Variant report

Variant	rs3772977
Chromosome Location	chr3:69099936-69099937
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:2)
CpG islands
(count:0)
Chromatin interactive
region (count:8)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

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

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr3:69099899-69102468	GM12878	blood:	n/a	n/a
2	HCFC1	chr3:69099854-69101997	Hela-S3	cervix:	n/a	n/a

No data

(count:8 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr3:69098594..69102750-chr3:69127329..69130993,6	K562	blood:
2	chr3:69099846..69102321-chr3:69133176..69135316,2	K562	blood:
3	chr3:69098841..69101400-chr3:69102319..69104550,2	K562	blood:
4	chr3:69062090..69065394-chr3:69099735..69103039,4	K562	blood:
5	chr3:69099731..69103494-chr3:69131306..69136379,6	MCF-7	breast:
6	chr3:69082627..69084221-chr3:69098584..69101191,2	MCF-7	breast:
7	chr3:69097839..69103874-chr3:69126765..69131500,7	K562	blood:
8	chr3:69061671..69065034-chr3:69099690..69103039,4	K562	blood:

No data

Variant related genes	Relation type
MIR3136	TF binding region
ENSG00000144746	Chromatin interaction
ENSG00000163378	Chromatin interaction
ENSG00000244513	Chromatin interaction
ENSG00000144744	Chromatin interaction

Extended variants
information (count: 11 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:10)

rs_ID	r²[population]
rs12632068	1.00[CEU][hapmap]
rs13085120	0.86[ASN][1000 genomes]
rs2271120	0.99[ASN][1000 genomes]
rs2279936	0.95[ASN][1000 genomes]
rs41291195	1.00[EUR][1000 genomes]
rs62254187	1.00[EUR][1000 genomes]
rs62254241	1.00[EUR][1000 genomes]
rs62255472	0.92[EUR][1000 genomes]
rs62256141	0.83[EUR][1000 genomes]
rs6807701	0.98[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv876933	chr3:69059023-69227379	Enhancers Strong transcription Weak transcription Active TSS Bivalent Enhancer Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	15 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:126 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:69063400-69100200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr3:69074600-69100200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr3:69079000-69100000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
4	chr3:69079400-69100000	Weak transcription	Stomach Mucosa	stomach
5	chr3:69080800-69100200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
6	chr3:69095400-69100000	Weak transcription	Fetal Intestine Small	intestine
7	chr3:69095400-69100200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
8	chr3:69096800-69100000	Weak transcription	Psoas Muscle	Psoas
9	chr3:69097600-69100000	Weak transcription	H1 Cell Line	embryonic stem cell
10	chr3:69097600-69100000	Weak transcription	H9 Cell Line	embryonic stem cell
11	chr3:69097600-69100000	Weak transcription	Colonic Mucosa	Colon
12	chr3:69097600-69100000	Weak transcription	Gastric	stomach
13	chr3:69097600-69100000	Weak transcription	Lung	lung
14	chr3:69097600-69100000	Weak transcription	Sigmoid Colon	Sigmoid Colon
15	chr3:69097600-69100400	Weak transcription	Spleen	Spleen
16	chr3:69098000-69100000	Weak transcription	Esophagus	oesophagus
17	chr3:69098000-69100200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
18	chr3:69098200-69100000	Enhancers	Brain Hippocampus Middle	brain
19	chr3:69098400-69100000	Enhancers	Primary T killer memory cells from peripheral blood	blood
20	chr3:69098400-69100000	Weak transcription	Fetal Muscle Trunk	muscle
21	chr3:69098400-69100000	Weak transcription	Small Intestine	intestine
22	chr3:69098400-69100200	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
23	chr3:69098600-69100000	Weak transcription	Pancreas	Pancrea
24	chr3:69098600-69100000	Enhancers	Placenta Amnion	Placenta Amnion
25	chr3:69098800-69100000	Weak transcription	Primary B cells from peripheral blood	blood
26	chr3:69098800-69101800	Active TSS	GM12878-XiMat	blood
27	chr3:69099000-69100000	Enhancers	Liver	Liver
28	chr3:69099000-69100200	Enhancers	Primary monocytes fromperipheralblood	blood
29	chr3:69099000-69100400	Flanking Active TSS	Dnd41	blood
30	chr3:69099000-69101600	Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
31	chr3:69099000-69101800	Active TSS	Hela-S3	cervix
32	chr3:69099000-69102000	Active TSS	Pancreatic Islets	Pancreatic Islet
33	chr3:69099200-69100000	Enhancers	Primary neutrophils fromperipheralblood	blood
34	chr3:69099200-69100400	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
35	chr3:69099200-69100600	Active TSS	HepG2	liver
36	chr3:69099200-69100800	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
37	chr3:69099200-69101600	Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
38	chr3:69099200-69101600	Active TSS	HSMM	muscle
39	chr3:69099400-69100000	Weak transcription	Fetal Thymus	thymus
40	chr3:69099400-69100000	Weak transcription	Left Ventricle	heart
41	chr3:69099400-69100400	Flanking Active TSS	Primary hematopoietic stem cells short term culture	blood
42	chr3:69099400-69101600	Active TSS	Muscle Satellite Cultured Cells	--
43	chr3:69099400-69101600	Active TSS	HMEC	breast
44	chr3:69099400-69101800	Active TSS	Breast Myoepithelial Primary Cells	Breast
45	chr3:69099400-69101800	Active TSS	K562	blood
46	chr3:69099400-69101800	Active TSS	NHDF-Ad	bronchial
47	chr3:69099400-69101800	Active TSS	NHLF	lung
48	chr3:69099400-69102000	Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
49	chr3:69099400-69102000	Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
50	chr3:69099600-69100000	Active TSS	Fetal Stomach	stomach

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