Variant report

Variant	rs2290345
Chromosome Location	chr15:74163430-74163431
allele	A/C/G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:17)
CpG islands
(count:0)
Chromatin interactive
region (count:1)
LncRNA
region (count:5)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:17 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	GATA1	chr15:74163152-74164040	K562	blood:	n/a	n/a
2	NR3C1	chr15:74163325-74163738	A549	lung:	n/a	n/a
3	NR3C1	chr15:74163254-74163636	A549	lung:	n/a	n/a
4	ATF1	chr15:74163340-74163794	K562	blood:	n/a	n/a
5	JUND	chr15:74163430-74163761	K562	blood:	n/a	n/a
6	NR3C1	chr15:74163424-74163600	A549	lung:	n/a	n/a
7	GATA2	chr15:74163163-74163930	HUVEC	blood vessel:	n/a	chr15:74163598-74163612
8	GATA1	chr15:74163327-74163817	PBDE	blood:	n/a	n/a
9	NR3C1	chr15:74163380-74163698	A549	lung:	n/a	n/a
10	NR3C1	chr15:74163258-74163719	A549	lung:	n/a	n/a
11	TEAD4	chr15:74163375-74163874	K562	blood:	n/a	n/a
12	BHLHE40	chr15:74163430-74163817	K562	blood:	n/a	n/a
13	POLR2A	chr15:74163333-74163525	HUVEC	blood vessel:	n/a	n/a
14	FOS	chr15:74163353-74163748	HUVEC	blood vessel:	n/a	n/a
15	RCOR1	chr15:74163407-74163791	K562	blood:	n/a	n/a
16	MYC	chr15:74163398-74163770	K562	blood:	n/a	n/a
17	POLR2A	chr15:74163370-74163452	MCF-7	breast:	n/a	n/a

No data

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

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:74138773..74141661-chr15:74162026..74163857,2	MCF-7	breast:

(count:5 , 50 per page) page: 1

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-STOML1-2	chr15:74163291-74163541	ENSG00000260624.1
2	lnc-STOML1-2	chr15:74163292-74163457	ENSG00000260624.1
3	lnc-STOML1-2	chr15:74163278-74163457	NONHSAT047166
4	lnc-STOML1-2	chr15:74163278-74163457	NONHSAT047167
5	lnc-STOML1-2	chr15:74163278-74163457	NONHSAT047168

No data

Variant related genes	Relation type
TBC1D21	TF binding region

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

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

rs_ID	r²[population]
rs12438872	0.88[ASN][1000 genomes]
rs12438959	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs12440507	0.83[ASN][1000 genomes]
rs12442246	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12591598	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs12915956	0.88[ASN][1000 genomes]
rs12916069	0.81[ASN][1000 genomes]
rs2278864	0.88[ASN][1000 genomes]
rs34911689	0.83[ASN][1000 genomes]
rs35051165	0.83[ASN][1000 genomes]
rs4243035	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4577028	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs4625681	0.83[ASN][1000 genomes]
rs4886725	0.96[ASN][1000 genomes]
rs7178188	0.85[EUR][1000 genomes]
rs744618	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7496005	0.96[ASN][1000 genomes]
rs896590	0.88[ASN][1000 genomes]
rs921541	0.80[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs9806513	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.86[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	nsv1043335	chr15:74078689-74241186	Weak transcription Flanking Active TSS Strong transcription Enhancers Bivalent Enhancer Genic enhancers Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
2	esv3487225	chr15:74163341-74164459	Bivalent Enhancer Flanking Active TSS Enhancers Weak transcription Flanking Bivalent TSS/Enh	TF binding region Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
3	esv3487226	chr15:74163341-74164459	Flanking Active TSS Enhancers Bivalent Enhancer Weak transcription Flanking Bivalent TSS/Enh	TF binding region Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:34 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:74154800-74167000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr15:74158600-74164600	Enhancers	Right Atrium	heart
3	chr15:74161600-74163800	Enhancers	Left Ventricle	heart
4	chr15:74161600-74164600	Enhancers	Right Ventricle	heart
5	chr15:74162600-74164600	Enhancers	Fetal Intestine Large	intestine
6	chr15:74162600-74164800	Enhancers	Fetal Intestine Small	intestine
7	chr15:74163000-74164600	Enhancers	Stomach Mucosa	stomach
8	chr15:74163000-74164600	Enhancers	Thymus	Thymus
9	chr15:74163200-74163600	Bivalent Enhancer	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
10	chr15:74163200-74163600	Bivalent Enhancer	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
11	chr15:74163200-74163600	Flanking Active TSS	Duodenum Mucosa	Duodenum
12	chr15:74163200-74163600	Bivalent Enhancer	Fetal Adrenal Gland	Adrenal Gland
13	chr15:74163200-74163600	Enhancers	Lung	lung
14	chr15:74163200-74163600	Enhancers	Spleen	Spleen
15	chr15:74163200-74163600	Bivalent Enhancer	NH-A	brain
16	chr15:74163200-74163800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
17	chr15:74163200-74163800	Bivalent Enhancer	Foreskin Fibroblast Primary Cells skin01	Skin
18	chr15:74163200-74163800	Bivalent Enhancer	Foreskin Keratinocyte Primary Cells skin02	Skin
19	chr15:74163200-74163800	Enhancers	Fetal Thymus	thymus
20	chr15:74163200-74163800	Enhancers	Pancreas	Pancrea
21	chr15:74163200-74163800	Enhancers	HUVEC	blood vessel
22	chr15:74163200-74164000	Enhancers	K562	blood
23	chr15:74163200-74164400	Enhancers	Primary hematopoietic stem cells short term culture	blood
24	chr15:74163200-74164400	Enhancers	Fetal Heart	heart
25	chr15:74163200-74164800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
26	chr15:74163400-74163600	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
27	chr15:74163400-74163600	Bivalent Enhancer	Foreskin Fibroblast Primary Cells skin02	Skin
28	chr15:74163400-74163600	Flanking Bivalent TSS/Enh	Hela-S3	cervix
29	chr15:74163400-74163800	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
30	chr15:74163400-74163800	Bivalent Enhancer	Foreskin Keratinocyte Primary Cells skin03	Skin
31	chr15:74163400-74163800	Bivalent Enhancer	Adipose Nuclei	Adipose
32	chr15:74163400-74163800	Enhancers	Ovary	ovary
33	chr15:74163400-74163800	Bivalent Enhancer	NHEK	skin
34	chr15:74163400-74164400	Enhancers	Primary hematopoietic stem cells	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links