Variant report

Variant	rs7524931
Chromosome Location	chr1:59197556-59197557
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr1:59196730..59199311-chr1:59246080..59248881,2	K562	blood:
2	chr1:59194152..59196031-chr1:59196369..59198347,2	MCF-7	breast:

Extended variants
information (count: 34 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:32)

rs_ID	r²[population]
rs10889115	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11583201	0.92[ASW][hapmap];0.92[CEU][hapmap];0.84[CHB][hapmap];0.90[CHD][hapmap];0.85[GIH][hapmap];0.85[JPT][hapmap];0.93[LWK][hapmap];0.93[MEX][hapmap];0.97[MKK][hapmap];1.00[TSI][hapmap];0.96[YRI][hapmap];0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12118682	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12143680	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12405774	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.93[MEX][hapmap];0.97[TSI][hapmap];0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12409869	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12747063	0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17117956	0.83[CEU][hapmap];0.92[JPT][hapmap]
rs17118103	0.92[JPT][hapmap]
rs17118106	0.92[JPT][hapmap];0.85[MEX][hapmap]
rs232777	0.85[CEU][hapmap];0.82[GIH][hapmap];0.92[JPT][hapmap]
rs232780	0.85[CEU][hapmap];0.92[JPT][hapmap]
rs232782	0.85[CEU][hapmap];0.82[GIH][hapmap];0.92[JPT][hapmap]
rs232786	0.83[CEU][hapmap];0.90[JPT][hapmap]
rs232787	0.82[CEU][hapmap]
rs232794	0.85[CEU][hapmap];0.82[GIH][hapmap];0.92[JPT][hapmap]
rs232795	0.85[CEU][hapmap];1.00[JPT][hapmap]
rs232853	0.85[CEU][hapmap];0.92[JPT][hapmap]
rs232855	0.85[CEU][hapmap]
rs232860	0.85[CEU][hapmap];0.82[GIH][hapmap];0.92[JPT][hapmap]
rs232871	0.85[CEU][hapmap];0.91[JPT][hapmap]
rs232874	0.85[CEU][hapmap];0.82[GIH][hapmap];0.92[JPT][hapmap]
rs232876	0.85[CEU][hapmap];0.92[JPT][hapmap]
rs232882	0.85[CEU][hapmap];0.82[GIH][hapmap];0.92[JPT][hapmap]
rs232885	0.85[CEU][hapmap];0.82[GIH][hapmap];0.92[JPT][hapmap]
rs232892	0.85[CEU][hapmap];0.82[GIH][hapmap];0.92[JPT][hapmap]
rs232894	0.85[CEU][hapmap];0.90[JPT][hapmap]
rs232895	0.82[CEU][hapmap];0.91[JPT][hapmap]
rs34882065	0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6587835	0.85[CEU][hapmap];0.82[GIH][hapmap];0.92[JPT][hapmap]
rs7528508	0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7548025	0.97[EUR][1000 genomes];0.92[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	esv3438149	chr1:59194264-59197912	Enhancers Weak transcription Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
2	esv2754829	chr1:59197556-59215791	Weak transcription Enhancers ZNF genes & repeats Bivalent Enhancer Flanking Active TSS Strong transcription	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs7524931	PARS2	cis	parietal	SCAN
rs7524931	INADL	cis	parietal	SCAN

Chromatin state (count:20 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:59183400-59197600	Weak transcription	Aorta	Aorta
2	chr1:59192600-59204200	Weak transcription	Primary neutrophils fromperipheralblood	blood
3	chr1:59193600-59197800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
4	chr1:59193600-59200200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
5	chr1:59193800-59197600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
6	chr1:59193800-59197600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
7	chr1:59194400-59197600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
8	chr1:59194400-59197600	Weak transcription	Muscle Satellite Cultured Cells	--
9	chr1:59194400-59197600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
10	chr1:59194400-59197600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
11	chr1:59194400-59197600	Weak transcription	HMEC	breast
12	chr1:59194400-59197600	Weak transcription	NHDF-Ad	bronchial
13	chr1:59194400-59197800	Weak transcription	Placenta Amnion	Placenta Amnion
14	chr1:59197200-59198800	Enhancers	Breast Myoepithelial Primary Cells	Breast
15	chr1:59197400-59198200	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
16	chr1:59197400-59198400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
17	chr1:59197400-59198400	Enhancers	NHEK	skin
18	chr1:59197400-59198600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
19	chr1:59197400-59198600	Enhancers	Osteobl	bone
20	chr1:59197400-59198800	Enhancers	Rectal Smooth Muscle	rectum

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links