Variant report

Variant	rs7643513
Chromosome Location	chr3:160479592-160479593
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:160471736..160473920-chr3:160477705..160480037,3	K562	blood:
2	chr3:160471123..160476793-chr3:160477705..160482988,8	K562	blood:

Variant related genes	Relation type
ENSG00000260572	Chromatin interaction
ENSG00000163590	Chromatin interaction

Extended variants
information (count: 39 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:38)

rs_ID	r²[population]
rs12486979	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12637922	0.85[AFR][1000 genomes];0.82[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs13073659	0.85[AFR][1000 genomes];0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs1378655	0.88[AFR][1000 genomes];0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1378656	0.88[AFR][1000 genomes];0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1378660	0.85[AFR][1000 genomes];0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs1403048	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1455869	0.83[EUR][1000 genomes]
rs1598495	0.82[EUR][1000 genomes]
rs1829716	0.83[EUR][1000 genomes]
rs1851378	0.80[EUR][1000 genomes]
rs2049214	0.81[EUR][1000 genomes]
rs2049215	0.81[EUR][1000 genomes]
rs2886905	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2886909	0.85[AFR][1000 genomes];0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs6441331	0.84[AFR][1000 genomes];0.97[AMR][1000 genomes]
rs6781371	0.91[AFR][1000 genomes];0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6791128	0.87[AMR][1000 genomes]
rs6794047	0.80[EUR][1000 genomes]
rs6805905	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7618832	0.82[EUR][1000 genomes]
rs7633816	0.84[AFR][1000 genomes];0.97[AMR][1000 genomes]
rs7634342	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7640231	0.91[AMR][1000 genomes];0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7640348	0.94[AFR][1000 genomes];0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7642371	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7649322	0.91[AMR][1000 genomes]
rs7652749	0.91[AMR][1000 genomes]
rs897494	0.85[AFR][1000 genomes];0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs959960	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs972909	0.81[EUR][1000 genomes]
rs9814394	0.82[EUR][1000 genomes]
rs9815499	0.82[EUR][1000 genomes]
rs9820796	0.91[AMR][1000 genomes]
rs9835634	0.91[AMR][1000 genomes]
rs9874183	0.91[AMR][1000 genomes]
rs9883862	0.85[AFR][1000 genomes];0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs994966	0.91[AMR][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	nsv532666	chr3:159777847-160703202	Enhancers Weak transcription ZNF genes & repeats Strong transcription Bivalent/Poised TSS Active TSS Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	271 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:17 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:160475800-160497200	Weak transcription	Left Ventricle	heart
2	chr3:160476000-160480800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
3	chr3:160476000-160496400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
4	chr3:160477200-160479600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr3:160477400-160489600	Weak transcription	Fetal Heart	heart
6	chr3:160477600-160483000	Weak transcription	Skeletal Muscle Male	skeletal muscle
7	chr3:160477600-160489800	Weak transcription	Brain Anterior Caudate	brain
8	chr3:160477600-160497000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
9	chr3:160477600-160498200	Weak transcription	Stomach Mucosa	stomach
10	chr3:160477800-160485600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
11	chr3:160477800-160488200	Weak transcription	Pancreatic Islets	Pancreatic Islet
12	chr3:160477800-160497800	Weak transcription	Brain Angular Gyrus	brain
13	chr3:160478400-160481400	Weak transcription	Fetal Brain Male	brain
14	chr3:160478400-160482800	Weak transcription	Stomach Smooth Muscle	stomach
15	chr3:160479200-160479600	Enhancers	Psoas Muscle	Psoas
16	chr3:160479200-160481600	Enhancers	Skeletal Muscle Female	skeletal muscle
17	chr3:160479200-160483000	Weak transcription	Colon Smooth Muscle	Colon

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links