Variant report

Variant	rs2909545
Chromosome Location	chr15:57620868-57620869
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	chr15:57620780-57620930	A549	lung:	n/a	n/a
2	TAL1	chr15:57620804-57621052	K562	blood:	n/a	n/a
3	CTCF	chr15:57620846-57620923	MCF-7	breast:	n/a	n/a
4	MYC	chr15:57620329-57621031	K562	blood:	n/a	n/a
5	MAX	chr15:57620496-57620982	K562	blood:	n/a	n/a
6	RAD21	chr15:57620680-57621088	SK-N-SH_RA	brain:	n/a	n/a
7	SMC3	chr15:57620787-57620963	K562	blood:	n/a	n/a
8	TEAD4	chr15:57620172-57621131	K562	blood:	n/a	n/a
9	PBX3	chr15:57619883-57621128	SK-N-SH	brain:	n/a	chr15:57620240-57620249 chr15:57620836-57620845
10	POLR2A	chr15:57619998-57620966	IMR90	lung:	n/a	n/a
11	TBP	chr15:57620388-57620892	K562	blood:	n/a	n/a
12	CTCF	chr15:57620780-57620930	HPAF	blood vessel:	n/a	n/a
13	CTCF	chr15:57620860-57621010	K562	blood:	n/a	n/a
14	CTCF	chr15:57620835-57620900	LNCaP	prostate:	n/a	n/a
15	MAZ	chr15:57620392-57621295	K562	blood:	n/a	n/a
16	MAFF	chr15:57620639-57621018	K562	blood:	n/a	n/a
17	TCF12	chr15:57619876-57621249	SK-N-SH	brain:	n/a	n/a
18	CTCF	chr15:57620865-57620919	Gliobla	brain:	n/a	n/a
19	CTCF	chr15:57620740-57621090	H1-hESC	embryonic stem cell:	n/a	n/a
20	ATF1	chr15:57620393-57621062	K562	blood:	n/a	n/a
21	RAD21	chr15:57620688-57621173	H1-hESC	embryonic stem cell:	n/a	n/a
22	BHLHE40	chr15:57620376-57621177	K562	blood:	n/a	n/a
23	CTCF	chr15:57620809-57620952	H1-hESC	embryonic stem cell:	n/a	n/a
24	EP300	chr15:57619965-57621212	SK-N-SH	brain:	n/a	n/a
25	CTCF	chr15:57620799-57621008	K562	blood:	n/a	n/a
26	TCF12	chr15:57619953-57620938	SK-N-SH	brain:	n/a	n/a
27	GATA3	chr15:57619854-57621201	SK-N-SH	brain:	n/a	chr15:57619860-57619870 chr15:57620366-57620375 chr15:57619862-57619872 chr15:57619856-57619877 chr15:57619863-57619870
28	JUND	chr15:57620000-57621106	SK-N-SH	brain:	n/a	chr15:57620238-57620247
29	TBL1XR1	chr15:57620695-57621034	K562	blood:	n/a	n/a
30	CTCF	chr15:57620840-57620990	HCM	heart:	n/a	n/a
31	JUND	chr15:57619952-57620878	SK-N-SH	brain:	n/a	chr15:57620238-57620247
32	POLR2A	chr15:57620040-57620894	U87	brain:	n/a	n/a
33	RAD21	chr15:57620669-57621035	H1-hESC	embryonic stem cell:	n/a	n/a
34	CTCF	chr15:57620708-57621118	K562	blood:	n/a	n/a
35	EP300	chr15:57619889-57620914	SK-N-SH	brain:	n/a	n/a
36	HCFC1	chr15:57620625-57621149	K562	blood:	n/a	n/a
37	RCOR1	chr15:57619488-57621205	K562	blood:	n/a	n/a
38	GATA3	chr15:57619138-57621233	SK-N-SH	brain:	n/a	chr15:57619860-57619870 chr15:57620366-57620375 chr15:57619862-57619872 chr15:57619856-57619877 chr15:57619863-57619870
39	ARID3A	chr15:57620248-57621103	K562	blood:	n/a	n/a
40	CTCF	chr15:57620740-57621010	BE2_C	brain:	n/a	n/a
41	ZMIZ1	chr15:57620794-57620921	K562	blood:	n/a	n/a
42	EP300	chr15:57619886-57621011	SK-N-SH	brain:	n/a	n/a
43	RAD21	chr15:57620771-57621024	SK-N-SH_RA	brain:	n/a	n/a
44	JUND	chr15:57620280-57621123	K562	blood:	n/a	n/a
45	NFIC	chr15:57619887-57620936	SK-N-SH	brain:	n/a	n/a
46	CUX1	chr15:57619998-57621043	K562	blood:	n/a	n/a
47	RAD21	chr15:57620739-57621106	H1-hESC	embryonic stem cell:	n/a	n/a
48	MAFK	chr15:57620111-57621009	K562	blood:	n/a	chr15:57620232-57620247 chr15:57620369-57620378 chr15:57620368-57620378 chr15:57620233-57620244
49	CTCF	chr15:57620800-57620950	WERI-Rb-1	eye:	n/a	n/a
50	FOSL2	chr15:57619985-57620966	SK-N-SH	brain:	n/a	chr15:57620238-57620247

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:57600919..57606103-chr15:57620754..57624822,5	K562	blood:

Variant related genes	Relation type
ENSG00000260870	TF binding region

Extended variants
information (count: 5 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:2)

rs_ID	r²[population]
rs2244635	0.82[CHB][hapmap];0.94[JPT][hapmap]
rs72736077	0.83[AFR][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	nsv1045611	chr15:57350965-58070807	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	49 gene(s)	inside rSNPs	diseases
2	nsv833021	chr15:57495413-57751366	Enhancers Weak transcription Flanking Active TSS Strong transcription Genic enhancers Active TSS Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	38 gene(s)	inside rSNPs	diseases
3	nsv1054547	chr15:57600488-57977659	Active TSS Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:32 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:57613000-57626800	Weak transcription	Right Atrium	heart
2	chr15:57613000-57635400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
3	chr15:57614600-57621800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
4	chr15:57616200-57622200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
5	chr15:57616200-57624600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
6	chr15:57616200-57624800	Weak transcription	Lung	lung
7	chr15:57616800-57621400	Enhancers	Fetal Intestine Large	intestine
8	chr15:57617200-57622400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr15:57617200-57622400	Weak transcription	Hela-S3	cervix
10	chr15:57617600-57624800	Enhancers	Fetal Muscle Leg	muscle
11	chr15:57617600-57625800	Weak transcription	A549	lung
12	chr15:57617800-57622200	Weak transcription	Fetal Thymus	thymus
13	chr15:57618600-57632000	Weak transcription	Spleen	Spleen
14	chr15:57619000-57623400	Enhancers	HSMM	muscle
15	chr15:57619200-57621200	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
16	chr15:57619200-57621200	Enhancers	NHLF	lung
17	chr15:57619400-57621000	Enhancers	Fetal Lung	lung
18	chr15:57619400-57621000	Enhancers	Skeletal Muscle Female	skeletal muscle
19	chr15:57619400-57621000	Flanking Active TSS	HSMMtube	muscle
20	chr15:57619400-57621000	Enhancers	NHDF-Ad	bronchial
21	chr15:57620000-57621000	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
22	chr15:57620000-57621200	Bivalent Enhancer	Foreskin Fibroblast Primary Cells skin01	Skin
23	chr15:57620600-57621000	Bivalent Enhancer	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
24	chr15:57620600-57621000	Flanking Active TSS	Muscle Satellite Cultured Cells	--
25	chr15:57620600-57621200	Enhancers	Psoas Muscle	Psoas
26	chr15:57620600-57626200	Weak transcription	Fetal Intestine Small	intestine
27	chr15:57620800-57621200	Enhancers	K562	blood
28	chr15:57620800-57621400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
29	chr15:57620800-57621400	Enhancers	NH-A	brain
30	chr15:57620800-57621400	Enhancers	Osteobl	bone
31	chr15:57620800-57623000	Enhancers	Fetal Muscle Trunk	muscle
32	chr15:57620800-57625800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links