Variant report

Variant	rs1620830
Chromosome Location	chr10:27932980-27932981
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 43 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:38)

rs_ID	r²[population]
rs1168575	0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1168577	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1168584	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1168587	0.89[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1177564	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1494196	0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1494197	0.92[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1532315	0.95[ASN][1000 genomes]
rs1613987	0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1687721	0.87[AFR][1000 genomes];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1690682	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2130809	0.86[JPT][hapmap]
rs2253230	0.86[JPT][hapmap]
rs2451923	0.83[ASN][1000 genomes]
rs2492907	0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2505135	0.83[ASN][1000 genomes]
rs2637282	0.93[ASN][1000 genomes]
rs2637283	0.95[ASN][1000 genomes]
rs2642275	1.00[ASN][1000 genomes]
rs2642277	1.00[ASN][1000 genomes]
rs2642280	0.92[ASN][1000 genomes]
rs2642297	0.93[ASN][1000 genomes]
rs2642298	0.93[ASN][1000 genomes]
rs2642299	0.93[ASN][1000 genomes]
rs2642301	0.95[ASN][1000 genomes]
rs2808269	1.00[ASN][1000 genomes]
rs2808270	1.00[ASN][1000 genomes]
rs2808271	1.00[ASN][1000 genomes]
rs2808272	0.92[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2808273	0.92[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2808277	0.95[ASN][1000 genomes]
rs2808278	0.84[ASN][1000 genomes]
rs2815535	1.00[ASN][1000 genomes]
rs2815537	1.00[ASN][1000 genomes]
rs2815538	1.00[ASN][1000 genomes]
rs2815540	0.91[ASN][1000 genomes]
rs2815541	0.95[ASN][1000 genomes]
rs2999979	1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv550241	chr10:27569521-28025771	Enhancers ZNF genes & repeats Strong transcription Weak transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
2	esv3368825	chr10:27864181-28043820	Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Weak transcription Bivalent Enhancer Bivalent/Poised TSS Active TSS ZNF genes & repeats Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	2 gene(s)	inside rSNPs	diseases
3	nsv894985	chr10:27869503-27957785	Bivalent Enhancer Enhancers Active TSS Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
4	nsv894986	chr10:27904646-27957785	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Active TSS Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh	Chromatin interactive region	n/a	inside rSNPs	diseases
5	esv3362263	chr10:27929908-27934180	Weak transcription Flanking Active TSS Enhancers	n/a	n/a	inside rSNPs	diseases

No data

Chromatin state (count:11 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:27932000-27933400	Enhancers	HSMMtube	muscle
2	chr10:27932200-27934000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
3	chr10:27932200-27935600	Enhancers	Osteobl	bone
4	chr10:27932400-27933600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
5	chr10:27932600-27933600	Weak transcription	Fetal Muscle Leg	muscle
6	chr10:27932600-27933600	Weak transcription	Ovary	ovary
7	chr10:27932600-27935000	Weak transcription	Adipose Nuclei	Adipose
8	chr10:27932800-27933800	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
9	chr10:27932800-27934600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
10	chr10:27932800-27935200	Weak transcription	Rectal Smooth Muscle	rectum
11	chr10:27932800-27935400	Weak transcription	HSMM	muscle

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links