Variant report

Variant	rs2477338
Chromosome Location	chr10:27787538-27787539
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	chr10:27785422..27788286-chr10:27793048..27794686,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000099246	Chromatin interaction

Extended variants
information (count: 30 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs10741135	0.87[ASN][1000 genomes]
rs10829263	0.92[ASN][1000 genomes]
rs11015813	0.82[ASN][1000 genomes]
rs11015814	0.85[ASN][1000 genomes]
rs1157735	0.92[ASN][1000 genomes]
rs11812227	0.87[ASN][1000 genomes]
rs12220158	0.82[ASN][1000 genomes]
rs2477328	0.93[EUR][1000 genomes]
rs2477329	0.92[ASN][1000 genomes]
rs2477330	0.93[EUR][1000 genomes]
rs2477332	0.93[EUR][1000 genomes]
rs2477333	0.91[EUR][1000 genomes]
rs2477334	0.90[ASN][1000 genomes]
rs2477337	0.92[ASN][1000 genomes]
rs2477340	0.93[EUR][1000 genomes]
rs2505295	0.92[EUR][1000 genomes]
rs2505300	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2505331	0.92[ASN][1000 genomes]
rs2505334	0.92[EUR][1000 genomes]
rs56851979	0.92[ASN][1000 genomes]
rs590990	0.81[ASN][1000 genomes]
rs592818	0.87[ASN][1000 genomes]
rs61285402	0.85[ASN][1000 genomes]
rs627663	0.87[ASN][1000 genomes]
rs660053	0.84[ASN][1000 genomes]
rs7915734	0.90[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv8614	chr10:27504487-27828406	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
2	nsv550241	chr10:27569521-28025771	Enhancers ZNF genes & repeats Strong transcription Weak transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
3	nsv1045257	chr10:27572440-27926946	Active TSS Enhancers Weak transcription Flanking Active TSS Strong transcription Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
4	nsv1053952	chr10:27659365-27915029	Enhancers Weak transcription Strong transcription Flanking Active TSS Genic enhancers Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	13 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	chr10:27780400-27789000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
2	chr10:27780800-27789200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links