Variant report

Variant	rs7077401
Chromosome Location	chr10:6025878-6025879
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 20 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs3136611	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs36055263	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8177586	0.96[CEU][hapmap];1.00[MEX][hapmap];0.95[TSI][hapmap];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs8177587	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs8177590	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs8177594	0.94[ASN][1000 genomes]
rs8177598	0.94[ASN][1000 genomes]
rs8177600	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs8177613	0.96[CEU][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.90[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs8177614	0.96[CEU][hapmap];0.90[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs8177631	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs8177633	0.84[CEU][hapmap];0.89[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs8177636	0.84[CEU][hapmap];0.95[MEX][hapmap];1.00[TSI][hapmap];0.89[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs8177645	0.82[ASN][1000 genomes]
rs8177782	1.00[CHB][hapmap];0.82[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv34147	chr10:5726821-6105717	Strong transcription Weak transcription Genic enhancers Enhancers Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
2	esv34061	chr10:5726821-6225187	Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
3	nsv1042286	chr10:5795129-6578445	Enhancers Weak transcription Genic enhancers Active TSS Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	76 gene(s)	inside rSNPs	diseases
4	nsv1041261	chr10:5962635-6052196	Weak transcription Active TSS Genic enhancers Enhancers Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
5	nsv1050983	chr10:5963921-6052196	Weak transcription Flanking Active TSS Enhancers Bivalent/Poised TSS Strong transcription Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs7077401	IL15RA	cis	multi-tissue	Pritchard
rs7077401	IL2RA	cis	parietal	SCAN

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:6020400-6029800	Weak transcription	Ovary	ovary
2	chr10:6021000-6027800	Weak transcription	Adipose Nuclei	Adipose
3	chr10:6023800-6026200	Weak transcription	Pancreas	Pancrea
4	chr10:6025400-6032400	Enhancers	Fetal Stomach	stomach
5	chr10:6025600-6026400	Bivalent Enhancer	IMR90 fetal lung fibroblasts Cell Line	lung
6	chr10:6025600-6026400	Enhancers	Duodenum Mucosa	Duodenum
7	chr10:6025600-6026400	Enhancers	Fetal Adrenal Gland	Adrenal Gland
8	chr10:6025600-6026400	Enhancers	Fetal Lung	lung
9	chr10:6025800-6026000	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
10	chr10:6025800-6026200	Bivalent Enhancer	Stomach Smooth Muscle	stomach

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Input of quick search could be:

dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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