Variant report

Variant	rs750582
Chromosome Location	chr5:43430273-43430274
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:9)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:9 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr5:43395606..43397205-chr5:43429947..43432661,2	MCF-7	breast:
2	chr5:43421006..43424016-chr5:43430085..43432621,4	MCF-7	breast:
3	chr5:43429044..43431597-chr5:43483560..43485398,2	K562	blood:
4	chr5:43424455..43437851-chr5:43481449..43486495,21	MCF-7	breast:
5	chr5:43425564..43427749-chr5:43427854..43431267,3	MCF-7	breast:
6	chr5:43065664..43067789-chr5:43427695..43430360,2	MCF-7	breast:
7	chr5:43401279..43403730-chr5:43426630..43430276,3	MCF-7	breast:
8	chr5:43415058..43417712-chr5:43429941..43433858,3	MCF-7	breast:
9	chr5:43425434..43428168-chr5:43429895..43432918,3	K562	blood:

No data

Variant related genes	Relation type
ENSG00000177738	Chromatin interaction
ENSG00000172262	Chromatin interaction
ENSG00000151881	Chromatin interaction
ENSG00000249492	Chromatin interaction

Extended variants
information (count: 102 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:102)

rs_ID	r²[population]
rs10036954	0.92[CEU][hapmap];0.95[GIH][hapmap];0.87[MEX][hapmap];0.89[TSI][hapmap];0.84[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs10038608	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.93[TSI][hapmap];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10042992	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.91[TSI][hapmap]
rs10045400	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10045455	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10055801	0.91[MEX][hapmap]
rs10057103	0.89[CEU][hapmap];0.87[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap]
rs10058558	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.93[TSI][hapmap]
rs10059993	0.96[MEX][hapmap]
rs10061165	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.93[TSI][hapmap];0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10065689	0.96[MEX][hapmap]
rs10065863	0.89[CEU][hapmap];0.87[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap]
rs10074682	1.00[ASW][hapmap];0.96[CEU][hapmap];0.95[GIH][hapmap];0.90[LWK][hapmap];1.00[MEX][hapmap];0.91[TSI][hapmap];0.83[YRI][hapmap];0.93[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10447144	1.00[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10462051	0.96[CEU][hapmap]
rs10473311	0.86[AFR][1000 genomes];0.92[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs1072745	0.89[CEU][hapmap];0.87[CHB][hapmap];1.00[JPT][hapmap]
rs1072746	0.89[CEU][hapmap];0.87[CHB][hapmap];1.00[JPT][hapmap]
rs10941640	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes]
rs11949083	0.96[MEX][hapmap]
rs12521249	0.96[MEX][hapmap]
rs12652547	1.00[CEU][hapmap];0.94[CHB][hapmap];0.97[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.91[TSI][hapmap]
rs12659369	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12697452	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs13185343	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs13189004	1.00[CEU][hapmap];0.88[CHB][hapmap];0.97[CHD][hapmap];0.93[GIH][hapmap];0.94[JPT][hapmap];1.00[MEX][hapmap];0.91[TSI][hapmap]
rs1366410	0.96[MEX][hapmap]
rs1389868	0.96[CEU][hapmap];0.89[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1389869	0.89[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1428640	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2013173	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2131999	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs2132000	0.88[EUR][1000 genomes]
rs2172763	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.93[TSI][hapmap];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs34007811	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs35710460	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs35881272	0.84[EUR][1000 genomes]
rs36013953	0.80[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs3776423	1.00[ASW][hapmap];0.96[CEU][hapmap];0.95[GIH][hapmap];0.90[LWK][hapmap];0.96[MEX][hapmap];0.91[TSI][hapmap];0.83[YRI][hapmap];0.83[AFR][1000 genomes];0.88[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs3806870	1.00[CEU][hapmap];0.87[MEX][hapmap];0.84[TSI][hapmap];0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4072918	0.96[MEX][hapmap]
rs4072919	0.91[MEX][hapmap]
rs4073848	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.93[TSI][hapmap];0.85[EUR][1000 genomes]
rs4073850	0.85[EUR][1000 genomes]
rs4073851	0.80[EUR][1000 genomes]
rs4074777	0.96[MEX][hapmap]
rs4242099	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4308491	0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4331909	0.84[EUR][1000 genomes]
rs4367306	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.93[TSI][hapmap]
rs4386738	0.96[MEX][hapmap]
rs4415083	0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4467713	0.96[CEU][hapmap];0.95[GIH][hapmap];0.96[MEX][hapmap];0.91[TSI][hapmap]
rs4535459	0.92[MEX][hapmap]
rs4541663	0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4576155	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4866746	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4866752	0.89[CEU][hapmap];0.87[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap]
rs4866833	0.96[CEU][hapmap];0.95[GIH][hapmap];0.96[MEX][hapmap];0.91[TSI][hapmap];0.82[EUR][1000 genomes]
rs57547662	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs57597020	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6451692	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.93[TSI][hapmap];0.85[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6451693	0.93[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs6451695	1.00[ASW][hapmap];0.96[CEU][hapmap];0.95[GIH][hapmap];0.90[LWK][hapmap];0.96[MEX][hapmap];0.91[TSI][hapmap];0.83[YRI][hapmap];0.86[AFR][1000 genomes];0.94[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs6451696	1.00[ASW][hapmap];0.96[CEU][hapmap];0.95[GIH][hapmap];0.90[LWK][hapmap];0.96[MEX][hapmap];0.91[TSI][hapmap];0.83[YRI][hapmap];0.82[AFR][1000 genomes];0.92[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs6451698	0.96[CEU][hapmap];0.83[MEX][hapmap];0.91[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs6451703	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6451704	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs6451706	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.93[TSI][hapmap];0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6451718	0.89[CEU][hapmap];0.94[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap]
rs67466542	0.83[AFR][1000 genomes];0.87[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs6858942	0.82[AFR][1000 genomes];0.88[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs6859344	0.81[AMR][1000 genomes]
rs6860493	0.96[MEX][hapmap]
rs6861704	0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6862102	0.96[CEU][hapmap];0.91[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs6865217	0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6870018	0.96[CEU][hapmap];0.91[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs6870783	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6878770	0.96[MEX][hapmap]
rs6883661	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6884661	0.96[MEX][hapmap]
rs6885679	0.96[MEX][hapmap]
rs6895327	0.96[MEX][hapmap]
rs6896693	0.96[MEX][hapmap]
rs73100614	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs750584	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7703662	0.94[JPT][hapmap];0.84[AMR][1000 genomes]
rs7707976	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7708369	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.98[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7708443	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7710628	0.92[MEX][hapmap]
rs7713479	0.96[MEX][hapmap]
rs7715782	0.96[MEX][hapmap]
rs7718627	0.96[MEX][hapmap]
rs7724571	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap];0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7731091	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7732656	0.96[MEX][hapmap]
rs7735243	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9292883	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs9686159	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9885467	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs750582	YY2	trans	cerebellum	SCAN
rs750582	C5orf34	cis	parietal	SCAN

Chromatin state (count:29 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:43419000-43432600	Weak transcription	Colonic Mucosa	Colon
2	chr5:43422000-43432600	Weak transcription	Pancreas	Pancrea
3	chr5:43422800-43432800	Weak transcription	NH-A	brain
4	chr5:43425600-43430400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
5	chr5:43425800-43430400	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
6	chr5:43425800-43430400	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
7	chr5:43425800-43430400	Enhancers	HMEC	breast
8	chr5:43425800-43430400	Enhancers	NHEK	skin
9	chr5:43426400-43443600	Weak transcription	Esophagus	oesophagus
10	chr5:43427000-43432800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
11	chr5:43428600-43431400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
12	chr5:43428800-43430400	Enhancers	Hela-S3	cervix
13	chr5:43428800-43432200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
14	chr5:43428800-43432200	Weak transcription	Duodenum Mucosa	Duodenum
15	chr5:43428800-43432400	Weak transcription	Muscle Satellite Cultured Cells	--
16	chr5:43428800-43432400	Weak transcription	Fetal Lung	lung
17	chr5:43428800-43432400	Weak transcription	Osteobl	bone
18	chr5:43428800-43432600	Weak transcription	NHLF	lung
19	chr5:43429200-43430400	Enhancers	Breast Myoepithelial Primary Cells	Breast
20	chr5:43429400-43431600	Weak transcription	Placenta	Placenta
21	chr5:43429400-43432000	Weak transcription	A549	lung
22	chr5:43429400-43432200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
23	chr5:43429400-43432200	Weak transcription	Liver	Liver
24	chr5:43429400-43432400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
25	chr5:43429400-43460200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
26	chr5:43430000-43431200	Weak transcription	HepG2	liver
27	chr5:43430200-43430400	Enhancers	Gastric	stomach
28	chr5:43430200-43430400	Enhancers	Stomach Mucosa	stomach
29	chr5:43430200-43432200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links