Variant report

Variant	rs12662107
Chromosome Location	chr6:117810964-117810965
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:117810705..117811205-chr7:22896011..22896529,2	Hela-S3	cervix:
2	chr6:117810311..117812816-chr6:117817212..117819434,2	MCF-7	breast:
3	chr6:117808865..117811811-chr6:117813306..117815684,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000221740	Chromatin interaction
ENSG00000228649	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:8)

rs_ID	r²[population]
rs1123836	0.87[AFR][1000 genomes];0.83[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1321808	0.87[AFR][1000 genomes];0.83[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1321809	0.87[AFR][1000 genomes];0.83[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1321810	0.87[AFR][1000 genomes];0.83[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17574179	0.87[AFR][1000 genomes];0.83[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17574269	0.87[AFR][1000 genomes];0.83[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17636431	0.87[AFR][1000 genomes];0.83[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7453460	0.87[AFR][1000 genomes];0.83[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[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	nsv532050	chr6:117528154-118203005	ZNF genes & repeats Enhancers Bivalent Enhancer Active TSS Weak transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Flanking Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:54 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:117805200-117814800	Weak transcription	Left Ventricle	heart
2	chr6:117805200-117816000	Weak transcription	Sigmoid Colon	Sigmoid Colon
3	chr6:117805200-117819400	Weak transcription	Small Intestine	intestine
4	chr6:117805200-117825600	Weak transcription	Lung	lung
5	chr6:117805200-117826600	Weak transcription	Esophagus	oesophagus
6	chr6:117805200-117851200	Weak transcription	Right Ventricle	heart
7	chr6:117805400-117819400	Weak transcription	Aorta	Aorta
8	chr6:117805600-117814800	Weak transcription	K562	blood
9	chr6:117805600-117818800	Weak transcription	Fetal Kidney	kidney
10	chr6:117805600-117819400	Weak transcription	Skeletal Muscle Female	skeletal muscle
11	chr6:117805800-117825600	Weak transcription	Fetal Muscle Trunk	muscle
12	chr6:117805800-117826200	Weak transcription	Rectal Mucosa Donor 29	rectum
13	chr6:117806200-117815000	Weak transcription	Duodenum Mucosa	Duodenum
14	chr6:117806200-117815400	Weak transcription	Rectal Mucosa Donor 31	rectum
15	chr6:117806200-117816000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
16	chr6:117806200-117819600	Weak transcription	Psoas Muscle	Psoas
17	chr6:117806200-117826400	Weak transcription	Fetal Muscle Leg	muscle
18	chr6:117806200-117826600	Weak transcription	Pancreas	Pancrea
19	chr6:117806600-117817400	Weak transcription	HSMMtube	muscle
20	chr6:117806800-117815600	Weak transcription	Stomach Mucosa	stomach
21	chr6:117807000-117814800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
22	chr6:117807000-117815200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
23	chr6:117807600-117814000	Weak transcription	Liver	Liver
24	chr6:117807800-117813400	Weak transcription	Pancreatic Islets	Pancreatic Islet
25	chr6:117808600-117811600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
26	chr6:117808600-117811600	Weak transcription	HUVEC	blood vessel
27	chr6:117808600-117812400	Weak transcription	HMEC	breast
28	chr6:117808600-117812600	Weak transcription	NHEK	skin
29	chr6:117808600-117813600	Weak transcription	Fetal Intestine Large	intestine
30	chr6:117808600-117814400	Weak transcription	Fetal Lung	lung
31	chr6:117808600-117819400	Weak transcription	Spleen	Spleen
32	chr6:117808600-117819600	Weak transcription	Fetal Stomach	stomach
33	chr6:117808800-117811400	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
34	chr6:117808800-117811800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
35	chr6:117808800-117824400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
36	chr6:117808800-117826800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
37	chr6:117809400-117812200	Weak transcription	NHDF-Ad	bronchial
38	chr6:117809400-117812400	Strong transcription	HSMM	muscle
39	chr6:117809400-117814800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
40	chr6:117809600-117812800	Weak transcription	NHLF	lung
41	chr6:117810000-117813000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
42	chr6:117810200-117811600	Weak transcription	Osteobl	bone
43	chr6:117810400-117813000	Weak transcription	HepG2	liver
44	chr6:117810400-117815800	Weak transcription	Fetal Intestine Small	intestine
45	chr6:117810600-117811600	Weak transcription	A549	lung
46	chr6:117810600-117811600	Weak transcription	NH-A	brain
47	chr6:117810600-117811800	Weak transcription	Muscle Satellite Cultured Cells	--
48	chr6:117810600-117812400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
49	chr6:117810600-117812800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
50	chr6:117810600-117813600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links