Variant report

Variant	rs10912425
Chromosome Location	chr1:171126810-171126811
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 34 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs10489229	0.90[AFR][1000 genomes]
rs10911839	0.87[ASN][1000 genomes]
rs10911841	0.87[ASN][1000 genomes]
rs11811455	0.87[ASN][1000 genomes]
rs16864096	0.87[ASN][1000 genomes]
rs17566256	0.90[AFR][1000 genomes]
rs17623833	0.90[AFR][1000 genomes]
rs17640463	0.89[AFR][1000 genomes]
rs1920144	0.89[ASN][1000 genomes]
rs1920150	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs1920151	0.82[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1920152	0.87[ASN][1000 genomes]
rs1920153	0.82[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1920154	0.82[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2064079	0.86[ASN][1000 genomes]
rs2064080	0.87[ASN][1000 genomes]
rs2142630	0.93[AFR][1000 genomes]
rs2235193	0.89[ASN][1000 genomes]
rs57519348	0.90[AFR][1000 genomes]
rs57678907	0.90[AFR][1000 genomes]
rs58044560	0.90[AFR][1000 genomes]
rs58365744	0.86[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58374074	0.90[AFR][1000 genomes]
rs58509777	0.87[AFR][1000 genomes]
rs67522662	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7881379	0.87[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7885012	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7886938	0.92[AFR][1000 genomes]
rs7887142	0.92[AFR][1000 genomes]
rs7889839	0.90[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1001228	chr1:170885787-171452579	Enhancers Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	23 gene(s)	inside rSNPs	diseases
2	esv14617	chr1:171016086-171726961	Enhancers Weak transcription Flanking Active TSS Strong transcription Genic enhancers Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	52 gene(s)	inside rSNPs	diseases
3	nsv1005902	chr1:171036690-171254916	Enhancers Active TSS Weak transcription Flanking Active TSS Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	14 gene(s)	inside rSNPs	diseases
4	nsv535203	chr1:171036690-171254916	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	14 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs10912425	RP1-127D3.4	cis	Adipose Subcutaneous	GTEx
rs10912425	FMO2	cis	Adipose Subcutaneous	GTEx

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:171121000-171129000	Weak transcription	Fetal Kidney	kidney
2	chr1:171121400-171130200	Weak transcription	Right Atrium	heart
3	chr1:171122000-171127200	Weak transcription	Fetal Lung	lung
4	chr1:171122000-171129400	Weak transcription	Adipose Nuclei	Adipose
5	chr1:171126600-171131600	Enhancers	Fetal Intestine Large	intestine
6	chr1:171126800-171131600	Enhancers	Fetal Intestine Small	intestine

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links