Variant report

Variant	rs10882742
Chromosome Location	chr10:97948589-97948590
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:97888142..97890161-chr10:97948497..97950292,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000177853	Chromatin interaction

Extended variants
information (count: 38 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:38)

rs_ID	r²[population]
rs1023331	0.83[CEU][hapmap]
rs1029215	0.89[ASW][hapmap];0.95[LWK][hapmap];0.90[MEX][hapmap];0.82[TSI][hapmap];0.91[YRI][hapmap]
rs10509704	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.82[AFR][1000 genomes];0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10509706	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.82[AFR][1000 genomes];0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10748659	0.80[CEU][hapmap]
rs10748660	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];0.82[AFR][1000 genomes];0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10882731	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AFR][1000 genomes];0.81[AMR][1000 genomes];0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10882732	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.82[AFR][1000 genomes];0.81[AMR][1000 genomes];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11188564	0.85[JPT][hapmap]
rs11188574	0.85[JPT][hapmap]
rs11188633	0.82[AFR][1000 genomes];0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11188634	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.82[AFR][1000 genomes];0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11188642	0.82[AFR][1000 genomes];0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11188643	0.82[AFR][1000 genomes];0.81[AMR][1000 genomes];0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11188655	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs11188660	0.95[AFR][1000 genomes];0.99[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11188663	0.85[AFR][1000 genomes];0.88[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1172937	0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1172940	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1172943	0.84[CEU][hapmap];0.86[MEX][hapmap]
rs1172958	1.00[YRI][hapmap];0.81[EUR][1000 genomes]
rs1172960	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1172961	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1172963	0.80[EUR][1000 genomes]
rs1177749	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12766762	0.82[AFR][1000 genomes];0.81[AMR][1000 genomes];0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12776881	0.85[AFR][1000 genomes];0.88[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs12782206	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1414919	0.89[ASW][hapmap];0.84[CEU][hapmap];0.96[LWK][hapmap];0.90[MEX][hapmap];1.00[YRI][hapmap]
rs17111316	0.85[JPT][hapmap]
rs1764305	0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2446023	0.88[CEU][hapmap];0.89[TSI][hapmap]
rs2484912	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs2861304	0.86[ASN][1000 genomes]
rs3748226	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.82[AFR][1000 genomes];0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs3762090	1.00[ASW][hapmap];0.92[CEU][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.92[TSI][hapmap];1.00[YRI][hapmap];0.82[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs7084542	1.00[ASW][hapmap];0.88[CEU][hapmap];0.96[LWK][hapmap];0.90[MEX][hapmap];0.82[TSI][hapmap];1.00[YRI][hapmap]
rs9783259	0.80[JPT][hapmap]

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs10882742	MYOF	cis	parietal	SCAN
rs10882742	CRTAC1	cis	parietal	SCAN
rs10882742	GPR120	cis	cerebellum	SCAN

Chromatin state (count:16 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:97945600-97956200	Weak transcription	Brain Substantia Nigra	brain
2	chr10:97947000-97950000	Weak transcription	Rectal Mucosa Donor 31	rectum
3	chr10:97947400-97949600	Weak transcription	Rectal Mucosa Donor 29	rectum
4	chr10:97947400-97961800	Weak transcription	Pancreas	Pancrea
5	chr10:97947800-97949600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
6	chr10:97947800-97949800	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
7	chr10:97948000-97948800	Enhancers	HSMMtube	muscle
8	chr10:97948000-97949000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
9	chr10:97948000-97949200	Enhancers	Osteobl	bone
10	chr10:97948000-97963800	Weak transcription	Placenta	Placenta
11	chr10:97948200-97948800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
12	chr10:97948200-97949400	Enhancers	Muscle Satellite Cultured Cells	--
13	chr10:97948200-97963600	Weak transcription	Gastric	stomach
14	chr10:97948200-97979000	Weak transcription	Sigmoid Colon	Sigmoid Colon
15	chr10:97948400-97957000	Weak transcription	Fetal Intestine Small	intestine
16	chr10:97948400-97974200	Weak transcription	Breast Myoepithelial Primary Cells	Breast

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