Variant report

Variant	rs6797879
Chromosome Location	chr3:119533773-119533774
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:119531732..119533815-chr3:119534255..119536418,2	MCF-7	breast:
2	chr3:119532575..119535119-chr3:119538231..119540719,2	K562	blood:
3	chr3:119532575..119536291-chr3:119538231..119540719,3	K562	blood:
4	chr3:119533302..119535583-chr3:119535890..119538879,2	MCF-7	breast:
5	chr3:119531331..119533784-chr3:119534969..119537956,2	K562	blood:

Extended variants
information (count: 14 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:12)

rs_ID	r²[population]
rs1464601	0.94[EUR][1000 genomes]
rs1626696	0.85[AFR][1000 genomes]
rs1719895	0.86[AFR][1000 genomes]
rs1732165	0.83[AFR][1000 genomes]
rs2037547	0.83[ASN][1000 genomes]
rs2461816	0.94[EUR][1000 genomes]
rs2472680	0.94[EUR][1000 genomes]
rs4605584	0.82[AFR][1000 genomes]
rs4688043	0.86[AFR][1000 genomes]
rs6438550	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6807868	0.84[AFR][1000 genomes]
rs9784393	0.89[AFR][1000 genomes];0.80[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1011178	chr3:119437192-119589116	Weak transcription Active TSS Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
2	nsv536703	chr3:119437192-119589116	Weak transcription Flanking Active TSS Enhancers Strong transcription ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:21 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:119516800-119534600	Weak transcription	HepG2	liver
2	chr3:119528200-119533800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
3	chr3:119529400-119535800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
4	chr3:119529400-119537000	Strong transcription	Fetal Intestine Large	intestine
5	chr3:119529400-119537800	Strong transcription	Fetal Intestine Small	intestine
6	chr3:119529400-119544000	Weak transcription	Right Atrium	heart
7	chr3:119529400-119566600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
8	chr3:119529600-119536000	Weak transcription	Sigmoid Colon	Sigmoid Colon
9	chr3:119529600-119543400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
10	chr3:119529600-119582000	Weak transcription	Spleen	Spleen
11	chr3:119529800-119543600	Weak transcription	GM12878-XiMat	blood
12	chr3:119530200-119542800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
13	chr3:119531400-119534600	Weak transcription	Rectal Mucosa Donor 29	rectum
14	chr3:119531600-119536200	Weak transcription	Fetal Heart	heart
15	chr3:119532000-119543800	Weak transcription	Rectal Mucosa Donor 31	rectum
16	chr3:119532400-119535800	Weak transcription	Left Ventricle	heart
17	chr3:119532400-119551000	Weak transcription	Right Ventricle	heart
18	chr3:119533200-119534400	Genic enhancers	Liver	Liver
19	chr3:119533600-119534000	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
20	chr3:119533600-119534400	Active TSS	H1 Derived Mesenchymal Stem Cells	ES cell derived
21	chr3:119533600-119537200	Strong transcription	Duodenum Mucosa	Duodenum

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links