Variant report

Variant	rs17666485
Chromosome Location	chr3:113646751-113646752
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 14 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs2245830	0.86[CEU][hapmap]
rs2247225	1.00[YRI][hapmap]
rs2566973	0.86[CEU][hapmap];0.81[JPT][hapmap]
rs2566976	0.81[JPT][hapmap]
rs2566977	0.81[JPT][hapmap]
rs3846047	1.00[YRI][hapmap]
rs3936551	1.00[YRI][hapmap]
rs4682143	0.81[JPT][hapmap]
rs4682146	1.00[YRI][hapmap]
rs6438172	0.86[CEU][hapmap];0.81[JPT][hapmap]
rs6798319	0.84[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs72954636	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs73230249	0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[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	nsv1013506	chr3:112890608-113680951	Weak transcription Bivalent/Poised TSS Enhancers Strong transcription ZNF genes & repeats Genic enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	51 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:18 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:113619200-113652600	Weak transcription	Pancreas	Pancrea
2	chr3:113631600-113666200	Weak transcription	Esophagus	oesophagus
3	chr3:113632000-113666000	Weak transcription	Rectal Mucosa Donor 29	rectum
4	chr3:113632200-113656200	Weak transcription	Duodenum Mucosa	Duodenum
5	chr3:113636200-113666200	Weak transcription	Sigmoid Colon	Sigmoid Colon
6	chr3:113642400-113649400	Weak transcription	Liver	Liver
7	chr3:113642600-113655400	Weak transcription	Gastric	stomach
8	chr3:113642600-113666000	Weak transcription	Rectal Mucosa Donor 31	rectum
9	chr3:113643000-113666000	Weak transcription	Fetal Intestine Large	intestine
10	chr3:113644800-113653000	Weak transcription	Brain Cingulate Gyrus	brain
11	chr3:113645600-113647200	Enhancers	Primary hematopoietic stem cells short term culture	blood
12	chr3:113646000-113647200	Enhancers	Primary hematopoietic stem cells	blood
13	chr3:113646000-113647200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
14	chr3:113646000-113647200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
15	chr3:113646200-113647600	Strong transcription	Breast Myoepithelial Primary Cells	Breast
16	chr3:113646400-113646800	Bivalent Enhancer	Primary T cells fromperipheralblood	blood
17	chr3:113646400-113647000	Enhancers	Primary B cells from peripheral blood	blood
18	chr3:113646600-113660800	Weak transcription	Lung	lung

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

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