Variant report

Variant	rs58294323
Chromosome Location	chr6:143005198-143005199
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 18 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs10484588	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12530022	0.88[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs17071950	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1876843	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs263112	1.00[ASN][1000 genomes]
rs34541132	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35154143	1.00[ASN][1000 genomes]
rs35399203	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3900871	0.80[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs57942326	1.00[ASN][1000 genomes]
rs60086560	0.98[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs6570516	1.00[ASN][1000 genomes]
rs71564416	1.00[ASN][1000 genomes]
rs7746338	1.00[ASN][1000 genomes]
rs9496416	1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv949088	chr6:142561402-143128849	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
2	nsv830827	chr6:142840734-143015005	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Strong transcription Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
3	nsv830828	chr6:142970134-143116517	Enhancers Genic enhancers Weak transcription Strong transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:28 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:142998200-143008200	Weak transcription	Fetal Stomach	stomach
2	chr6:142999200-143006000	Weak transcription	Fetal Lung	lung
3	chr6:142999400-143007800	Enhancers	Fetal Brain Male	brain
4	chr6:143001800-143013600	Weak transcription	NH-A	brain
5	chr6:143002000-143006200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
6	chr6:143002400-143006000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
7	chr6:143002400-143006400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
8	chr6:143002400-143007000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
9	chr6:143002600-143005200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
10	chr6:143002600-143006000	Weak transcription	Primary T helper cells fromperipheralblood	blood
11	chr6:143002600-143013800	Weak transcription	Primary T cells fromperipheralblood	blood
12	chr6:143003600-143006800	Enhancers	Breast Myoepithelial Primary Cells	Breast
13	chr6:143004000-143006200	Enhancers	Fetal Brain Female	brain
14	chr6:143004000-143006400	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
15	chr6:143004000-143006400	Enhancers	NHEK	skin
16	chr6:143004000-143006800	Enhancers	HMEC	breast
17	chr6:143004200-143005200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
18	chr6:143004200-143006400	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
19	chr6:143004400-143007400	Enhancers	Primary T cells from cord blood	blood
20	chr6:143004800-143005200	Enhancers	Cortex derived primary cultured neurospheres	brain
21	chr6:143004800-143005400	Enhancers	Placenta Amnion	Placenta Amnion
22	chr6:143004800-143005800	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
23	chr6:143004800-143005800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
24	chr6:143004800-143006200	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
25	chr6:143004800-143006200	Enhancers	Placenta	Placenta
26	chr6:143005000-143005200	Enhancers	Esophagus	oesophagus
27	chr6:143005000-143005600	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
28	chr6:143005000-143008400	Enhancers	Primary T helper cells PMA-I stimulated	--

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links