Variant report

Variant	rs5997866
Chromosome Location	chr22:31471538-31471539
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr22:31363626..31365762-chr22:31470443..31472227,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000133422	Chromatin interaction

Extended variants
information (count: 36 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10427701	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10854603	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11705177	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11705250	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11705313	0.82[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11705319	0.87[EUR][1000 genomes]
rs11705369	0.85[EUR][1000 genomes]
rs11705396	0.82[AMR][1000 genomes];0.99[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12157450	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12165471	0.97[ASN][1000 genomes]
rs12170984	0.95[ASN][1000 genomes]
rs12330058	0.98[AFR][1000 genomes];0.97[ASN][1000 genomes]
rs13057068	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2006301	0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs35060453	0.95[AFR][1000 genomes];0.97[ASN][1000 genomes]
rs5994365	0.83[AMR][1000 genomes];0.80[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs5994368	0.87[AFR][1000 genomes];0.97[ASN][1000 genomes]
rs5994370	0.98[AFR][1000 genomes];0.97[ASN][1000 genomes]
rs5997863	0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs5997864	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs5997871	0.87[ASN][1000 genomes]
rs5997872	0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7284593	0.95[ASN][1000 genomes]
rs7291565	0.85[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs7292038	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7292982	0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs736901	0.90[EUR][1000 genomes]
rs9619166	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9619167	0.95[ASN][1000 genomes]
rs9621175	0.95[AFR][1000 genomes];0.97[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv9896	chr22:31369204-31513933	Strong transcription Enhancers Genic enhancers Flanking Active TSS Active TSS Weak transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	35 gene(s)	inside rSNPs	diseases
2	nsv524366	chr22:31440703-31480069	Flanking Active TSS Enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Weak transcription Active TSS Strong transcription Bivalent Enhancer Genic enhancers ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
3	nsv829173	chr22:31450043-31543956	Enhancers Weak transcription Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	30 gene(s)	inside rSNPs	diseases
4	esv20214	chr22:31461316-31474644	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
5	esv1000178	chr22:31461678-31474550	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
6	nsv914975	chr22:31466083-31514477	Active TSS Flanking Active TSS Strong transcription Enhancers Weak transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:20 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr22:31465400-31471600	Weak transcription	Fetal Intestine Large	intestine
2	chr22:31465800-31475000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
3	chr22:31466200-31471800	Weak transcription	Osteobl	bone
4	chr22:31466200-31472000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
5	chr22:31466400-31471800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
6	chr22:31466400-31471800	Weak transcription	NHEK	skin
7	chr22:31467800-31471800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
8	chr22:31468000-31471800	Weak transcription	Right Atrium	heart
9	chr22:31469800-31472600	Enhancers	Fetal Adrenal Gland	Adrenal Gland
10	chr22:31469800-31476400	Weak transcription	Primary neutrophils fromperipheralblood	blood
11	chr22:31469800-31476400	Weak transcription	HUVEC	blood vessel
12	chr22:31470200-31475000	Weak transcription	Spleen	Spleen
13	chr22:31470600-31471800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
14	chr22:31470800-31472600	Enhancers	Fetal Muscle Leg	muscle
15	chr22:31471200-31472400	Enhancers	Placenta	Placenta
16	chr22:31471200-31473000	Enhancers	Fetal Stomach	stomach
17	chr22:31471200-31473000	Enhancers	Stomach Smooth Muscle	stomach
18	chr22:31471400-31472400	Enhancers	Fetal Muscle Trunk	muscle
19	chr22:31471400-31472600	Enhancers	Adipose Nuclei	Adipose
20	chr22:31471400-31476600	Weak transcription	Left Ventricle	heart

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links