Variant report

Variant	rs12629952
Chromosome Location	chr3:191009562-191009563
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:191009051..191010684-chr3:191045721..191047395,2	K562	blood:

Variant related genes	Relation type
ENSG00000152492	Chromatin interaction
ENSG00000188958	Chromatin interaction

Extended variants
information (count: 41 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:33)

rs_ID	r²[population]
rs10937471	0.91[EUR][1000 genomes]
rs10937472	0.90[EUR][1000 genomes]
rs11711123	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11720878	0.90[EUR][1000 genomes]
rs11720880	0.91[EUR][1000 genomes]
rs12486272	0.89[EUR][1000 genomes]
rs12488393	0.90[EUR][1000 genomes]
rs12495011	0.90[EUR][1000 genomes]
rs12496729	0.91[EUR][1000 genomes]
rs12638308	0.90[EUR][1000 genomes]
rs13062195	0.95[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13067368	0.91[EUR][1000 genomes]
rs13078168	0.91[EUR][1000 genomes]
rs1369280	0.91[EUR][1000 genomes]
rs1398717	0.91[EUR][1000 genomes]
rs1398718	0.91[EUR][1000 genomes]
rs150503	0.84[EUR][1000 genomes]
rs1584934	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs184142	0.84[EUR][1000 genomes]
rs2117544	0.89[EUR][1000 genomes]
rs2117546	0.89[EUR][1000 genomes]
rs293862	0.88[AFR][1000 genomes];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs293863	0.84[EUR][1000 genomes]
rs293869	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs34670047	0.91[EUR][1000 genomes]
rs34848591	0.89[AFR][1000 genomes];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56188122	0.83[ASN][1000 genomes]
rs66501888	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6765783	0.90[EUR][1000 genomes]
rs6769894	0.90[EUR][1000 genomes]
rs6769898	0.90[EUR][1000 genomes]
rs67775561	0.91[EUR][1000 genomes]
rs6801766	0.90[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv428100	chr3:190793797-191092633	Enhancers Strong transcription Active TSS Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
2	nsv931943	chr3:190860224-191321873	Weak transcription Enhancers Genic enhancers Flanking Active TSS Strong transcription Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
3	esv2757910	chr3:190867011-191279107	Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
4	esv2759209	chr3:190867011-191279107	Weak transcription Active TSS Flanking Active TSS Enhancers Transcr. at gene 5' and 3' Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
5	nsv878101	chr3:190891939-191059322	Enhancers Active TSS Flanking Active TSS Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
6	nsv428428	chr3:190936834-191215596	Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers Active TSS Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
7	nsv997716	chr3:190943706-191027499	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
8	nsv10369	chr3:190994774-191011447	Enhancers Flanking Active TSS Active TSS Weak transcription	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:191008200-191009800	Enhancers	Primary monocytes fromperipheralblood	blood
2	chr3:191009000-191009800	Enhancers	Primary B cells from peripheral blood	blood
3	chr3:191009000-191017000	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
4	chr3:191009000-191018400	Enhancers	Primary B cells from cord blood	blood
5	chr3:191009200-191009600	Enhancers	Monocytes-CD14+_RO01746	blood
6	chr3:191009200-191010400	Weak transcription	GM12878-XiMat	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links