Variant report

Variant	rs62404583
Chromosome Location	chr6:35136990-35136991
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:35134997..35137568-chr6:35225872..35228081,2	MCF-7	breast:
2	chr6:35127079..35138793-chr6:35145525..35157743,32	MCF-7	breast:
3	chr6:35136063..35139125-chr6:35139498..35141793,3	K562	blood:

Variant related genes	Relation type
ENSG00000065029	Chromatin interaction

Extended variants
information (count: 27 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs10456078	0.90[EUR][1000 genomes]
rs10807147	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10807148	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10947538	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12191117	0.83[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12191184	0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12191808	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12192566	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12527639	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12663320	0.87[AFR][1000 genomes];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1408256	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1535814	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17539666	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1886242	0.90[EUR][1000 genomes]
rs1886243	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2181795	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3800402	0.87[AFR][1000 genomes];0.96[AMR][1000 genomes];0.86[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4711406	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs62404566	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6457805	0.90[EUR][1000 genomes]
rs6915627	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6923951	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9296143	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9348968	0.89[EUR][1000 genomes]
rs9357195	0.89[EUR][1000 genomes]
rs9368849	0.90[EUR][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	esv3340708	chr6:35135274-35139572	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Bivalent Enhancer	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:33 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:35128600-35137400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr6:35128800-35137400	Weak transcription	Brain Angular Gyrus	brain
3	chr6:35130600-35141400	Weak transcription	Brain Substantia Nigra	brain
4	chr6:35131000-35137400	Weak transcription	Lung	lung
5	chr6:35134000-35137400	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
6	chr6:35134200-35137400	Weak transcription	Duodenum Mucosa	Duodenum
7	chr6:35134200-35137400	Weak transcription	NH-A	brain
8	chr6:35134400-35137200	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr6:35134400-35137400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
10	chr6:35134400-35137400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
11	chr6:35134400-35137400	Weak transcription	Osteobl	bone
12	chr6:35134400-35137600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
13	chr6:35134400-35140400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
14	chr6:35134600-35137400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
15	chr6:35134600-35137400	Weak transcription	NHDF-Ad	bronchial
16	chr6:35134600-35137800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
17	chr6:35134800-35137400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
18	chr6:35134800-35137400	Weak transcription	Muscle Satellite Cultured Cells	--
19	chr6:35135000-35137400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
20	chr6:35135000-35137400	Weak transcription	Gastric	stomach
21	chr6:35135000-35148800	Weak transcription	Esophagus	oesophagus
22	chr6:35135600-35138600	Weak transcription	Stomach Mucosa	stomach
23	chr6:35135800-35137000	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
24	chr6:35136000-35137000	Enhancers	Fetal Heart	heart
25	chr6:35136000-35137000	Enhancers	Fetal Kidney	kidney
26	chr6:35136000-35137000	Enhancers	Fetal Lung	lung
27	chr6:35136200-35137000	Enhancers	Left Ventricle	heart
28	chr6:35136400-35137000	Enhancers	Fetal Thymus	thymus
29	chr6:35136600-35137000	Enhancers	Right Atrium	heart
30	chr6:35136600-35137600	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
31	chr6:35136600-35139400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
32	chr6:35136600-35139600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
33	chr6:35136800-35137200	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