Variant report

Variant	rs10866760
Chromosome Location	chr5:93338335-93338336
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 38 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:36)

rs_ID	r²[population]
rs10057664	0.82[TSI][hapmap]
rs10061069	0.87[ASN][1000 genomes]
rs1026279	0.82[TSI][hapmap]
rs1031423	1.00[ASW][hapmap];0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.90[JPT][hapmap];0.98[LWK][hapmap];1.00[MEX][hapmap];0.99[MKK][hapmap];0.92[TSI][hapmap];0.96[YRI][hapmap];0.93[AFR][1000 genomes];0.83[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11135394	0.89[CEU][hapmap];0.87[CHB][hapmap];0.96[CHD][hapmap];0.93[GIH][hapmap];0.90[JPT][hapmap];0.82[LWK][hapmap];1.00[MEX][hapmap];0.92[MKK][hapmap];0.87[TSI][hapmap];0.85[ASN][1000 genomes]
rs11135397	0.85[TSI][hapmap]
rs11135401	0.91[AMR][1000 genomes];0.81[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11948511	1.00[ASW][hapmap];0.94[CEU][hapmap];1.00[CHB][hapmap];0.96[CHD][hapmap];1.00[GIH][hapmap];0.90[JPT][hapmap];0.85[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];0.85[YRI][hapmap];0.83[AFR][1000 genomes];0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12653528	0.85[TSI][hapmap]
rs13165221	0.84[ASN][1000 genomes]
rs13167027	0.87[ASN][1000 genomes]
rs13184801	0.84[ASN][1000 genomes]
rs13186432	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1349711	0.82[TSI][hapmap]
rs1453003	0.82[TSI][hapmap]
rs17083380	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.93[GIH][hapmap];0.90[JPT][hapmap];0.85[LWK][hapmap];0.94[MEX][hapmap];0.87[MKK][hapmap];0.87[TSI][hapmap];0.85[ASN][1000 genomes]
rs2043979	0.85[ASN][1000 genomes]
rs2045019	0.82[TSI][hapmap]
rs2045020	0.90[TSI][hapmap]
rs2924374	0.82[TSI][hapmap]
rs35672980	0.90[AFR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs60375544	0.89[EUR][1000 genomes]
rs6556833	0.83[ASN][1000 genomes]
rs6556838	0.82[TSI][hapmap]
rs6556839	0.82[TSI][hapmap]
rs6860390	0.94[CEU][hapmap];0.83[CHB][hapmap];0.89[CHD][hapmap];1.00[GIH][hapmap];0.90[JPT][hapmap];0.88[MEX][hapmap];0.85[TSI][hapmap];0.81[AMR][1000 genomes]
rs6869110	1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.93[AMR][1000 genomes];0.91[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7708175	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.90[JPT][hapmap];0.85[LWK][hapmap];1.00[MEX][hapmap];0.92[MKK][hapmap];0.95[TSI][hapmap];0.89[YRI][hapmap];0.81[AFR][1000 genomes];0.87[AMR][1000 genomes];0.84[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7721668	1.00[ASW][hapmap];0.94[CEU][hapmap];0.94[CHB][hapmap];0.96[CHD][hapmap];1.00[GIH][hapmap];0.90[JPT][hapmap];0.98[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];0.92[YRI][hapmap];0.92[AFR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7727923	0.90[AFR][1000 genomes];0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7728825	1.00[ASW][hapmap];1.00[CEU][hapmap];0.94[CHB][hapmap];0.92[CHD][hapmap];0.90[JPT][hapmap];0.85[LWK][hapmap];0.88[MEX][hapmap];0.92[MKK][hapmap];0.87[TSI][hapmap];0.85[YRI][hapmap];0.80[AFR][1000 genomes];0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7732578	1.00[ASW][hapmap];1.00[CEU][hapmap];0.94[CHB][hapmap];0.96[CHD][hapmap];1.00[GIH][hapmap];0.90[JPT][hapmap];0.93[LWK][hapmap];1.00[MEX][hapmap];0.95[TSI][hapmap];1.00[YRI][hapmap];0.87[AFR][1000 genomes];0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7733142	0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7735009	0.94[CEU][hapmap];1.00[CHB][hapmap];0.82[JPT][hapmap];0.81[YRI][hapmap];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs890738	0.88[ASN][1000 genomes]
rs896729	0.90[TSI][hapmap]

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	nsv532196	chr5:92933949-93573527	Strong transcription Enhancers Weak transcription ZNF genes & repeats Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
2	nsv882384	chr5:93136661-93380123	Weak transcription Enhancers ZNF genes & repeats Strong transcription Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs10866760	GAL	trans	cerebellum	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:93297400-93349600	Weak transcription	Aorta	Aorta
2	chr5:93327000-93394600	Weak transcription	Small Intestine	intestine
3	chr5:93329200-93357000	Weak transcription	HSMM	muscle
4	chr5:93331000-93353000	Weak transcription	Fetal Thymus	thymus
5	chr5:93331400-93347000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
6	chr5:93331600-93357200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
7	chr5:93335200-93348200	Weak transcription	Primary T helper cells fromperipheralblood	blood
8	chr5:93335800-93338800	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
9	chr5:93337000-93348200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
10	chr5:93337400-93339000	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
11	chr5:93337600-93338400	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
12	chr5:93337800-93348200	Weak transcription	Fetal Lung	lung
13	chr5:93337800-93350800	Weak transcription	Primary T helper cells PMA-I stimulated	--
14	chr5:93338200-93340800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
15	chr5:93338200-93341400	Weak transcription	Dnd41	blood
16	chr5:93338200-93346600	Weak transcription	Primary B cells from cord blood	blood
17	chr5:93338200-93348200	Weak transcription	Primary B cells from peripheral blood	blood
18	chr5:93338200-93350600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood

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