Variant report

Variant	rs12238439
Chromosome Location	chr9:71097842-71097843
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 61 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:60)

rs_ID	r²[population]
rs10116868	0.82[CEU][hapmap];0.81[EUR][1000 genomes]
rs10123848	1.00[CEU][hapmap];0.81[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs1041290	0.81[ASN][1000 genomes]
rs10511957	0.82[CEU][hapmap]
rs10511958	0.85[CEU][hapmap];1.00[GIH][hapmap];0.88[TSI][hapmap]
rs10780955	0.82[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap];0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10780960	0.85[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs10780967	0.82[CEU][hapmap];0.91[GIH][hapmap];0.81[EUR][1000 genomes]
rs10781002	0.82[GIH][hapmap]
rs10868817	0.88[CHB][hapmap];1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs10868826	1.00[CHB][hapmap];0.81[ASN][1000 genomes]
rs10868851	0.91[GIH][hapmap]
rs10868852	0.91[GIH][hapmap]
rs10868877	0.91[GIH][hapmap]
rs10868879	1.00[CEU][hapmap]
rs10868922	0.82[CEU][hapmap];0.86[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs10868984	0.82[CEU][hapmap]
rs10869040	0.81[AMR][1000 genomes]
rs11142391	1.00[CHD][hapmap];0.91[GIH][hapmap];1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs11142449	1.00[CHD][hapmap];0.91[GIH][hapmap];1.00[JPT][hapmap]
rs11142461	0.88[CHB][hapmap];1.00[CHD][hapmap];0.91[GIH][hapmap];1.00[JPT][hapmap]
rs11142499	0.88[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs11142500	0.88[CHB][hapmap];1.00[CHD][hapmap];0.86[GIH][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs11142541	0.93[ASN][1000 genomes]
rs11142616	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11789244	1.00[CEU][hapmap];1.00[MEX][hapmap]
rs11790064	0.87[AMR][1000 genomes]
rs11792137	0.85[CEU][hapmap]
rs11794424	0.82[CEU][hapmap]
rs12343961	0.85[EUR][1000 genomes]
rs12343980	0.85[EUR][1000 genomes]
rs12350942	0.85[EUR][1000 genomes]
rs12353500	1.00[GIH][hapmap]
rs13439981	1.00[CHD][hapmap];0.91[GIH][hapmap];0.89[ASN][1000 genomes]
rs1353009	0.85[CEU][hapmap];1.00[GIH][hapmap];0.88[TSI][hapmap]
rs1353010	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs17053702	0.82[CEU][hapmap]
rs17054803	0.82[CEU][hapmap]
rs17059173	0.82[CEU][hapmap]
rs265076	1.00[MEX][hapmap]
rs265083	0.91[GIH][hapmap]
rs265087	0.85[CEU][hapmap];0.86[GIH][hapmap]
rs28510448	0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs35011246	0.81[EUR][1000 genomes]
rs4237244	0.83[AFR][1000 genomes];0.95[EUR][1000 genomes]
rs4237245	0.82[CEU][hapmap];0.81[EUR][1000 genomes]
rs4745041	0.85[CEU][hapmap];1.00[GIH][hapmap];0.88[TSI][hapmap]
rs59478866	0.83[ASN][1000 genomes]
rs6560144	0.85[CEU][hapmap]
rs7019238	0.88[CHB][hapmap];1.00[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs7021955	1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs7026163	0.81[EUR][1000 genomes]
rs7039149	0.82[CEU][hapmap];0.81[EUR][1000 genomes]
rs7039686	0.85[CEU][hapmap]
rs7042123	1.00[CEU][hapmap]
rs7042601	0.81[EUR][1000 genomes]
rs7855134	0.85[CEU][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.88[TSI][hapmap];0.93[ASN][1000 genomes]
rs7861495	1.00[MEX][hapmap]
rs7866604	0.82[CEU][hapmap];0.85[EUR][1000 genomes]
rs7875408	1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[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	nsv427847	chr9:70318730-71153527	Weak transcription Bivalent/Poised TSS Active TSS Enhancers Flanking Active TSS Strong transcription Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	32 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:25 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:71070800-71100800	Weak transcription	Skeletal Muscle Male	skeletal muscle
2	chr9:71075200-71098800	Weak transcription	Fetal Muscle Trunk	muscle
3	chr9:71076400-71098800	Weak transcription	Skeletal Muscle Female	skeletal muscle
4	chr9:71077600-71098800	Weak transcription	Fetal Muscle Leg	muscle
5	chr9:71077800-71103400	Weak transcription	Right Ventricle	heart
6	chr9:71078200-71103400	Weak transcription	HSMMtube	muscle
7	chr9:71081000-71098800	Weak transcription	Fetal Kidney	kidney
8	chr9:71087400-71107200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
9	chr9:71092000-71101400	Weak transcription	Fetal Heart	heart
10	chr9:71092200-71115400	Weak transcription	Psoas Muscle	Psoas
11	chr9:71092400-71100800	Weak transcription	Ovary	ovary
12	chr9:71093600-71101600	Weak transcription	Fetal Intestine Large	intestine
13	chr9:71093800-71098600	Weak transcription	Aorta	Aorta
14	chr9:71095000-71098000	Enhancers	Rectal Smooth Muscle	rectum
15	chr9:71095400-71098200	Weak transcription	Left Ventricle	heart
16	chr9:71096000-71098000	Enhancers	Colon Smooth Muscle	Colon
17	chr9:71096600-71101600	Weak transcription	NHLF	lung
18	chr9:71096600-71108600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
19	chr9:71097400-71098200	Weak transcription	Fetal Lung	lung
20	chr9:71097600-71098400	Enhancers	Right Atrium	heart
21	chr9:71097600-71098800	Weak transcription	Duodenum Smooth Muscle	Duodenum
22	chr9:71097600-71099600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
23	chr9:71097800-71098000	Weak transcription	Fetal Stomach	stomach
24	chr9:71097800-71098800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
25	chr9:71097800-71100000	Strong transcription	Stomach Smooth Muscle	stomach

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links