Variant report

Variant	rs2056952
Chromosome Location	chr6:11780766-11780767
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 16 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs1018383	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.88[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10947559	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11966074	0.92[CEU][hapmap];0.90[CHB][hapmap];0.85[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs2235384	0.92[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs60675252	0.84[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6457838	0.87[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6457840	1.00[CEU][hapmap];0.90[CHB][hapmap];0.94[JPT][hapmap];0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6457841	1.00[CEU][hapmap];0.95[CHB][hapmap];0.94[JPT][hapmap];0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6913633	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.87[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6940263	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7749712	1.00[CEU][hapmap];0.90[CHB][hapmap];0.95[JPT][hapmap];0.91[YRI][hapmap];0.80[AMR][1000 genomes];0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7753407	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7763031	1.00[CEU][hapmap];0.90[CHB][hapmap];0.95[JPT][hapmap];0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9470068	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2758036	chr6:11679753-11822351	Weak transcription Enhancers Active TSS Strong transcription Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
2	esv2759407	chr6:11679753-11822351	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:19 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:11772200-11786000	Weak transcription	Gastric	stomach
2	chr6:11774000-11791600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
3	chr6:11774200-11785600	Weak transcription	HMEC	breast
4	chr6:11777200-11785800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
5	chr6:11778600-11786200	Weak transcription	Sigmoid Colon	Sigmoid Colon
6	chr6:11778800-11785600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
7	chr6:11779000-11780800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
8	chr6:11779000-11781000	Enhancers	Placenta	Placenta
9	chr6:11779400-11780800	Enhancers	Fetal Intestine Small	intestine
10	chr6:11779400-11781400	Enhancers	Stomach Mucosa	stomach
11	chr6:11779800-11786200	Weak transcription	Fetal Thymus	thymus
12	chr6:11779800-11787800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
13	chr6:11780000-11780800	Enhancers	Duodenum Mucosa	Duodenum
14	chr6:11780000-11780800	Enhancers	Fetal Intestine Large	intestine
15	chr6:11780000-11786400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
16	chr6:11780200-11785400	Weak transcription	Rectal Mucosa Donor 29	rectum
17	chr6:11780600-11785400	Weak transcription	Rectal Mucosa Donor 31	rectum
18	chr6:11780600-11786000	Weak transcription	Duodenum Smooth Muscle	Duodenum
19	chr6:11780600-11786000	Weak transcription	Pancreas	Pancrea

Quick Search:

Input of quick search could be:

dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

what's new

Quick links