Variant report

Variant	rs12515891
Chromosome Location	chr5:74317380-74317381
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	chr5:74315848..74318238-chr5:74328353..74330042,2	MCF-7	breast:

Extended variants
information (count: 21 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs10462510	0.96[ASN][1000 genomes]
rs11955513	0.89[ASN][1000 genomes]
rs12651778	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs4492095	0.91[ASN][1000 genomes]
rs4704166	0.86[ASN][1000 genomes]
rs58243356	0.85[ASN][1000 genomes]
rs58323964	0.96[ASN][1000 genomes]
rs59992473	0.83[ASN][1000 genomes]
rs60661930	0.86[ASN][1000 genomes]
rs61342638	0.95[ASN][1000 genomes]
rs61616736	0.87[ASN][1000 genomes]
rs62369162	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs62369187	0.93[ASN][1000 genomes]
rs62369188	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs72768311	0.84[ASN][1000 genomes]
rs7706858	0.91[ASN][1000 genomes]
rs7734055	0.92[ASN][1000 genomes]
rs7736471	0.96[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv830352	chr5:74189495-74337944	Enhancers Weak transcription Flanking Active TSS Genic enhancers Strong transcription ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
2	nsv1018865	chr5:74246293-74494552	Weak transcription Active TSS Flanking Active TSS Enhancers Bivalent Enhancer Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
3	nsv969994	chr5:74314591-74330479	Weak transcription Enhancers Flanking Active TSS Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:23 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:74313600-74318200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
2	chr5:74313600-74341800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
3	chr5:74314600-74324800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
4	chr5:74315200-74320400	Enhancers	Stomach Mucosa	stomach
5	chr5:74315200-74332800	Weak transcription	NHDF-Ad	bronchial
6	chr5:74315600-74318000	Enhancers	HepG2	liver
7	chr5:74315800-74317400	Enhancers	Pancreas	Pancrea
8	chr5:74316000-74317400	Enhancers	Gastric	stomach
9	chr5:74316000-74317400	Enhancers	Sigmoid Colon	Sigmoid Colon
10	chr5:74316200-74319400	Weak transcription	Rectal Mucosa Donor 29	rectum
11	chr5:74316200-74319600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
12	chr5:74316200-74324200	Weak transcription	Duodenum Mucosa	Duodenum
13	chr5:74316400-74317600	Enhancers	Ovary	ovary
14	chr5:74316400-74318800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
15	chr5:74316400-74328000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
16	chr5:74316400-74328200	Weak transcription	Placenta	Placenta
17	chr5:74316400-74330200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
18	chr5:74317000-74317400	Enhancers	Fetal Intestine Small	intestine
19	chr5:74317000-74319200	Weak transcription	Primary T cells from cord blood	blood
20	chr5:74317200-74317400	Enhancers	Primary T cells fromperipheralblood	blood
21	chr5:74317200-74317400	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
22	chr5:74317200-74318000	Enhancers	Primary T helper cells PMA-I stimulated	--
23	chr5:74317200-74331400	Weak transcription	Fetal Intestine Large	intestine

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links