Variant report

Variant	rs9789405
Chromosome Location	chr2:211423383-211423384
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 17 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs10188695	0.92[CEU][hapmap];1.00[CHB][hapmap];0.96[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.82[MKK][hapmap];0.95[TSI][hapmap];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10189047	0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10197334	0.83[ASN][1000 genomes]
rs10205168	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10211666	0.81[ASN][1000 genomes]
rs10490319	1.00[ASW][hapmap];0.93[CEU][hapmap];1.00[CHB][hapmap];0.96[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.94[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];0.95[TSI][hapmap];0.96[YRI][hapmap];0.90[AFR][1000 genomes];0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs13016272	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.96[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];0.97[LWK][hapmap];1.00[MEX][hapmap];0.83[MKK][hapmap];0.95[TSI][hapmap];0.96[YRI][hapmap]
rs13399140	0.84[LWK][hapmap]
rs16844619	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1858193	1.00[CEU][hapmap];1.00[CHB][hapmap];0.96[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];0.86[MEX][hapmap];0.95[TSI][hapmap]
rs2287429	0.83[YRI][hapmap]
rs2287602	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.96[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.97[LWK][hapmap];1.00[MEX][hapmap];0.85[MKK][hapmap];1.00[TSI][hapmap];0.96[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2287604	1.00[CEU][hapmap];1.00[CHB][hapmap];0.96[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3856339	0.83[YRI][hapmap]
rs4142155	1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs6749597	0.89[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.96[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.88[LWK][hapmap];1.00[MEX][hapmap];0.84[MKK][hapmap];1.00[TSI][hapmap];0.82[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[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	esv3398091	chr2:211315261-211634200	Active TSS Flanking Active TSS Weak transcription Strong transcription Enhancers Genic enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	12 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	chr2:211416800-211425800	Weak transcription	Duodenum Mucosa	Duodenum
2	chr2:211418200-211424400	Genic enhancers	Fetal Intestine Large	intestine
3	chr2:211418600-211443200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr2:211419600-211423800	Enhancers	Fetal Intestine Small	intestine
5	chr2:211421000-211423600	Enhancers	H1 Cell Line	embryonic stem cell
6	chr2:211421000-211423600	Enhancers	iPS-20b Cell Line	embryonic stem cell
7	chr2:211421200-211423600	Enhancers	HUES48 Cell Line	embryonic stem cell
8	chr2:211421200-211424600	Active TSS	Hela-S3	cervix
9	chr2:211421200-211425400	Active TSS	Liver	Liver
10	chr2:211421400-211423400	Enhancers	HUES64 Cell Line	embryonic stem cell
11	chr2:211421600-211423400	Weak transcription	H9 Cell Line	embryonic stem cell
12	chr2:211421600-211423800	Enhancers	iPS-18 Cell Line	embryonic stem cell
13	chr2:211421800-211423600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
14	chr2:211422000-211424600	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
15	chr2:211422400-211423800	Enhancers	Breast Myoepithelial Primary Cells	Breast
16	chr2:211422600-211427800	Weak transcription	Fetal Kidney	kidney
17	chr2:211423000-211426000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
18	chr2:211423200-211423600	Enhancers	Right Atrium	heart
19	chr2:211423200-211424200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell

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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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