Variant report

Variant	rs2656094
Chromosome Location	chr1:57776408-57776409
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 48 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:46)

rs_ID	r²[population]
rs1149628	0.96[CEU][hapmap];0.95[CHB][hapmap];0.90[ASN][1000 genomes]
rs1424473	1.00[CHB][hapmap];0.90[JPT][hapmap];0.88[ASN][1000 genomes]
rs197626	1.00[CHB][hapmap];0.95[JPT][hapmap]
rs197638	1.00[CHB][hapmap];0.95[JPT][hapmap];0.81[ASN][1000 genomes]
rs197644	1.00[CHB][hapmap];0.95[JPT][hapmap];0.81[ASN][1000 genomes]
rs197649	0.81[ASN][1000 genomes]
rs2251472	1.00[CHB][hapmap];0.95[JPT][hapmap];0.80[ASN][1000 genomes]
rs2432690	0.92[CEU][hapmap];0.86[EUR][1000 genomes]
rs2656093	0.96[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];0.86[AMR][1000 genomes];0.81[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2764665	0.91[CHB][hapmap];0.90[JPT][hapmap];0.81[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs486809	0.86[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs487566	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs488405	0.81[ASN][1000 genomes]
rs492781	0.85[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];0.88[ASN][1000 genomes]
rs492905	0.81[ASN][1000 genomes]
rs493846	0.81[ASN][1000 genomes]
rs499397	1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs515802	0.81[ASN][1000 genomes]
rs542873	1.00[CHB][hapmap];0.95[JPT][hapmap]
rs542949	1.00[CHB][hapmap];0.95[JPT][hapmap]
rs545671	0.86[EUR][1000 genomes]
rs572092	1.00[CHB][hapmap];0.89[JPT][hapmap];0.81[ASN][1000 genomes]
rs576038	0.86[EUR][1000 genomes]
rs584147	1.00[CHB][hapmap];0.90[JPT][hapmap];0.81[ASN][1000 genomes]
rs587046	0.96[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];0.86[AMR][1000 genomes];0.81[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs593154	0.81[ASN][1000 genomes]
rs595513	0.88[CEU][hapmap]
rs595568	0.95[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];0.86[AMR][1000 genomes];0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs597941	0.96[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];0.82[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs611276	1.00[CHB][hapmap];0.95[JPT][hapmap]
rs611606	0.88[CEU][hapmap]
rs614488	1.00[CHB][hapmap];0.95[JPT][hapmap]
rs620214	1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs627489	1.00[CHB][hapmap];0.95[JPT][hapmap]
rs627550	0.96[CHB][hapmap];0.90[JPT][hapmap];0.87[ASN][1000 genomes]
rs627936	1.00[CHB][hapmap];0.95[JPT][hapmap]
rs634391	0.81[CEU][hapmap]
rs642526	0.92[CEU][hapmap];0.86[EUR][1000 genomes]
rs643382	0.88[CEU][hapmap]
rs655277	0.81[ASN][1000 genomes]
rs657612	0.89[ASN][1000 genomes]
rs659069	0.87[CHB][hapmap];0.81[JPT][hapmap]
rs663975	0.96[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];0.87[AMR][1000 genomes];0.81[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs675075	0.86[AMR][1000 genomes];0.81[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs686702	0.81[ASN][1000 genomes]
rs706385	0.96[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];0.86[AMR][1000 genomes];0.90[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	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
2	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:11 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:57773000-57778400	Weak transcription	Brain Angular Gyrus	brain
2	chr1:57773200-57790200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
3	chr1:57774400-57777400	Enhancers	HepG2	liver
4	chr1:57775400-57776800	Enhancers	Liver	Liver
5	chr1:57775600-57776800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr1:57775600-57776800	Enhancers	Small Intestine	intestine
7	chr1:57775600-57777800	Enhancers	Duodenum Mucosa	Duodenum
8	chr1:57775600-57779800	Enhancers	Fetal Intestine Large	intestine
9	chr1:57775600-57779800	Enhancers	Fetal Intestine Small	intestine
10	chr1:57776000-57776600	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
11	chr1:57776400-57777600	Enhancers	Rectal Mucosa Donor 31	rectum

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