Variant report

Variant	rs2964196
Chromosome Location	chr5:57536885-57536886
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	chr5:57534680..57537180-chr5:57754656..57757715,3	MCF-7	breast:
2	chr5:57535441..57538302-chr5:57538781..57541164,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000145632	Chromatin interaction

Extended variants
information (count: 31 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs1562242	0.88[AMR][1000 genomes]
rs1862540	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1972647	0.89[AMR][1000 genomes]
rs2409006	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2910578	0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2910579	0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2910581	0.94[AMR][1000 genomes];0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2910586	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2910606	0.81[AFR][1000 genomes];0.88[AMR][1000 genomes];0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2962007	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2962025	0.86[AFR][1000 genomes];0.95[AMR][1000 genomes];0.90[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2964190	0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2964192	0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2964194	0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2964197	0.94[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs2964201	0.94[AMR][1000 genomes];0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs37489	0.82[AMR][1000 genomes]
rs37491	0.82[AMR][1000 genomes]
rs37513	0.83[AMR][1000 genomes]
rs37514	0.83[AMR][1000 genomes]
rs37515	0.84[AMR][1000 genomes]
rs37517	0.84[AMR][1000 genomes]
rs37518	0.84[AMR][1000 genomes]
rs37525	0.81[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs37529	0.87[AMR][1000 genomes]
rs37530	0.87[AMR][1000 genomes]
rs40531	0.84[AMR][1000 genomes]
rs7715909	0.81[AFR][1000 genomes];0.89[AMR][1000 genomes];0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs972060	0.86[AFR][1000 genomes];0.95[AMR][1000 genomes];0.90[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs972061	0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];0.99[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	nsv432746	chr5:57502859-57547419	Enhancers Weak transcription Genic enhancers Flanking Active TSS Active TSS	Chromatin interactive region	1 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	chr5:57526200-57544000	Weak transcription	Aorta	Aorta
2	chr5:57534400-57538000	Enhancers	Hela-S3	cervix
3	chr5:57534800-57555200	Weak transcription	Left Ventricle	heart
4	chr5:57535000-57537200	Enhancers	HUVEC	blood vessel
5	chr5:57535400-57537800	Enhancers	Muscle Satellite Cultured Cells	--
6	chr5:57535400-57540600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
7	chr5:57535400-57540800	Weak transcription	Primary neutrophils fromperipheralblood	blood
8	chr5:57535600-57537600	Enhancers	HMEC	breast
9	chr5:57535600-57538000	Enhancers	NH-A	brain
10	chr5:57535800-57537200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
11	chr5:57535800-57537400	Enhancers	NHDF-Ad	bronchial
12	chr5:57535800-57537600	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
13	chr5:57535800-57538000	Enhancers	NHEK	skin
14	chr5:57536000-57537000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
15	chr5:57536000-57537200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
16	chr5:57536000-57537400	Enhancers	Osteobl	bone
17	chr5:57536000-57540400	Weak transcription	Psoas Muscle	Psoas
18	chr5:57536200-57537200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
19	chr5:57536200-57537200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
20	chr5:57536200-57537200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
21	chr5:57536200-57537200	Weak transcription	NHLF	lung
22	chr5:57536200-57541400	Weak transcription	Right Atrium	heart
23	chr5:57536200-57542200	Weak transcription	Skeletal Muscle Female	skeletal muscle
24	chr5:57536400-57537200	Weak transcription	HSMM	muscle
25	chr5:57536400-57540800	Weak transcription	Monocytes-CD14+_RO01746	blood
26	chr5:57536600-57544200	Weak transcription	Skeletal Muscle Male	skeletal muscle
27	chr5:57536800-57537800	Enhancers	A549	lung
28	chr5:57536800-57542200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links