Variant report

Variant	rs9322078
Chromosome Location	chr6:147171500-147171501
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-SHPRH-2	chr6:147171295-147171732	ENSG00000233452

Extended variants
information (count: 36 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:35)

rs_ID	r²[population]
rs1052449	0.84[CHB][hapmap];1.00[JPT][hapmap]
rs12665141	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1324679	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1324681	0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2025505	0.82[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2025506	0.82[AFR][1000 genomes];0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2068333	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2328760	0.84[CHB][hapmap];1.00[JPT][hapmap];0.87[TSI][hapmap]
rs2328771	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2328772	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3861404	1.00[JPT][hapmap];0.87[TSI][hapmap]
rs4535573	1.00[JPT][hapmap];0.85[TSI][hapmap]
rs4896891	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4896893	0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6915214	0.88[CEU][hapmap]
rs6927327	0.87[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6927572	0.96[CEU][hapmap];1.00[CHB][hapmap];0.89[JPT][hapmap];0.86[YRI][hapmap];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs724774	0.84[CEU][hapmap]
rs9373511	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9373512	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9377030	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9377031	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9386170	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9386171	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9386172	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9386173	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9390422	0.83[ASW][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap]
rs9390431	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9399585	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9399586	0.96[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9403819	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9403820	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9403821	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9403822	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9485129	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[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	nsv830838	chr6:147090745-147274669	Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer Transcr. at gene 5' and 3' Active TSS Bivalent/Poised TSS ZNF genes & repeats Strong transcription Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:147163200-147178800	Weak transcription	Right Atrium	heart
2	chr6:147163400-147178800	Weak transcription	Pancreatic Islets	Pancreatic Islet
3	chr6:147166600-147172600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
4	chr6:147170200-147172200	Enhancers	Placenta Amnion	Placenta Amnion
5	chr6:147170400-147172000	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
6	chr6:147171000-147171800	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr6:147171000-147172000	Enhancers	ES-I3 Cell Line	embryonic stem cell
8	chr6:147171000-147172200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
9	chr6:147171200-147172000	Enhancers	iPS-15b Cell Line	embryonic stem cell
10	chr6:147171200-147172000	Enhancers	iPS-18 Cell Line	embryonic stem cell
11	chr6:147171200-147172200	Enhancers	Osteobl	bone
12	chr6:147171200-147173800	Enhancers	Muscle Satellite Cultured Cells	--
13	chr6:147171400-147171800	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
14	chr6:147171400-147171800	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
15	chr6:147171400-147171800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
16	chr6:147171400-147172000	Enhancers	H9 Cell Line	embryonic stem cell
17	chr6:147171400-147172000	Enhancers	HUES6 Cell Line	embryonic stem cell
18	chr6:147171400-147172000	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
19	chr6:147171400-147172000	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
20	chr6:147171400-147172000	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
21	chr6:147171400-147172000	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
22	chr6:147171400-147172000	Enhancers	K562	blood
23	chr6:147171400-147172200	Enhancers	HUES64 Cell Line	embryonic stem cell
24	chr6:147171400-147172200	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
25	chr6:147171400-147172200	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
26	chr6:147171400-147172400	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
27	chr6:147171400-147173400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
28	chr6:147171400-147173600	Enhancers	NH-A	brain
29	chr6:147171400-147173600	Enhancers	NHDF-Ad	bronchial

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links