Variant report

Variant	rs12907310
Chromosome Location	chr15:31492357-31492358
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	chr15:31449940..31450544-chr15:31492306..31492836,2	MCF-7	breast:

Extended variants
information (count: 32 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:21)

rs_ID	r²[population]
rs1153430	0.85[AMR][1000 genomes];0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12902225	0.81[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1672410	0.89[ASN][1000 genomes]
rs1672412	0.87[EUR][1000 genomes]
rs1863279	0.87[EUR][1000 genomes]
rs1865871	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2575897	0.80[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs278353	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs278357	0.87[EUR][1000 genomes]
rs28658479	0.82[EUR][1000 genomes]
rs4779835	0.94[ASN][1000 genomes]
rs4779837	0.85[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4779838	0.84[AFR][1000 genomes];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4779839	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6493508	0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6493527	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs66990837	0.80[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7166174	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs8024398	0.86[ASN][1000 genomes]
rs8035043	0.81[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs999876	0.80[EUR][1000 genomes];0.94[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:11 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv531138	chr15:30653877-31609679	Active TSS Weak transcription Enhancers Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	96 gene(s)	inside rSNPs	diseases
2	nsv903831	chr15:30986051-31723279	Flanking Active TSS Enhancers Active TSS Weak transcription Bivalent/Poised TSS Strong transcription Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	84 gene(s)	inside rSNPs	diseases
3	nsv1054147	chr15:31014507-31972706	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	87 gene(s)	inside rSNPs	diseases
4	nsv542306	chr15:31014507-31972706	Weak transcription Bivalent Enhancer Enhancers Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Active TSS Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	87 gene(s)	inside rSNPs	diseases
5	nsv1036018	chr15:31140415-31544888	Enhancers Flanking Active TSS Active TSS Genic enhancers Strong transcription Weak transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	58 gene(s)	inside rSNPs	diseases
6	nsv1052722	chr15:31261834-31609680	Flanking Active TSS Weak transcription Enhancers Active TSS Strong transcription Bivalent Enhancer Genic enhancers 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 miRNA miRNA target site	52 gene(s)	inside rSNPs	diseases
7	nsv542315	chr15:31261834-31609680	Enhancers Flanking Active TSS Active TSS Bivalent Enhancer Weak transcription Genic enhancers ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	52 gene(s)	inside rSNPs	diseases
8	nsv932896	chr15:31292475-31730445	Enhancers Flanking Active TSS Weak transcription Active TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	59 gene(s)	inside rSNPs	diseases
9	nsv903836	chr15:31330280-31512652	Enhancers Active TSS Weak transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Active TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	29 gene(s)	inside rSNPs	diseases
10	nsv903838	chr15:31452911-31672128	Strong transcription Flanking Active TSS Enhancers Genic enhancers Weak transcription Bivalent/Poised TSS Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	33 gene(s)	inside rSNPs	diseases
11	esv1815415	chr15:31483843-31697213	Genic enhancers Flanking Active TSS Active TSS Enhancers Weak transcription Strong transcription Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	42 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	chr15:31487000-31493200	Enhancers	Primary neutrophils fromperipheralblood	blood
2	chr15:31489600-31495400	Enhancers	Fetal Thymus	thymus
3	chr15:31489800-31495400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
4	chr15:31489800-31497000	Weak transcription	Lung	lung
5	chr15:31490000-31492800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
6	chr15:31490400-31492600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
7	chr15:31490400-31492800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
8	chr15:31490400-31493000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
9	chr15:31490600-31494600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
10	chr15:31491600-31493400	Enhancers	Primary monocytes fromperipheralblood	blood
11	chr15:31491800-31493400	Enhancers	Spleen	Spleen
12	chr15:31491800-31495400	Enhancers	Thymus	Thymus
13	chr15:31492000-31492400	Enhancers	HepG2	liver
14	chr15:31492000-31492800	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
15	chr15:31492000-31493000	Enhancers	Fetal Heart	heart
16	chr15:31492000-31493400	Enhancers	Fetal Adrenal Gland	Adrenal Gland
17	chr15:31492000-31493400	Enhancers	Monocytes-CD14+_RO01746	blood
18	chr15:31492000-31493800	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
19	chr15:31492000-31496000	Enhancers	GM12878-XiMat	blood
20	chr15:31492200-31492400	Enhancers	HUES6 Cell Line	embryonic stem cell
21	chr15:31492200-31492600	Enhancers	Esophagus	oesophagus
22	chr15:31492200-31492800	Enhancers	Primary mononuclear cells fromperipheralblood	Blood
23	chr15:31492200-31493400	Enhancers	Placenta	Placenta

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links