Variant report

Variant	rs2496466
Chromosome Location	chr13:38910766-38910767
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr13:38909701..38912045-chr13:38922685..38924835,2	MCF-7	breast:
2	chr13:38902336..38904691-chr13:38908487..38911212,2	K562	blood:
3	chr13:38910692..38913094-chr13:38922895..38924780,2	K562	blood:
4	chr13:38908685..38912062-chr13:38921532..38925068,4	K562	blood:

Variant related genes	Relation type
ENSG00000120686	Chromatin interaction

Extended variants
information (count: 106 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:101)

rs_ID	r²[population]
rs10514844	1.00[CHB][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11693	1.00[CHB][hapmap]
rs1330958	1.00[CHB][hapmap]
rs1330960	1.00[CHB][hapmap]
rs1330963	1.00[CHB][hapmap]
rs1330964	1.00[CHB][hapmap]
rs1330965	1.00[CHB][hapmap]
rs1330967	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1330976	1.00[CHB][hapmap];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1501853	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1553300	1.00[CHB][hapmap]
rs1576610	1.00[CHB][hapmap]
rs17057716	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17057738	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17057757	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17230677	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17231243	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17233628	1.00[ASN][1000 genomes]
rs17296794	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17297214	1.00[EUR][1000 genomes]
rs17299513	1.00[ASN][1000 genomes]
rs1878948	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1980984	1.00[CHB][hapmap]
rs2019520	1.00[CHB][hapmap]
rs2094893	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2104818	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2150468	1.00[CHB][hapmap]
rs2150469	1.00[CHB][hapmap]
rs2231323	1.00[CHB][hapmap]
rs2231328	1.00[CHB][hapmap]
rs2231330	1.00[CHB][hapmap]
rs2231331	1.00[CHB][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2231332	1.00[CHB][hapmap]
rs2323881	1.00[ASN][1000 genomes]
rs2323935	1.00[ASN][1000 genomes]
rs2323936	1.00[ASN][1000 genomes]
rs2323938	1.00[ASN][1000 genomes]
rs2323939	1.00[ASN][1000 genomes]
rs2323940	1.00[ASN][1000 genomes]
rs2481877	1.00[CHB][hapmap]
rs2481879	1.00[CHB][hapmap]
rs2481880	1.00[CHB][hapmap]
rs2481893	0.83[AFR][1000 genomes]
rs2485770	0.83[AFR][1000 genomes]
rs2485783	1.00[CHB][hapmap]
rs2485785	1.00[CHB][hapmap]
rs2485786	1.00[CHB][hapmap]
rs2485789	1.00[CHB][hapmap]
rs2496465	0.93[YRI][hapmap];0.87[AFR][1000 genomes]
rs2496473	1.00[CHB][hapmap]
rs2496475	1.00[CHB][hapmap]
rs2496476	1.00[CHB][hapmap]
rs4310732	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4943583	1.00[CHB][hapmap]
rs4943584	1.00[CHB][hapmap]
rs4943585	1.00[CHB][hapmap]
rs514830	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs526103	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs546681	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs552296	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55671132	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56329947	1.00[ASN][1000 genomes]
rs58014955	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs605579	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs608497	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61087779	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61569024	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs652460	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6563610	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7317565	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73180715	1.00[ASN][1000 genomes]
rs73180716	1.00[ASN][1000 genomes]
rs73180718	1.00[ASN][1000 genomes]
rs73180719	1.00[ASN][1000 genomes]
rs73180721	1.00[ASN][1000 genomes]
rs73180722	1.00[ASN][1000 genomes]
rs73180723	1.00[ASN][1000 genomes]
rs73180725	1.00[ASN][1000 genomes]
rs73180728	1.00[ASN][1000 genomes]
rs73180729	1.00[ASN][1000 genomes]
rs73180730	1.00[ASN][1000 genomes]
rs73180731	1.00[ASN][1000 genomes]
rs73180736	1.00[ASN][1000 genomes]
rs73180738	1.00[ASN][1000 genomes]
rs73180740	1.00[ASN][1000 genomes]
rs7334232	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73460206	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73460223	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73460238	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73460239	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73460244	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73462348	1.00[ASN][1000 genomes]
rs73464368	1.00[ASN][1000 genomes]
rs73464376	1.00[ASN][1000 genomes]
rs74047533	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9285122	1.00[CHB][hapmap]
rs9532209	1.00[CHB][hapmap]
rs9548318	1.00[CHB][hapmap]
rs9548386	1.00[ASN][1000 genomes]
rs9594267	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs986773	1.00[CHB][hapmap]

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	nsv915901	chr13:38199035-39032633	Enhancers Strong transcription Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
2	nsv869125	chr13:38550449-39132813	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
3	nsv949406	chr13:38561474-39033484	Transcr. at gene 5' and 3' Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
4	nsv561512	chr13:38881318-38930893	Flanking Active TSS Strong transcription Weak transcription Enhancers Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
5	nsv900005	chr13:38881318-38932949	Weak transcription Flanking Active TSS Strong transcription Active TSS Enhancers Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:7 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:38902800-38919600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr13:38908600-38910800	Enhancers	iPS-20b Cell Line	embryonic stem cell
3	chr13:38908800-38911000	Enhancers	iPS-18 Cell Line	embryonic stem cell
4	chr13:38909000-38910800	Enhancers	HUES64 Cell Line	embryonic stem cell
5	chr13:38909200-38911000	Enhancers	iPS-15b Cell Line	embryonic stem cell
6	chr13:38909200-38911200	Enhancers	HUES48 Cell Line	embryonic stem cell
7	chr13:38910600-38915400	Weak transcription	ES-I3 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links