Variant report

Variant	rs9375953
Chromosome Location	chr6:133610298-133610299
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 28 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:24)

rs_ID	r²[population]
rs11154722	0.95[CHB][hapmap];0.88[GIH][hapmap];0.85[JPT][hapmap]
rs12196330	0.92[AFR][1000 genomes];0.96[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17062270	0.92[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];0.97[GIH][hapmap];0.95[JPT][hapmap];0.81[LWK][hapmap];0.95[MEX][hapmap];0.82[MKK][hapmap];1.00[TSI][hapmap];0.86[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs17062277	0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1932746	0.95[CHB][hapmap];0.83[CHD][hapmap];0.85[JPT][hapmap]
rs2180730	0.84[MEX][hapmap]
rs3734277	1.00[MEX][hapmap];0.90[AMR][1000 genomes]
rs4895960	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60411491	0.86[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6926146	0.93[EUR][1000 genomes]
rs73009604	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9321395	0.84[MEX][hapmap]
rs9321396	0.84[MEX][hapmap]
rs9375954	0.83[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9389067	0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9399056	0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9402500	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9483565	0.84[MEX][hapmap]
rs9483568	1.00[CEU][hapmap];0.80[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs9493579	0.83[EUR][1000 genomes]
rs9493580	0.84[CEU][hapmap];0.83[EUR][1000 genomes]
rs9493581	0.84[CEU][hapmap];0.84[MEX][hapmap];0.90[TSI][hapmap];0.82[EUR][1000 genomes]
rs9493582	0.85[EUR][1000 genomes]
rs9493583	0.80[AMR][1000 genomes];0.90[EUR][1000 genomes]

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	esv2758080	chr6:133444719-133627364	Weak transcription ZNF genes & repeats Bivalent Enhancer Flanking Active TSS Enhancers Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
2	esv2759470	chr6:133444719-133627364	Weak transcription Enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Active TSS Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
3	nsv886678	chr6:133550279-133631190	Flanking Bivalent TSS/Enh Bivalent Enhancer Enhancers Weak transcription Flanking Active TSS Bivalent/Poised TSS Active TSS ZNF genes & repeats Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
4	nsv886679	chr6:133578733-133635272	Flanking Bivalent TSS/Enh ZNF genes & repeats Enhancers Bivalent Enhancer Weak transcription Active TSS Flanking Active TSS Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs9375953	MAP7	cis	cerebellum	SCAN
rs9375953	SLC35D3	cis	parietal	SCAN

Chromatin state (count:14 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:133594200-133612800	Weak transcription	Fetal Muscle Leg	muscle
2	chr6:133594200-133614000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
3	chr6:133594200-133617200	Weak transcription	Left Ventricle	heart
4	chr6:133599000-133610400	Weak transcription	Cortex derived primary cultured neurospheres	brain
5	chr6:133599000-133629000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
6	chr6:133599800-133612400	Weak transcription	A549	lung
7	chr6:133605600-133614000	Weak transcription	Psoas Muscle	Psoas
8	chr6:133607200-133611000	Weak transcription	Skeletal Muscle Female	skeletal muscle
9	chr6:133608600-133611600	Weak transcription	Skeletal Muscle Male	skeletal muscle
10	chr6:133609600-133611600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
11	chr6:133609800-133610400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
12	chr6:133610200-133610600	Weak transcription	Hela-S3	cervix
13	chr6:133610200-133612200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
14	chr6:133610200-133612800	Weak transcription	Osteobl	bone

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links