..1765398-chr6:1767554..1769715,3	K562	blood:
4	chr6:1641286..1642167-chr6:1767930..1768507,2	MCF-7	breast:
5	chr6:1641157..1641856-chr6:1767705..1768705,2	MCF-7	breast:
6	chr6:1755526..1758374-chr6:1765956..1768528,2	MCF-7	breast:

(count:2 , 50 per page) page: 1

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-C6orf195-34	chr6:1767197-1772399	NONHSAT106546
2	lnc-C6orf195-34	chr6:1767197-1772399	NONHSAT106547

No data

Extended variants
information (count: 9 )
Associated
traits (count: 0)

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	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
2	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
3	nsv1020603	chr6:1697548-1921374	Weak transcription Strong transcription Active TSS Enhancers Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
4	nsv538093	chr6:1697548-1921374	Enhancers Weak transcription Strong transcription Flanking Active TSS Bivalent Enhancer Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
5	nsv600809	chr6:1732741-1775436	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Strong transcription Genic enhancers Active TSS	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
6	nsv869043	chr6:1744238-2006788	Enhancers Weak transcription ZNF genes & repeats Strong transcription Active TSS Genic enhancers Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
7	nsv538094	chr6:1757776-1907505	Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
8	nsv528129	chr6:1767459-1772720	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Strong transcription	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
9	nsv518739	chr6:1767459-1773297	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Strong transcription	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases

No data

Chromatin state (count:74 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:1738400-1768200	Weak transcription	Primary T cells from cord blood	blood
2	chr6:1749800-1779000	Weak transcription	Aorta	Aorta
3	chr6:1751200-1780400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
4	chr6:1757200-1770600	Weak transcription	Lung	lung
5	chr6:1758600-1771400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
6	chr6:1761000-1768400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
7	chr6:1762600-1770600	Weak transcription	Brain Hippocampus Middle	brain
8	chr6:1762800-1801600	Weak transcription	Colonic Mucosa	Colon
9	chr6:1763000-1792600	Weak transcription	Rectal Mucosa Donor 29	rectum
10	chr6:1763800-1771600	Weak transcription	Sigmoid Colon	Sigmoid Colon
11	chr6:1764000-1771400	Weak transcription	Primary hematopoietic stem cells	blood
12	chr6:1764000-1773600	Weak transcription	Rectal Mucosa Donor 31	rectum
13	chr6:1764200-1771400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
14	chr6:1764400-1770600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
15	chr6:1765000-1770800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
16	chr6:1765400-1768800	Enhancers	Stomach Mucosa	stomach
17	chr6:1765400-1768800	Enhancers	HUVEC	blood vessel
18	chr6:1766000-1768200	Enhancers	Fetal Adrenal Gland	Adrenal Gland
19	chr6:1766000-1768200	Enhancers	Right Atrium	heart
20	chr6:1766000-1773600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
21	chr6:1766400-1768600	Enhancers	HMEC	breast
22	chr6:1766800-1768200	Bivalent Enhancer	Foreskin Melanocyte Primary Cells skin03	Skin
23	chr6:1766800-1768200	Enhancers	Fetal Lung	lung
24	chr6:1766800-1768400	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
25	chr6:1766800-1768400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
26	chr6:1766800-1768800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
27	chr6:1766800-1768800	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
28	chr6:1767000-1768200	Enhancers	Fetal Muscle Leg	muscle
29	chr6:1767000-1768400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
30	chr6:1767000-1768400	Enhancers	Muscle Satellite Cultured Cells	--
31	chr6:1767000-1768400	Enhancers	Adipose Nuclei	Adipose
32	chr6:1767000-1768400	Enhancers	Fetal Heart	heart
33	chr6:1767000-1768400	Enhancers	Skeletal Muscle Male	skeletal muscle
34	chr6:1767000-1768400	Enhancers	Skeletal Muscle Female	skeletal muscle
35	chr6:1767000-1768400	Enhancers	Osteobl	bone
36	chr6:1767000-1768600	Enhancers	Fetal Kidney	kidney
37	chr6:1767000-1768800	Enhancers	Breast Myoepithelial Primary Cells	Breast
38	chr6:1767000-1770600	Weak transcription	Pancreas	Pancrea
39	chr6:1767000-1770600	Weak transcription	HepG2	liver
40	chr6:1767200-1771600	Weak transcription	Esophagus	oesophagus
41	chr6:1767400-1768200	Enhancers	Fetal Stomach	stomach
42	chr6:1767400-1768400	Enhancers	HSMM	muscle
43	chr6:1767400-1768400	Enhancers	NHDF-Ad	bronchial
44	chr6:1767600-1768200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
45	chr6:1767600-1768200	Enhancers	Gastric	stomach
46	chr6:1767600-1768200	Enhancers	Left Ventricle	heart
47	chr6:1767600-1768400	Enhancers	NHEK	skin
48	chr6:1767600-1768600	Enhancers	A549	lung
49	chr6:1767600-1768600	Enhancers	NH-A	brain
50	chr6:1767800-1768200	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links