Variant report

Variant	rs10904325
Chromosome Location	chr10:4751327-4751328
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr10:4705429..4707304-chr10:4750266..4753221,2	MCF-7	breast:
2	chr10:4750679..4752473-chr10:4773758..4775302,2	MCF-7	breast:
3	chr10:4728591..4731075-chr10:4749795..4752617,2	K562	blood:

Extended variants
information (count: 30 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:28)

rs_ID	r²[population]
rs10795198	0.91[ASN][1000 genomes]
rs10904318	0.91[ASN][1000 genomes]
rs10904319	0.91[ASN][1000 genomes]
rs10904320	0.91[ASN][1000 genomes]
rs10904321	0.89[CHD][hapmap];1.00[JPT][hapmap];0.83[MEX][hapmap];0.95[ASN][1000 genomes]
rs10904322	1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap];0.95[ASN][1000 genomes]
rs10904324	0.96[ASN][1000 genomes]
rs10904326	0.81[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs10904327	0.81[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs10904329	0.92[CHB][hapmap];0.93[CHD][hapmap];0.93[JPT][hapmap];0.83[MEX][hapmap];0.91[ASN][1000 genomes]
rs11252666	0.85[ASN][1000 genomes]
rs11252667	0.85[ASN][1000 genomes]
rs11252674	0.89[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11252677	0.96[ASN][1000 genomes]
rs11252679	1.00[ASN][1000 genomes]
rs1901635	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2167695	0.89[AFR][1000 genomes];0.99[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs36034519	0.96[ASN][1000 genomes]
rs4372341	1.00[ASN][1000 genomes]
rs6601857	0.81[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs6601858	0.97[ASN][1000 genomes]
rs7079701	1.00[CHB][hapmap];0.93[CHD][hapmap];0.94[JPT][hapmap];0.83[MEX][hapmap];0.87[ASN][1000 genomes]
rs7090458	0.81[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs7091473	0.96[ASN][1000 genomes]
rs7093111	0.91[ASN][1000 genomes]
rs7895619	0.92[ASN][1000 genomes]
rs7905751	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7923564	0.87[AFR][1000 genomes];0.99[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[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	nsv894787	chr10:4385379-4857717	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
2	nsv1040924	chr10:4734176-4765606	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS	Chromatin interactive region	4 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs10904325	IL15RA	cis	parietal	SCAN

Chromatin state (count:9 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:4738400-4755600	Weak transcription	Right Atrium	heart
2	chr10:4743400-4758400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr10:4746600-4753400	Weak transcription	Gastric	stomach
4	chr10:4746600-4754200	Weak transcription	Placenta Amnion	Placenta Amnion
5	chr10:4746800-4762800	Weak transcription	NHLF	lung
6	chr10:4747200-4754000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
7	chr10:4748400-4755400	Weak transcription	Left Ventricle	heart
8	chr10:4749200-4769400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
9	chr10:4750600-4752600	Weak transcription	Stomach Mucosa	stomach

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links