Variant report

Variant	rs155288
Chromosome Location	chr1:57632487-57632488
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 31 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:28)

rs_ID	r²[population]
rs10789046	1.00[CHB][hapmap];0.93[CHD][hapmap];0.87[GIH][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs10889027	0.81[JPT][hapmap]
rs10889028	0.87[CHB][hapmap];0.91[CHD][hapmap];0.81[GIH][hapmap];0.91[JPT][hapmap];0.90[ASN][1000 genomes]
rs10889029	0.87[CHB][hapmap];0.93[CHD][hapmap];0.81[GIH][hapmap];0.95[JPT][hapmap];0.92[ASN][1000 genomes]
rs10889030	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.92[LWK][hapmap];1.00[MEX][hapmap];0.91[MKK][hapmap];1.00[TSI][hapmap];0.93[YRI][hapmap];0.94[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10889031	0.93[ASN][1000 genomes]
rs11206990	0.93[ASN][1000 genomes]
rs1504589	0.85[TSI][hapmap];0.84[EUR][1000 genomes]
rs155287	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs155315	0.93[ASN][1000 genomes]
rs155316	0.93[ASN][1000 genomes]
rs1831870	0.93[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.98[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];0.83[LWK][hapmap];1.00[MEX][hapmap];0.86[MKK][hapmap];0.98[TSI][hapmap];0.84[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs197109	0.91[CHB][hapmap];0.81[JPT][hapmap]
rs4912429	0.81[CEU][hapmap];0.84[EUR][1000 genomes]
rs4912430	0.84[EUR][1000 genomes]
rs4912431	0.84[EUR][1000 genomes]
rs4912432	0.85[TSI][hapmap];0.84[EUR][1000 genomes]
rs524370	0.98[ASN][1000 genomes]
rs55944821	0.84[EUR][1000 genomes]
rs624526	1.00[CHB][hapmap];0.95[JPT][hapmap];0.98[ASN][1000 genomes]
rs6680219	0.87[TSI][hapmap];0.87[EUR][1000 genomes]
rs6680429	0.95[CHB][hapmap];0.86[CHD][hapmap];0.83[GIH][hapmap];0.95[JPT][hapmap];0.93[ASN][1000 genomes]
rs6693209	0.95[CHB][hapmap];0.95[JPT][hapmap];0.93[ASN][1000 genomes]
rs7539865	0.89[ASN][1000 genomes]
rs7546422	0.95[CHB][hapmap];0.95[JPT][hapmap];0.93[ASN][1000 genomes]
rs7548633	0.85[TSI][hapmap];0.84[EUR][1000 genomes]
rs7552759	0.85[EUR][1000 genomes]
rs9970802	0.95[CHB][hapmap];0.84[CHD][hapmap];0.95[JPT][hapmap];0.93[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv869295	chr1:56894955-57656562	Weak transcription Strong transcription Genic enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS Enhancers Bivalent Enhancer 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	20 gene(s)	inside rSNPs	diseases
2	nsv461628	chr1:57463326-57816489	Enhancers Weak transcription ZNF genes & repeats Bivalent Enhancer Flanking Active TSS Strong transcription Active TSS Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
3	nsv546305	chr1:57463326-57816489	Weak transcription Enhancers Active TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:14 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:57623200-57635400	Weak transcription	Fetal Intestine Small	intestine
2	chr1:57624000-57644800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
3	chr1:57629200-57633200	Weak transcription	Pancreas	Pancrea
4	chr1:57631800-57636400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
5	chr1:57631800-57636800	Weak transcription	HUES6 Cell Line	embryonic stem cell
6	chr1:57632000-57636400	Weak transcription	H1 Cell Line	embryonic stem cell
7	chr1:57632000-57636600	Weak transcription	HUES64 Cell Line	embryonic stem cell
8	chr1:57632000-57636600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
9	chr1:57632000-57637000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
10	chr1:57632000-57637400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
11	chr1:57632000-57637800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
12	chr1:57632200-57636000	Weak transcription	HUES48 Cell Line	embryonic stem cell
13	chr1:57632200-57636200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
14	chr1:57632200-57636400	Weak transcription	iPS-18 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links