Variant report

Variant	rs10122299
Chromosome Location	chr9:15416659-15416660
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:15277682..15279519-chr9:15415467..15418240,3	MCF-7	breast:
2	chr9:15415166..15416789-chr9:15420978..15423004,2	MCF-7	breast:
3	chr9:15211245..15212139-chr9:15416585..15417547,5	MCF-7	breast:
4	chr9:15414997..15416790-chr9:15421464..15423490,2	MCF-7	breast:
5	chr9:15305088..15306661-chr9:15415103..15416933,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000164975	Chromatin interaction

Extended variants
information (count: 46 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:39)

rs_ID	r²[population]
rs10125861	0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10962020	0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2040071	0.90[ASN][1000 genomes]
rs2382529	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2487860	1.00[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2488955	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2488956	0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2488960	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2488967	0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2488968	0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2490863	0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2798708	0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2798710	0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2798711	0.90[ASN][1000 genomes]
rs2798713	0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2798714	0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2798715	0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2798716	0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2798718	0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2798719	0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2798720	0.83[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2798721	0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2798722	0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2798723	0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2798724	0.83[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2798741	0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2798742	0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2798743	0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2804996	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2804997	0.90[ASN][1000 genomes]
rs2805000	0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2805004	0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2805005	0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2805006	0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2805007	0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs28870710	0.92[AFR][1000 genomes];0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4741498	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs62573012	0.84[ASN][1000 genomes]
rs6474912	0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv517975	chr9:15286446-15534070	Weak transcription Genic enhancers Active TSS Flanking Active TSS Enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
2	nsv892625	chr9:15326251-16064850	Enhancers Active TSS Weak transcription Strong transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
3	nsv1030287	chr9:15332709-15458001	Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
4	nsv1022227	chr9:15379786-15416659	Enhancers Weak transcription Active TSS Flanking Active TSS	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
5	nsv892626	chr9:15389610-15694690	Flanking Active TSS Active TSS Weak transcription Enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
6	nsv892627	chr9:15397969-15909450	Enhancers Flanking Active TSS Strong transcription Weak transcription Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
7	nsv831520	chr9:15404866-15444447	Weak transcription Active TSS Strong transcription Genic enhancers Flanking Active TSS Enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	15 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:2 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:15416200-15416800	Enhancers	Fetal Intestine Small	intestine
2	chr9:15416600-15417000	Enhancers	HepG2	liver

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