Variant report

Variant	rs1048956
Chromosome Location	chr10:90044789-90044790
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 14 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs1035796	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.98[TSI][hapmap];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1035797	1.00[CEU][hapmap];0.91[CHB][hapmap];0.95[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.95[TSI][hapmap];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10749570	0.87[CHB][hapmap];0.90[CHD][hapmap];0.91[JPT][hapmap];0.82[TSI][hapmap];0.83[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10887796	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1426615	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1426616	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1946391	0.81[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4934390	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4934391	0.94[ASW][hapmap];1.00[CEU][hapmap];0.95[CHB][hapmap];0.95[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.81[YRI][hapmap];0.81[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4934392	0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs606424	0.81[EUR][1000 genomes]
rs7069968	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7097903	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv895879	chr10:90015725-90219298	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs1048956	WAPAL	cis	parietal	SCAN
rs1048956	IFIT3	cis	parietal	SCAN

Chromatin state (count:18 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:90042200-90048400	Weak transcription	Pancreas	Pancrea
2	chr10:90042800-90048400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
3	chr10:90042800-90048600	Weak transcription	Thymus	Thymus
4	chr10:90042800-90051200	Weak transcription	HSMM	muscle
5	chr10:90042800-90071600	Weak transcription	Psoas Muscle	Psoas
6	chr10:90043000-90048200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
7	chr10:90043000-90048400	Weak transcription	Fetal Thymus	thymus
8	chr10:90043000-90048400	Weak transcription	NHDF-Ad	bronchial
9	chr10:90043000-90048600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
10	chr10:90043000-90048600	Weak transcription	Rectal Mucosa Donor 31	rectum
11	chr10:90043000-90051200	Weak transcription	Primary hematopoietic stem cells	blood
12	chr10:90043000-90051200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
13	chr10:90043200-90048000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
14	chr10:90043200-90048400	Weak transcription	Dnd41	blood
15	chr10:90043200-90049000	Weak transcription	Muscle Satellite Cultured Cells	--
16	chr10:90044000-90045200	Enhancers	Pancreatic Islets	Pancreatic Islet
17	chr10:90044200-90048200	Weak transcription	GM12878-XiMat	blood
18	chr10:90044400-90048400	Weak transcription	Primary B cells from peripheral blood	blood

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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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