Variant report

Variant	rs62324904
Chromosome Location	chr4:142042112-142042113
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr4:142040362..142042112-chr4:142052827..142054421,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000170153	Chromatin interaction

Extended variants
information (count: 20 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs10028355	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1027815	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10519586	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs1507178	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs187139	0.98[EUR][1000 genomes]
rs189568	0.98[EUR][1000 genomes]
rs2033612	0.87[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs354939	0.95[EUR][1000 genomes]
rs354941	0.96[EUR][1000 genomes]
rs4123363	0.81[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs4956515	1.00[EUR][1000 genomes]
rs4956516	1.00[EUR][1000 genomes]
rs4956517	1.00[EUR][1000 genomes]
rs4956518	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62324905	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6835953	0.88[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs6853785	0.82[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs72724492	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7669929	0.87[AMR][1000 genomes];1.00[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	nsv880167	chr4:141616979-142092124	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Genic enhancers Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 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	chr4:142028600-142042400	Weak transcription	Stomach Smooth Muscle	stomach
2	chr4:142038600-142052600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
3	chr4:142038800-142044400	Enhancers	Fetal Heart	heart
4	chr4:142039000-142049200	Weak transcription	Fetal Brain Female	brain
5	chr4:142039400-142043200	Weak transcription	Fetal Stomach	stomach
6	chr4:142039400-142051800	Weak transcription	Aorta	Aorta
7	chr4:142039800-142045000	Weak transcription	Fetal Muscle Trunk	muscle
8	chr4:142039800-142045200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
9	chr4:142039800-142045200	Weak transcription	Fetal Muscle Leg	muscle
10	chr4:142040400-142042800	Enhancers	Colon Smooth Muscle	Colon
11	chr4:142040600-142042400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
12	chr4:142040800-142043600	Enhancers	Breast Myoepithelial Primary Cells	Breast
13	chr4:142041000-142047600	Weak transcription	Spleen	Spleen
14	chr4:142041000-142048600	Weak transcription	Adipose Nuclei	Adipose
15	chr4:142041000-142052200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
16	chr4:142041800-142042200	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
17	chr4:142041800-142042200	Enhancers	Psoas Muscle	Psoas
18	chr4:142041800-142043600	Enhancers	Right Atrium	heart
19	chr4:142041800-142043800	Enhancers	Left Ventricle	heart
20	chr4:142042000-142042200	Enhancers	Rectal Smooth Muscle	rectum
21	chr4:142042000-142042600	Enhancers	Pancreatic Islets	Pancreatic Islet
22	chr4:142042000-142042600	Enhancers	Ovary	ovary
23	chr4:142042000-142042800	Enhancers	Skeletal Muscle Female	skeletal muscle
24	chr4:142042000-142043600	Enhancers	Right Ventricle	heart

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