Variant report

Variant	rs12302685
Chromosome Location	chr12:20647369-20647370
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 13 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:9)

rs_ID	r²[population]
rs10082939	0.85[YRI][hapmap];0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10841543	0.83[YRI][hapmap]
rs11045271	0.83[YRI][hapmap]
rs11045297	1.00[AMR][1000 genomes]
rs12301546	1.00[AMR][1000 genomes]
rs12304396	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12307673	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12319829	1.00[AMR][1000 genomes]
rs13377733	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1048067	chr12:20363755-20874845	Enhancers Strong transcription Flanking Bivalent TSS/Enh Flanking Active TSS Weak transcription Bivalent Enhancer Active TSS Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
2	nsv541408	chr12:20363755-20874845	Enhancers Weak transcription Flanking Active TSS Strong transcription Bivalent Enhancer Bivalent/Poised TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
3	nsv1046870	chr12:20509914-20711535	Active TSS Genic enhancers Weak transcription Enhancers Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	16 gene(s)	inside rSNPs	diseases
4	nsv541409	chr12:20509914-20711535	Weak transcription Enhancers Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	16 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:30 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:20619200-20654200	Weak transcription	Fetal Stomach	stomach
2	chr12:20639800-20648200	Weak transcription	Adipose Nuclei	Adipose
3	chr12:20642400-20660000	Weak transcription	Fetal Intestine Large	intestine
4	chr12:20642600-20649200	Enhancers	NHDF-Ad	bronchial
5	chr12:20643400-20650800	Weak transcription	Pancreatic Islets	Pancreatic Islet
6	chr12:20644400-20650000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
7	chr12:20644800-20648200	Enhancers	HUVEC	blood vessel
8	chr12:20645000-20648200	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
9	chr12:20645000-20648400	Enhancers	Muscle Satellite Cultured Cells	--
10	chr12:20645400-20648400	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
11	chr12:20645400-20649400	Weak transcription	Pancreas	Pancrea
12	chr12:20645600-20656800	Weak transcription	Fetal Intestine Small	intestine
13	chr12:20645600-20658600	Weak transcription	Sigmoid Colon	Sigmoid Colon
14	chr12:20645800-20649000	Weak transcription	Ovary	ovary
15	chr12:20645800-20649400	Enhancers	Osteobl	bone
16	chr12:20646200-20648200	Enhancers	Hela-S3	cervix
17	chr12:20646400-20648200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
18	chr12:20646600-20649200	Weak transcription	Right Atrium	heart
19	chr12:20646800-20647400	Weak transcription	Right Ventricle	heart
20	chr12:20646800-20647800	Flanking Active TSS	A549	lung
21	chr12:20646800-20648000	Weak transcription	Aorta	Aorta
22	chr12:20646800-20648200	Enhancers	NHLF	lung
23	chr12:20646800-20648800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
24	chr12:20647000-20648000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
25	chr12:20647000-20648200	Enhancers	NH-A	brain
26	chr12:20647000-20660600	Weak transcription	Left Ventricle	heart
27	chr12:20647200-20647400	Enhancers	Colon Smooth Muscle	Colon
28	chr12:20647200-20648200	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
29	chr12:20647200-20648200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
30	chr12:20647200-20664000	Weak transcription	Rectal Mucosa Donor 31	rectum

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links