Variant report

Variant	rs10779651
Chromosome Location	chr1:215345938-215345939
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 131 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:130)

rs_ID	r²[population]
rs10127521	0.96[ASN][1000 genomes]
rs10127656	0.90[CHB][hapmap];0.92[CHD][hapmap];0.81[JPT][hapmap];0.91[MEX][hapmap];0.87[YRI][hapmap];0.83[ASN][1000 genomes]
rs10746454	0.82[CEU][hapmap];0.95[CHB][hapmap];0.87[YRI][hapmap]
rs10746455	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap];0.93[ASN][1000 genomes]
rs10779639	0.82[CEU][hapmap];0.95[CHB][hapmap];0.81[JPT][hapmap];0.81[ASN][1000 genomes]
rs10779640	0.90[CHB][hapmap];0.81[JPT][hapmap];0.87[YRI][hapmap];0.83[ASN][1000 genomes]
rs10779642	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs10779643	0.81[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[YRI][hapmap];0.97[ASN][1000 genomes]
rs10779644	0.83[CEU][hapmap];0.90[CHB][hapmap];0.81[JPT][hapmap];0.84[ASN][1000 genomes]
rs10779645	0.81[CEU][hapmap];0.94[CHB][hapmap];0.84[ASN][1000 genomes]
rs10779646	0.91[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];0.84[ASN][1000 genomes]
rs10779647	0.83[CEU][hapmap];0.90[CHB][hapmap];0.92[CHD][hapmap];0.81[JPT][hapmap];0.84[ASN][1000 genomes]
rs10779649	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];0.91[YRI][hapmap];0.98[ASN][1000 genomes]
rs10779650	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[YRI][hapmap];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10779652	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10864148	0.82[CEU][hapmap]
rs10864150	0.83[YRI][hapmap]
rs10864152	0.81[CHB][hapmap];0.85[CHD][hapmap];0.81[MEX][hapmap]
rs10864154	0.83[ASN][1000 genomes]
rs10864157	0.87[ASN][1000 genomes]
rs11120495	0.82[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.87[YRI][hapmap];0.94[ASN][1000 genomes]
rs11120496	0.82[ASN][1000 genomes]
rs11120497	0.90[ASN][1000 genomes]
rs11120498	0.83[ASN][1000 genomes]
rs11120499	0.83[CEU][hapmap];0.90[CHB][hapmap];0.92[CHD][hapmap];0.81[JPT][hapmap];0.82[ASN][1000 genomes]
rs11120500	0.96[ASN][1000 genomes]
rs11120506	0.84[ASN][1000 genomes]
rs11120508	0.83[CEU][hapmap];0.90[CHB][hapmap];0.95[CHD][hapmap];0.81[JPT][hapmap];0.84[ASN][1000 genomes]
rs11120511	0.82[CEU][hapmap];0.95[CHB][hapmap];0.84[JPT][hapmap];0.84[ASN][1000 genomes]
rs11120513	0.83[CEU][hapmap];0.90[CHB][hapmap];0.95[CHD][hapmap];0.81[JPT][hapmap];0.84[ASN][1000 genomes]
rs11120516	0.84[ASN][1000 genomes]
rs11120517	0.82[ASN][1000 genomes]
rs11120519	0.85[CHD][hapmap]
rs1112101	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.91[YRI][hapmap];0.94[ASN][1000 genomes]
rs12031308	0.94[CHB][hapmap];0.88[JPT][hapmap];0.84[ASN][1000 genomes]
rs12038094	0.82[CEU][hapmap]
rs12039875	0.87[CEU][hapmap];0.90[CHB][hapmap];0.90[CHD][hapmap];0.80[TSI][hapmap]
rs12061916	0.83[ASN][1000 genomes]
rs12062098	0.92[ASN][1000 genomes]
rs12068734	0.84[ASN][1000 genomes]
rs12120091	0.90[CHB][hapmap];0.81[JPT][hapmap];0.85[ASN][1000 genomes]
rs12121761	0.83[CEU][hapmap];0.90[CHB][hapmap];0.81[JPT][hapmap];0.81[ASN][1000 genomes]
rs12131054	0.83[CEU][hapmap]
rs12135076	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[YRI][hapmap];0.98[ASN][1000 genomes]
rs12138497	0.97[ASN][1000 genomes]
rs12141874	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[YRI][hapmap];0.99[ASN][1000 genomes]
rs12143339	0.83[CEU][hapmap];0.90[CHB][hapmap];0.81[JPT][hapmap];0.84[ASN][1000 genomes]
rs12410041	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs12411068	0.95[CHB][hapmap];0.90[CHD][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs12567520	1.00[CHB][hapmap];1.00[CHD][hapmap];0.95[JPT][hapmap];0.98[ASN][1000 genomes]
rs12740245	0.84[CHB][hapmap]
rs12742137	0.87[YRI][hapmap];0.83[ASN][1000 genomes]
rs12753507	0.84[CHB][hapmap]
rs1339405	0.83[CEU][hapmap];0.90[CHB][hapmap];0.81[JPT][hapmap];0.82[ASN][1000 genomes]
rs1339406	0.83[CEU][hapmap];0.90[CHB][hapmap];0.84[JPT][hapmap];0.82[ASN][1000 genomes]
rs1361340	0.94[CHD][hapmap];0.94[JPT][hapmap];0.90[YRI][hapmap];0.99[ASN][1000 genomes]
rs1416647	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[YRI][hapmap];0.94[ASN][1000 genomes]
rs1556905	0.82[CHD][hapmap]
rs1556906	0.84[YRI][hapmap]
rs1578137	0.94[ASN][1000 genomes]
rs2027320	0.84[CHB][hapmap];0.85[CHD][hapmap]
rs2363554	1.00[CHB][hapmap];0.84[JPT][hapmap];0.84[ASN][1000 genomes]
rs2363556	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[YRI][hapmap];0.98[ASN][1000 genomes]
rs2363557	0.82[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];0.90[MEX][hapmap];0.91[YRI][hapmap];0.97[ASN][1000 genomes]
rs2363564	0.83[CEU][hapmap];0.90[CHB][hapmap];0.90[CHD][hapmap];0.81[JPT][hapmap]
rs2363565	0.83[CEU][hapmap];0.90[CHB][hapmap];0.95[CHD][hapmap];0.81[JPT][hapmap];0.84[ASN][1000 genomes]
rs2363566	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];0.91[YRI][hapmap];0.99[ASN][1000 genomes]
rs2363567	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];0.91[YRI][hapmap];0.99[ASN][1000 genomes]
rs2885812	0.88[CHB][hapmap];0.84[ASN][1000 genomes]
rs2885813	0.97[ASN][1000 genomes]
rs2885815	0.90[CHB][hapmap];0.81[JPT][hapmap];0.87[YRI][hapmap];0.82[ASN][1000 genomes]
rs3931584	0.85[ASN][1000 genomes]
rs3931585	0.87[ASN][1000 genomes]
rs4233309	0.80[CHD][hapmap]
rs4269745	0.97[ASN][1000 genomes]
rs4271184	0.83[CEU][hapmap];0.86[CHB][hapmap];0.88[CHD][hapmap]
rs4300189	0.81[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[YRI][hapmap];0.96[ASN][1000 genomes]
rs4303048	0.81[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.90[MEX][hapmap];0.91[YRI][hapmap];0.97[ASN][1000 genomes]
rs4375232	0.89[CHB][hapmap];0.81[MEX][hapmap]
rs4394614	0.82[ASN][1000 genomes]
rs4411107	0.83[CEU][hapmap];0.90[CHB][hapmap];0.92[CHD][hapmap];0.81[JPT][hapmap];0.83[ASN][1000 genomes]
rs4428856	0.83[ASN][1000 genomes]
rs4440833	0.82[ASN][1000 genomes]
rs4497183	0.86[CEU][hapmap];0.90[CHB][hapmap];0.92[CHD][hapmap];0.85[JPT][hapmap];0.84[ASN][1000 genomes]
rs4509552	0.84[ASN][1000 genomes]
rs4509553	0.90[CHB][hapmap];0.81[JPT][hapmap];0.85[ASN][1000 genomes]
rs4531266	0.94[CHB][hapmap];0.80[YRI][hapmap];0.83[ASN][1000 genomes]
rs4548407	0.85[ASN][1000 genomes]
rs4556330	0.82[CEU][hapmap];0.86[CHB][hapmap]
rs4571941	0.80[ASN][1000 genomes]
rs4573492	0.83[ASN][1000 genomes]
rs4607848	0.96[ASN][1000 genomes]
rs4634877	0.83[CEU][hapmap]
rs4655276	0.84[ASN][1000 genomes]
rs4655277	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4655278	0.99[ASN][1000 genomes]
rs4655391	0.83[CEU][hapmap];0.90[CHB][hapmap];0.81[JPT][hapmap];0.84[ASN][1000 genomes]
rs4655392	0.83[CEU][hapmap];0.95[CHB][hapmap];0.81[JPT][hapmap];0.84[ASN][1000 genomes]
rs4655393	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs4655394	0.87[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];0.81[GIH][hapmap];1.00[JPT][hapmap];0.83[TSI][hapmap];0.98[ASN][1000 genomes]
rs4655395	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[YRI][hapmap];0.99[ASN][1000 genomes]
rs61818320	0.96[ASN][1000 genomes]
rs61818328	0.97[ASN][1000 genomes]
rs6657313	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[YRI][hapmap];0.99[ASN][1000 genomes]
rs6662353	0.82[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];0.87[YRI][hapmap];0.96[ASN][1000 genomes]
rs6666828	0.90[CHB][hapmap];0.81[JPT][hapmap];0.82[ASN][1000 genomes]
rs6667764	0.83[CEU][hapmap];0.90[CHB][hapmap];0.81[JPT][hapmap]
rs6672978	0.83[CEU][hapmap];0.90[CHB][hapmap];0.95[CHD][hapmap];0.81[JPT][hapmap];0.85[ASN][1000 genomes]
rs6673739	1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs6675926	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[YRI][hapmap];0.97[ASN][1000 genomes]
rs6678758	0.97[ASN][1000 genomes]
rs6683041	0.83[ASN][1000 genomes]
rs6684084	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[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6688713	0.86[MEX][hapmap];0.83[YRI][hapmap]
rs6695343	0.91[ASN][1000 genomes]
rs6695967	0.80[CEU][hapmap];0.97[ASN][1000 genomes]
rs6696333	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[YRI][hapmap];0.96[ASN][1000 genomes]
rs6699161	0.87[CEU][hapmap];0.95[CHB][hapmap];0.92[CHD][hapmap];0.81[TSI][hapmap]
rs72735359	0.97[ASN][1000 genomes]
rs7417100	0.82[CEU][hapmap];0.90[CHB][hapmap];0.84[ASN][1000 genomes]
rs7513709	0.90[CHB][hapmap];0.81[JPT][hapmap];0.87[YRI][hapmap];0.83[ASN][1000 genomes]
rs7516689	0.91[MEX][hapmap];0.87[YRI][hapmap]
rs7540029	0.86[ASN][1000 genomes]
rs7541543	0.90[CHB][hapmap];0.92[CHD][hapmap];0.81[JPT][hapmap];0.91[MEX][hapmap];0.87[YRI][hapmap];0.83[ASN][1000 genomes]
rs7547572	0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs7547655	0.82[CEU][hapmap];0.86[CHB][hapmap];0.83[CHD][hapmap];0.91[MEX][hapmap];0.87[YRI][hapmap]
rs7549136	0.83[CEU][hapmap];0.90[CHB][hapmap];0.81[JPT][hapmap];0.83[ASN][1000 genomes]
rs7551415	0.82[ASN][1000 genomes]
rs9793382	0.89[ASN][1000 genomes]
rs9793690	0.92[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:1 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv873169	chr1:215264486-215453286	Weak transcription Active TSS Strong transcription Enhancers Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS	Chromatin interactive region miRNA target site	n/a	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs10779651	KCNH1	cis	cerebellum	SCAN

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:215340800-215355000	Weak transcription	Osteobl	bone
2	chr1:215342200-215351800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
3	chr1:215342800-215346000	Strong transcription	NHDF-Ad	bronchial
4	chr1:215342800-215346200	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
5	chr1:215343400-215346000	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
6	chr1:215343800-215349600	Weak transcription	Cortex derived primary cultured neurospheres	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links