Variant report

Variant	rs71558360
Chromosome Location	chr6:109577983-109577984
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:9)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:9 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr6:109573090..109575242-chr6:109576098..109578266,2	K562	blood:
2	chr6:109577168..109578931-chr6:109582878..109584392,2	K562	blood:
3	chr6:109556276..109560005-chr6:109575882..109579076,3	K562	blood:
4	chr6:109575810..109578673-chr6:109582353..109584012,2	MCF-7	breast:
5	chr6:109572844..109579013-chr6:109586013..109590515,6	MCF-7	breast:
6	chr6:109414510..109416142-chr6:109575916..109578118,2	MCF-7	breast:
7	chr6:109548764..109550966-chr6:109576791..109578669,2	K562	blood:
8	chr6:109574243..109576098-chr6:109577884..109580238,2	MCF-7	breast:
9	chr6:109572927..109577072-chr6:109577808..109581744,6	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000080546	Chromatin interaction
ENSG00000243587	Chromatin interaction

Extended variants
information (count: 23 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:22)

rs_ID	r²[population]
rs13190802	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13199388	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs13203020	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs13205489	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs13209450	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13219774	1.00[ASN][1000 genomes]
rs13220206	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1812230	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs28360564	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs34352435	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs34599673	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34684377	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs34739891	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs34780834	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs34854922	1.00[AFR][1000 genomes];0.89[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs34949378	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs36052053	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs36094641	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs71558361	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs71558363	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs71558364	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs932222	0.89[AMR][1000 genomes];0.92[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	nsv527657	chr6:109533385-109579675	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:26 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:109564000-109590400	Weak transcription	Psoas Muscle	Psoas
2	chr6:109572200-109578800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
3	chr6:109572800-109590400	Weak transcription	H9 Cell Line	embryonic stem cell
4	chr6:109572800-109595200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
5	chr6:109573200-109589800	Weak transcription	HUES6 Cell Line	embryonic stem cell
6	chr6:109573600-109590200	Weak transcription	Gastric	stomach
7	chr6:109574400-109579400	Weak transcription	Fetal Intestine Large	intestine
8	chr6:109574600-109583400	Weak transcription	Placenta	Placenta
9	chr6:109574800-109578800	Weak transcription	HepG2	liver
10	chr6:109575200-109582800	Weak transcription	Colon Smooth Muscle	Colon
11	chr6:109575800-109578200	Weak transcription	Fetal Muscle Trunk	muscle
12	chr6:109575800-109589200	Weak transcription	Pancreas	Pancrea
13	chr6:109576600-109578000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
14	chr6:109576600-109578200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
15	chr6:109576600-109579600	Enhancers	Rectal Mucosa Donor 31	rectum
16	chr6:109576800-109578000	Enhancers	Primary hematopoietic stem cells	blood
17	chr6:109576800-109578000	Enhancers	Stomach Mucosa	stomach
18	chr6:109577200-109578000	Enhancers	Fetal Lung	lung
19	chr6:109577200-109578800	Weak transcription	Sigmoid Colon	Sigmoid Colon
20	chr6:109577200-109583400	Weak transcription	Fetal Kidney	kidney
21	chr6:109577400-109578800	Weak transcription	Aorta	Aorta
22	chr6:109577600-109581800	Weak transcription	Adipose Nuclei	Adipose
23	chr6:109577600-109583000	Weak transcription	Fetal Muscle Leg	muscle
24	chr6:109577800-109578000	Enhancers	Liver	Liver
25	chr6:109577800-109581600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
26	chr6:109577800-109582200	Weak transcription	Fetal Stomach	stomach

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links