Variant report

Variant	rs4628823
Chromosome Location	chr13:94419836-94419837
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 43 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:36)

rs_ID	r²[population]
rs1320551	1.00[CEU][hapmap];0.80[EUR][1000 genomes]
rs1411500	0.82[CHB][hapmap]
rs1890436	1.00[CEU][hapmap]
rs1933780	1.00[CEU][hapmap];0.80[EUR][1000 genomes]
rs1933781	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1933784	1.00[CEU][hapmap];1.00[JPT][hapmap];0.80[EUR][1000 genomes]
rs4238307	1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs4272897	0.80[EUR][1000 genomes]
rs4301888	1.00[CEU][hapmap]
rs4322535	1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs4359315	1.00[CEU][hapmap]
rs4534700	1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs4556668	1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs4572255	1.00[CEU][hapmap];0.80[EUR][1000 genomes]
rs4589418	1.00[CEU][hapmap];0.80[EUR][1000 genomes]
rs4590994	1.00[CHB][hapmap];0.81[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs4622388	0.85[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs4771882	1.00[CEU][hapmap];0.80[EUR][1000 genomes]
rs4773758	1.00[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap];0.80[EUR][1000 genomes]
rs4773759	1.00[CEU][hapmap];0.80[EUR][1000 genomes]
rs6492675	1.00[CEU][hapmap];0.87[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs6492676	1.00[CEU][hapmap];0.80[EUR][1000 genomes]
rs7330971	1.00[CEU][hapmap];0.87[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs7331304	1.00[CEU][hapmap];0.87[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs7982716	1.00[CEU][hapmap]
rs7982874	1.00[CEU][hapmap];0.87[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs7984578	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7988063	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7988294	1.00[CEU][hapmap];0.87[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs7998877	1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs9284273	1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9301903	1.00[CEU][hapmap];0.87[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs9301904	1.00[CEU][hapmap];0.80[EUR][1000 genomes]
rs9524179	1.00[CEU][hapmap];0.80[EUR][1000 genomes]
rs9524180	1.00[CEU][hapmap];0.80[EUR][1000 genomes]
rs9524197	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv948714	chr13:94100104-94699435	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	nsv933807	chr13:94187158-94845505	Weak transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
3	nsv1045230	chr13:94277683-94764671	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
4	nsv933758	chr13:94299302-94421378	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
5	nsv916694	chr13:94360053-94423063	Flanking Active TSS Enhancers Active TSS Weak transcription ZNF genes & repeats	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	n/a
6	nsv832684	chr13:94379507-94550853	Active TSS Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
7	nsv1130	chr13:94410849-94455628	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases

No data

Chromatin state (count:17 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:94415800-94423600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
2	chr13:94416600-94429000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
3	chr13:94419200-94420000	Active TSS	HepG2	liver
4	chr13:94419200-94420200	Enhancers	Fetal Heart	heart
5	chr13:94419200-94420600	Enhancers	Fetal Adrenal Gland	Adrenal Gland
6	chr13:94419400-94420000	Flanking Active TSS	Fetal Intestine Large	intestine
7	chr13:94419400-94420800	Enhancers	Fetal Lung	lung
8	chr13:94419400-94420800	Enhancers	A549	lung
9	chr13:94419400-94421000	Enhancers	Rectal Mucosa Donor 31	rectum
10	chr13:94419400-94421400	Enhancers	Fetal Intestine Small	intestine
11	chr13:94419600-94422800	Weak transcription	Aorta	Aorta
12	chr13:94419800-94420200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
13	chr13:94419800-94420200	Flanking Active TSS	Pancreatic Islets	Pancreatic Islet
14	chr13:94419800-94420600	Flanking Active TSS	Liver	Liver
15	chr13:94419800-94421000	Enhancers	Fetal Kidney	kidney
16	chr13:94419800-94421200	Enhancers	Ovary	ovary
17	chr13:94419800-94423800	Enhancers	Fetal Stomach	stomach

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links