Variant report

Variant	rs73932086
Chromosome Location	chr19:42255776-42255777
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	CTCF	chr19:42255195-42260167	A549	lung:	n/a	chr19:42257276-42257294 chr19:42257278-42257299 chr19:42257279-42257292 chr19:42257279-42257288 chr19:42257281-42257291 chr19:42257279-42257292 chr19:42257277-42257293

No.	Distal block	Cell Line	Cell type
1	chr19:42253269..42255875-chr19:42299289..42301420,2	MCF-7	breast:
2	chr19:42254797..42261680-chr19:42284783..42292674,12	MCF-7	breast:
3	chr19:42255651..42257648-chr19:42288124..42290756,2	MCF-7	breast:

Variant related genes	Relation type
CEACAM6	TF binding region
ENSG00000170956	Chromatin interaction
ENSG00000268833	Chromatin interaction

Extended variants
information (count: 26 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs10153472	1.00[EUR][1000 genomes]
rs10414811	1.00[EUR][1000 genomes]
rs11083638	1.00[EUR][1000 genomes]
rs11881220	1.00[EUR][1000 genomes]
rs11882356	1.00[EUR][1000 genomes]
rs55753848	1.00[EUR][1000 genomes]
rs56173718	1.00[EUR][1000 genomes]
rs58374389	1.00[EUR][1000 genomes]
rs73932022	1.00[EUR][1000 genomes]
rs73932024	1.00[EUR][1000 genomes]
rs73932026	1.00[EUR][1000 genomes]
rs73932031	1.00[EUR][1000 genomes]
rs73932034	1.00[EUR][1000 genomes]
rs73932035	1.00[EUR][1000 genomes]
rs73932037	1.00[EUR][1000 genomes]
rs73932045	0.87[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs73932061	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73932082	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9653098	1.00[EUR][1000 genomes]
rs9989667	1.00[EUR][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	nsv522854	chr19:42120283-42931004	Weak transcription Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Active TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	104 gene(s)	inside rSNPs	diseases
2	esv3425986	chr19:42212540-42259719	Transcr. at gene 5' and 3' Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent Enhancer Strong transcription Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
3	nsv579615	chr19:42221434-42310388	Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Active TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
4	esv3430577	chr19:42247653-42285973	Bivalent Enhancer Enhancers Flanking Active TSS Weak transcription Genic enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
5	nsv911774	chr19:42250325-42288821	Enhancers Bivalent Enhancer Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Strong transcription Genic enhancers Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
6	esv3384883	chr19:42253458-42288853	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Strong transcription Active TSS Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:11 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:42251400-42256200	Weak transcription	Esophagus	oesophagus
2	chr19:42254400-42255800	Enhancers	Rectal Mucosa Donor 29	rectum
3	chr19:42254400-42256800	Enhancers	Pancreas	Pancrea
4	chr19:42254400-42260200	Enhancers	Primary neutrophils fromperipheralblood	blood
5	chr19:42254600-42258000	Enhancers	Stomach Mucosa	stomach
6	chr19:42254800-42259200	Weak transcription	Fetal Intestine Small	intestine
7	chr19:42255200-42259000	Weak transcription	Colonic Mucosa	Colon
8	chr19:42255400-42256400	Weak transcription	Rectal Mucosa Donor 31	rectum
9	chr19:42255400-42257600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
10	chr19:42255400-42259200	Weak transcription	Monocytes-CD14+_RO01746	blood
11	chr19:42255600-42256000	Weak transcription	Colon Smooth Muscle	Colon

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links