Variant report

Variant	rs1500916
Chromosome Location	chr3:157088042-157088043
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 78 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:78)

rs_ID	r²[population]
rs1027603	0.94[CHB][hapmap];0.92[CHD][hapmap];0.89[GIH][hapmap];0.91[JPT][hapmap];0.86[TSI][hapmap];0.88[ASN][1000 genomes]
rs10936085	1.00[CHB][hapmap];0.81[ASN][1000 genomes]
rs10936086	0.94[CHB][hapmap];0.82[JPT][hapmap];0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10936087	1.00[CEU][hapmap];0.94[CHB][hapmap];0.82[JPT][hapmap];0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12486427	1.00[CEU][hapmap];0.94[CHB][hapmap];0.82[JPT][hapmap];0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12492874	0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12492929	0.83[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12496879	0.94[CHB][hapmap];0.91[JPT][hapmap];0.88[ASN][1000 genomes]
rs12629552	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12636038	0.82[EUR][1000 genomes]
rs12638732	1.00[CEU][hapmap];0.94[CHB][hapmap];0.82[JPT][hapmap];0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs13087207	0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1456097	1.00[CEU][hapmap];0.94[CHB][hapmap];0.82[JPT][hapmap];0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1456105	0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1456106	0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1456108	1.00[CEU][hapmap];0.88[CHB][hapmap];0.82[JPT][hapmap];0.82[EUR][1000 genomes]
rs1456110	0.83[CEU][hapmap]
rs1500919	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1500920	0.91[CEU][hapmap];0.94[CHB][hapmap];0.91[JPT][hapmap];0.85[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1545596	1.00[CEU][hapmap];0.88[CHB][hapmap];0.82[JPT][hapmap];0.85[TSI][hapmap];0.82[EUR][1000 genomes]
rs1546261	0.94[CHB][hapmap];0.92[CHD][hapmap];0.89[GIH][hapmap];0.91[JPT][hapmap];0.84[TSI][hapmap];0.86[ASN][1000 genomes]
rs1563420	1.00[CEU][hapmap];0.88[CHB][hapmap];0.82[JPT][hapmap];0.82[EUR][1000 genomes]
rs1568609	0.95[CEU][hapmap];0.94[CHB][hapmap];0.92[CHD][hapmap];0.97[GIH][hapmap];0.91[JPT][hapmap];0.88[MEX][hapmap];0.95[TSI][hapmap];0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1568612	0.88[CHB][hapmap]
rs1585080	1.00[CEU][hapmap];0.94[CHB][hapmap];0.82[JPT][hapmap];0.86[AFR][1000 genomes];0.81[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1824058	1.00[CEU][hapmap];0.83[CHB][hapmap];0.82[JPT][hapmap]
rs1840668	1.00[CEU][hapmap];0.94[CHB][hapmap];0.82[JPT][hapmap];0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1840673	1.00[CEU][hapmap];0.88[CHB][hapmap];0.82[TSI][hapmap];0.82[EUR][1000 genomes]
rs1869857	0.84[CEU][hapmap]
rs1869859	1.00[CEU][hapmap];0.88[CHB][hapmap];0.82[JPT][hapmap];0.85[TSI][hapmap];0.82[EUR][1000 genomes]
rs1965246	1.00[CEU][hapmap];0.88[CHB][hapmap];0.82[JPT][hapmap];0.81[EUR][1000 genomes]
rs2047649	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2085315	0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2088815	0.82[CHB][hapmap];0.84[TSI][hapmap]
rs2124497	0.88[CHB][hapmap];0.82[JPT][hapmap];0.82[EUR][1000 genomes]
rs2168430	1.00[CEU][hapmap];0.88[CHB][hapmap];0.82[JPT][hapmap];0.82[EUR][1000 genomes]
rs2168431	0.88[CHB][hapmap];0.82[JPT][hapmap];0.82[EUR][1000 genomes]
rs2305620	1.00[CEU][hapmap];0.83[CHB][hapmap];0.82[JPT][hapmap];0.80[TSI][hapmap]
rs2305622	0.82[EUR][1000 genomes]
rs28638274	0.84[CEU][hapmap]
rs35004310	0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs3816528	1.00[CEU][hapmap];0.94[CHB][hapmap];0.84[CHD][hapmap];0.82[JPT][hapmap];0.82[ASN][1000 genomes]
rs4435581	0.83[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4640512	1.00[CEU][hapmap];0.94[CHB][hapmap];0.82[JPT][hapmap];0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4640513	0.84[CEU][hapmap]
rs4679793	1.00[CEU][hapmap];0.83[CHB][hapmap];0.82[JPT][hapmap];0.85[TSI][hapmap];0.82[EUR][1000 genomes]
rs4680351	0.88[CHB][hapmap];1.00[GIH][hapmap];0.83[TSI][hapmap]
rs4680358	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4680359	1.00[CHB][hapmap];0.81[ASN][1000 genomes]
rs4680360	0.89[ASW][hapmap];0.96[CEU][hapmap];0.89[CHB][hapmap];0.89[CHD][hapmap];0.82[GIH][hapmap];0.82[JPT][hapmap];0.92[LWK][hapmap];0.93[MEX][hapmap];0.95[MKK][hapmap];0.87[TSI][hapmap];0.90[AFR][1000 genomes];0.85[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6441121	0.83[CHB][hapmap]
rs6441124	0.80[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs6441126	0.88[CHB][hapmap];0.82[JPT][hapmap];0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6441127	0.84[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6441128	1.00[CEU][hapmap];0.94[CHB][hapmap];0.82[JPT][hapmap];0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6441129	1.00[CEU][hapmap];0.88[CHB][hapmap];0.82[CHD][hapmap];0.82[JPT][hapmap];0.82[TSI][hapmap]
rs6776647	0.88[CHB][hapmap];1.00[GIH][hapmap];0.84[TSI][hapmap]
rs6780399	0.86[ASN][1000 genomes]
rs6801110	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6803628	0.88[CHB][hapmap];0.82[JPT][hapmap]
rs722484	0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7614339	0.83[CEU][hapmap];0.93[CHB][hapmap]
rs7617727	1.00[CEU][hapmap];0.94[CHB][hapmap];0.89[CHD][hapmap];0.82[JPT][hapmap];0.85[TSI][hapmap];0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7618737	0.84[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7623173	1.00[CEU][hapmap];0.88[CHB][hapmap];0.82[EUR][1000 genomes]
rs7629293	0.82[EUR][1000 genomes]
rs7631556	0.94[CHB][hapmap];0.91[JPT][hapmap];0.88[ASN][1000 genomes]
rs7639254	0.95[CEU][hapmap];0.94[CHB][hapmap];0.85[CHD][hapmap];0.82[JPT][hapmap];0.82[TSI][hapmap];0.82[ASN][1000 genomes]
rs885094	0.86[ASN][1000 genomes]
rs924517	0.83[CHB][hapmap]
rs9857875	1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9867618	0.83[CHB][hapmap]
rs9871290	0.89[ASW][hapmap];1.00[CEU][hapmap];0.94[CHB][hapmap];0.89[CHD][hapmap];0.82[JPT][hapmap];0.92[LWK][hapmap];0.95[MKK][hapmap];0.87[TSI][hapmap];0.82[AFR][1000 genomes];0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9878474	1.00[CEU][hapmap];0.83[CHB][hapmap];0.82[JPT][hapmap];0.85[TSI][hapmap];0.82[EUR][1000 genomes]
rs9883103	0.89[CHB][hapmap];0.81[ASN][1000 genomes]
rs988587	1.00[CEU][hapmap];0.88[CHB][hapmap];0.88[CHD][hapmap];1.00[GIH][hapmap];0.91[JPT][hapmap];0.94[MEX][hapmap];1.00[TSI][hapmap];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs988588	1.00[CEU][hapmap];0.94[CHB][hapmap];0.92[CHD][hapmap];0.89[GIH][hapmap];0.91[JPT][hapmap];0.94[MEX][hapmap];0.98[TSI][hapmap];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9990136	1.00[CEU][hapmap];0.94[CHB][hapmap];0.92[CHD][hapmap];1.00[GIH][hapmap];0.91[JPT][hapmap];0.94[MEX][hapmap];1.00[TSI][hapmap];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs1500916	SSR3	cis	cerebellum	SCAN

Chromatin state (count:34 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:157078200-157102400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
2	chr3:157078800-157091600	Weak transcription	NH-A	brain
3	chr3:157081600-157091600	Weak transcription	NHLF	lung
4	chr3:157081600-157093800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
5	chr3:157083600-157105800	Weak transcription	HSMM	muscle
6	chr3:157083800-157092800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr3:157083800-157093600	Weak transcription	Fetal Brain Male	brain
8	chr3:157085000-157091600	Weak transcription	Aorta	Aorta
9	chr3:157086200-157091600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
10	chr3:157086400-157090200	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
11	chr3:157086800-157089200	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
12	chr3:157086800-157089200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
13	chr3:157086800-157089200	Enhancers	Fetal Lung	lung
14	chr3:157087000-157088400	Enhancers	HUVEC	blood vessel
15	chr3:157087000-157089000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
16	chr3:157087000-157089400	Enhancers	NHDF-Ad	bronchial
17	chr3:157087000-157089400	Enhancers	Osteobl	bone
18	chr3:157087200-157088200	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
19	chr3:157087200-157088400	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
20	chr3:157087200-157088400	Enhancers	Adipose Nuclei	Adipose
21	chr3:157087200-157089000	Enhancers	Breast Myoepithelial Primary Cells	Breast
22	chr3:157087400-157091400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
23	chr3:157087400-157091400	Weak transcription	Pancreas	Pancrea
24	chr3:157087600-157088200	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
25	chr3:157087600-157088200	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
26	chr3:157087600-157088400	Enhancers	Liver	Liver
27	chr3:157087800-157088200	Enhancers	Fetal Stomach	stomach
28	chr3:157087800-157088400	Enhancers	HUES6 Cell Line	embryonic stem cell
29	chr3:157087800-157088400	Flanking Active TSS	A549	lung
30	chr3:157087800-157088600	Enhancers	Muscle Satellite Cultured Cells	--
31	chr3:157087800-157088600	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
32	chr3:157088000-157088200	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
33	chr3:157088000-157088400	Enhancers	Colon Smooth Muscle	Colon
34	chr3:157088000-157108600	Weak transcription	Lung	lung

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