Variant report

Variant	rs7560696
Chromosome Location	chr2:99405800-99405801
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr2:99346491..99349928-chr2:99402977..99407960,4	MCF-7	breast:
2	chr2:99402708..99406014-chr2:99411806..99414792,3	MCF-7	breast:
3	chr2:99398566..99401288-chr2:99403710..99406748,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000201070	Chromatin interaction
ENSG00000071073	Chromatin interaction

Extended variants
information (count: 22 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs10174531	0.85[ASN][1000 genomes]
rs10175560	0.84[AMR][1000 genomes]
rs10182043	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10202643	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11123754	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11900176	0.82[CEU][hapmap];0.84[AMR][1000 genomes]
rs12712037	0.82[CEU][hapmap];0.81[AMR][1000 genomes]
rs12990579	0.83[CEU][hapmap];0.80[YRI][hapmap];0.86[AMR][1000 genomes]
rs2008648	0.81[AFR][1000 genomes]
rs2276604	0.84[CEU][hapmap]
rs2280142	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.88[AFR][1000 genomes];0.89[AMR][1000 genomes];0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6542837	1.00[CEU][hapmap];1.00[CHB][hapmap];0.86[JPT][hapmap];0.96[YRI][hapmap];0.82[AFR][1000 genomes];0.89[AMR][1000 genomes];0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6714330	0.87[AMR][1000 genomes];0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6753465	0.89[AFR][1000 genomes];0.89[AMR][1000 genomes];0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6753879	0.88[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs6755640	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];0.88[AMR][1000 genomes];0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs73962464	0.84[ASN][1000 genomes]
rs7565614	0.84[AMR][1000 genomes]
rs7565736	0.84[AMR][1000 genomes]
rs885115	0.82[AFR][1000 genomes];0.88[AMR][1000 genomes];0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1011278	chr2:99280928-99638376	Weak transcription Enhancers Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
2	nsv535835	chr2:99280928-99638376	Enhancers Weak transcription Bivalent Enhancer Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:99385800-99410400	Weak transcription	Right Atrium	heart
2	chr2:99391600-99406600	Weak transcription	Thymus	Thymus
3	chr2:99401800-99412800	Weak transcription	Gastric	stomach
4	chr2:99403400-99412800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
5	chr2:99404000-99406000	Enhancers	Fetal Thymus	thymus
6	chr2:99404400-99410400	Weak transcription	Brain Anterior Caudate	brain
7	chr2:99404400-99417200	Weak transcription	Stomach Mucosa	stomach
8	chr2:99404600-99409000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
9	chr2:99404600-99411000	Weak transcription	Pancreas	Pancrea
10	chr2:99405000-99406000	Weak transcription	HepG2	liver
11	chr2:99405800-99406000	Enhancers	Spleen	Spleen

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