Variant report

Variant	rs7178409
Chromosome Location	chr15:73087366-73087367
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:73075105..73076707-chr15:73086411..73087982,2	K562	blood:
2	chr15:73085797..73088021-chr15:73353697..73355855,2	MCF-7	breast:
3	chr15:73078686..73082116-chr15:73085791..73087796,3	K562	blood:

Variant related genes	Relation type
ENSG00000260898	Chromatin interaction
ENSG00000159322	Chromatin interaction

Extended variants
information (count: 47 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:43)

rs_ID	r²[population]
rs11072384	0.91[CHB][hapmap]
rs11072387	0.86[ASN][1000 genomes]
rs12439375	1.00[CEU][hapmap];0.90[CHB][hapmap];0.80[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12440951	0.86[ASN][1000 genomes]
rs12594667	0.81[ASN][1000 genomes]
rs12594844	0.89[CEU][hapmap];0.95[CHB][hapmap];0.98[CHD][hapmap];0.91[GIH][hapmap];0.88[MEX][hapmap];0.87[TSI][hapmap];0.86[ASN][1000 genomes]
rs12594938	0.95[CHB][hapmap];0.98[CHD][hapmap];0.86[GIH][hapmap];0.82[MEX][hapmap];0.86[ASN][1000 genomes]
rs16957293	0.89[CEU][hapmap];0.95[CHB][hapmap];0.98[CHD][hapmap];0.91[GIH][hapmap];0.94[MEX][hapmap];0.87[TSI][hapmap];0.86[ASN][1000 genomes]
rs2012253	0.86[CHD][hapmap]
rs2278543	0.89[CEU][hapmap];0.95[CHB][hapmap];0.98[CHD][hapmap];0.91[GIH][hapmap];0.94[MEX][hapmap];0.87[TSI][hapmap];0.82[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2415166	0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs28398258	0.86[ASN][1000 genomes]
rs3179616	0.83[ASN][1000 genomes]
rs35136341	0.81[ASN][1000 genomes]
rs3759870	0.89[CEU][hapmap];0.95[CHB][hapmap];0.98[CHD][hapmap];0.91[GIH][hapmap];0.94[MEX][hapmap];0.87[TSI][hapmap];0.84[ASN][1000 genomes]
rs4776611	0.88[CEU][hapmap];0.83[CHB][hapmap]
rs4776616	0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4777528	0.89[CEU][hapmap]
rs4777529	0.89[CEU][hapmap];0.83[CHB][hapmap]
rs4777530	0.95[CHB][hapmap];0.80[ASN][1000 genomes]
rs4777531	0.83[ASN][1000 genomes]
rs4777533	0.91[CHB][hapmap];0.98[CHD][hapmap];0.84[ASN][1000 genomes]
rs4777537	0.86[ASN][1000 genomes]
rs4777538	0.81[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4777540	1.00[CEU][hapmap];0.95[CHB][hapmap];0.98[CHD][hapmap];1.00[GIH][hapmap];0.94[MEX][hapmap];1.00[TSI][hapmap];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4777543	1.00[CEU][hapmap];0.95[CHB][hapmap];0.82[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4777545	0.80[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs56915357	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs58600393	0.82[ASN][1000 genomes]
rs59049627	0.80[ASN][1000 genomes]
rs60601886	0.85[ASN][1000 genomes]
rs60674997	0.81[ASN][1000 genomes]
rs61311866	0.82[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs62017593	0.83[ASN][1000 genomes]
rs62017598	0.86[ASN][1000 genomes]
rs62017623	0.80[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs72662112	0.82[ASN][1000 genomes]
rs72737337	0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs730180	0.82[CHB][hapmap];0.88[CHD][hapmap];0.82[MEX][hapmap]
rs7495022	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7497429	0.81[CHB][hapmap]
rs8032586	1.00[CEU][hapmap];0.95[CHB][hapmap];0.98[CHD][hapmap];0.97[GIH][hapmap];0.93[MEX][hapmap];0.96[TSI][hapmap];0.80[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs8033644	0.87[CHB][hapmap];0.86[JPT][hapmap]

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	esv2758386	chr15:72819785-73120560	Strong transcription ZNF genes & repeats Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	55 gene(s)	inside rSNPs	diseases
2	esv2760039	chr15:72819785-73120560	Weak transcription Strong transcription Enhancers Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	55 gene(s)	inside rSNPs	diseases
3	nsv428307	chr15:72819785-73120560	Strong transcription Flanking Active TSS Active TSS Weak transcription ZNF genes & repeats Enhancers Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	55 gene(s)	inside rSNPs	diseases
4	nsv482512	chr15:73023099-73175952	Flanking Active TSS Strong transcription Weak transcription Enhancers ZNF genes & repeats Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:15 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:73077000-73088800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr15:73080000-73088800	Weak transcription	Brain Cingulate Gyrus	brain
3	chr15:73081200-73088800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
4	chr15:73082200-73088800	Weak transcription	Ovary	ovary
5	chr15:73083400-73089000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
6	chr15:73083600-73088200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
7	chr15:73083600-73088800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
8	chr15:73086200-73088200	Enhancers	Fetal Stomach	stomach
9	chr15:73086600-73087400	Enhancers	Fetal Lung	lung
10	chr15:73086600-73088800	Weak transcription	Skeletal Muscle Female	skeletal muscle
11	chr15:73086800-73088800	Weak transcription	Brain Inferior Temporal Lobe	brain
12	chr15:73086800-73089000	Weak transcription	Right Atrium	heart
13	chr15:73087200-73087400	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
14	chr15:73087200-73087400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
15	chr15:73087200-73087400	Enhancers	Fetal Muscle Trunk	muscle

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