Variant report

Variant	rs9390282
Chromosome Location	chr6:145469996-145469997
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:145430494..145433220-chr6:145468971..145470857,2	MCF-7	breast:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-UTRN-2	chr6:145469832-145470278	XLOC_005493
2	lnc-UTRN-2	chr6:145469831-145470278	NONHSAT115389

Extended variants
information (count: 16 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs12175026	0.82[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs2328636	0.82[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs56361215	0.82[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs7740679	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7757490	0.82[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs9376901	0.82[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs9386102	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9386103	0.82[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs9390281	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9390283	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9399534	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1016747	chr6:144917411-145599874	Flanking Active TSS Enhancers ZNF genes & repeats Strong transcription Weak transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
2	nsv1022965	chr6:145374851-145635385	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
3	nsv830834	chr6:145392073-145556294	Enhancers Flanking Active TSS Active TSS Weak transcription ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
4	nsv886743	chr6:145433861-145528057	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Active TSS	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
5	nsv886744	chr6:145452401-145528057	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Bivalent/Poised TSS Active TSS	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:24 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:145468200-145470200	Enhancers	Pancreatic Islets	Pancreatic Islet
2	chr6:145468200-145471600	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
3	chr6:145468600-145470000	Enhancers	Muscle Satellite Cultured Cells	--
4	chr6:145468600-145470000	Enhancers	NH-A	brain
5	chr6:145468600-145470200	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
6	chr6:145468600-145470400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
7	chr6:145468600-145470400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
8	chr6:145468600-145470400	Enhancers	Fetal Adrenal Gland	Adrenal Gland
9	chr6:145468600-145470400	Enhancers	HMEC	breast
10	chr6:145468600-145470400	Enhancers	NHDF-Ad	bronchial
11	chr6:145468800-145470000	Enhancers	Fetal Heart	heart
12	chr6:145468800-145470200	Enhancers	Primary monocytes fromperipheralblood	blood
13	chr6:145468800-145470200	Enhancers	Hela-S3	cervix
14	chr6:145468800-145470400	Enhancers	Fetal Intestine Large	intestine
15	chr6:145468800-145470400	Enhancers	Fetal Intestine Small	intestine
16	chr6:145469200-145470000	Enhancers	A549	lung
17	chr6:145469200-145470200	Enhancers	Skeletal Muscle Male	skeletal muscle
18	chr6:145469400-145470400	Enhancers	ES-I3 Cell Line	embryonic stem cell
19	chr6:145469600-145470000	Enhancers	Monocytes-CD14+_RO01746	blood
20	chr6:145469600-145470400	Enhancers	Stomach Smooth Muscle	stomach
21	chr6:145469800-145470000	Enhancers	HUES64 Cell Line	embryonic stem cell
22	chr6:145469800-145470000	Enhancers	Osteobl	bone
23	chr6:145469800-145471000	Weak transcription	H9 Cell Line	embryonic stem cell
24	chr6:145469800-145475600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links