Variant report

Variant	rs342704
Chromosome Location	chr13:92420988-92420989
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr13:92414642..92418617-chr13:92420339..92423769,4	K562	blood:
2	chr13:91998591..92000814-chr13:92420191..92422933,2	K562	blood:

Variant related genes	Relation type
ENSG00000215417	Chromatin interaction

Extended variants
information (count: 68 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:58)

rs_ID	r²[population]
rs12873046	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1332090	1.00[CEU][hapmap];0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1332091	0.84[EUR][1000 genomes]
rs168217	1.00[CEU][hapmap];0.87[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs168277	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs182926	0.82[EUR][1000 genomes]
rs1847714	0.84[EUR][1000 genomes]
rs1847715	0.84[EUR][1000 genomes]
rs1847716	0.84[EUR][1000 genomes]
rs1847717	0.84[EUR][1000 genomes]
rs1854976	0.84[EUR][1000 genomes]
rs1854977	1.00[CEU][hapmap];0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1854978	0.84[EUR][1000 genomes]
rs1854979	0.84[EUR][1000 genomes]
rs189376	0.84[EUR][1000 genomes]
rs1929922	0.83[EUR][1000 genomes]
rs1929923	0.84[EUR][1000 genomes]
rs1929924	0.84[EUR][1000 genomes]
rs1929925	0.84[EUR][1000 genomes]
rs2352028	0.84[CEU][hapmap]
rs2352029	0.84[CEU][hapmap]
rs2352030	0.84[EUR][1000 genomes]
rs2938868	0.84[CEU][hapmap];0.83[EUR][1000 genomes]
rs2938869	0.84[EUR][1000 genomes]
rs2938873	0.84[EUR][1000 genomes]
rs2938874	0.82[EUR][1000 genomes]
rs2989990	1.00[CEU][hapmap];0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2989991	0.84[EUR][1000 genomes]
rs2989992	0.82[EUR][1000 genomes]
rs2989993	0.84[EUR][1000 genomes]
rs2989994	0.84[EUR][1000 genomes]
rs2989995	0.85[EUR][1000 genomes]
rs2989996	0.84[EUR][1000 genomes]
rs2989997	0.81[EUR][1000 genomes]
rs2989998	0.84[EUR][1000 genomes]
rs2990003	0.84[EUR][1000 genomes]
rs2990007	0.84[CEU][hapmap]
rs3012005	0.84[EUR][1000 genomes]
rs342673	0.92[CEU][hapmap];0.81[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs342696	0.92[CEU][hapmap];0.84[AFR][1000 genomes];0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs342701	1.00[CEU][hapmap];0.85[AFR][1000 genomes];0.92[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs342702	0.87[EUR][1000 genomes]
rs342706	0.84[CEU][hapmap];0.88[EUR][1000 genomes]
rs342707	1.00[CEU][hapmap];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs342708	1.00[CEU][hapmap];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs345443	0.84[EUR][1000 genomes]
rs345444	1.00[CEU][hapmap];0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs345445	1.00[CEU][hapmap];0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs386885	1.00[CEU][hapmap];0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs457306	0.85[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs464167	1.00[CEU][hapmap]
rs522812	0.82[EUR][1000 genomes]
rs528366	0.84[CEU][hapmap]
rs535973	0.84[CEU][hapmap]
rs543718	1.00[CEU][hapmap];0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs556483	0.85[EUR][1000 genomes]
rs7336461	0.84[EUR][1000 genomes]
rs7991916	1.00[CEU][hapmap];0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1049382	chr13:92024240-92521180	Active TSS Enhancers Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	nsv541873	chr13:92024240-92521180	Enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Weak transcription Bivalent Enhancer ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	esv2753383	chr13:92226599-92462699	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
4	nsv529268	chr13:92267310-92531263	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
5	nsv456065	chr13:92383193-92507887	Enhancers Weak transcription Flanking Active TSS Active TSS	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
6	nsv562719	chr13:92383193-92507887	Enhancers Weak transcription Active TSS Flanking Active TSS	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
7	nsv948820	chr13:92408505-92519053	Enhancers Weak transcription Flanking Active TSS Active TSS	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
8	nsv524271	chr13:92419769-92501664	Enhancers Weak transcription Active TSS Flanking Active TSS	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
9	nsv562720	chr13:92419769-92501664	Enhancers Active TSS Weak transcription Flanking Active TSS	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
10	esv3343149	chr13:92420492-92421055	Weak transcription	Chromatin interactive region	1 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:3 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:92417800-92426800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr13:92420200-92421200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
3	chr13:92420200-92423800	Weak transcription	Hela-S3	cervix

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links