Variant report

Variant	rs561583170
Chromosome Location	chr15:53002570-53002571
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	FOS	chr15:53002529-53002871	MCF10A-Er-Src	breast:	n/a	n/a
2	SPI1	chr15:53002265-53002884	GM12891	blood:	n/a	chr15:53002396-53002403
3	SPI1	chr15:53002104-53002937	GM12878	blood:	n/a	chr15:53002396-53002403
4	POLR2A	chr15:53002375-53002575	MCF10A-Er-Src	breast:	n/a	n/a
5	SPI1	chr15:53002285-53002703	GM12891	blood:	n/a	chr15:53002396-53002403
6	CTCF	chr15:53002420-53002570	GM12873	blood:	n/a	n/a
7	KAP1	chr15:53001093-53002790	HEK293	kidney:	n/a	n/a
8	POLR2A	chr15:53000972-53002735	Raji	blood:	n/a	n/a
9	TCF3	chr15:53002216-53002623	GM12878	blood:	n/a	n/a
10	SPI1	chr15:53002281-53002637	GM12878	blood:	n/a	chr15:53002396-53002403
11	USF1	chr15:53002570-53002722	HepG2	liver:	n/a	chr15:53002665-53002676
12	FOS	chr15:53002566-53002886	MCF10A-Er-Src	breast:	n/a	n/a
13	WRNIP1	chr15:53002398-53002714	GM12878	blood:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr15:52967401..52973659-chr15:53000765..53004676,11	MCF-7	breast:
2	chr15:52968259..52973250-chr15:52997483..53005703,18	MCF-7	breast:
3	chr15:53002359..53006038-chr15:53007315..53009805,4	K562	blood:

Variant related genes	Relation type
FAM214A	TF binding region
ENSG00000047346	Chromatin interaction

Extended variants
information (count: 10 )
Associated
traits (count: 0)

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv471245	chr15:52607262-53187165	Weak transcription Strong transcription Active TSS Enhancers Flanking Active TSS Bivalent/Poised TSS 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 target site	52 gene(s)	inside rSNPs	diseases
2	nsv1041421	chr15:52661342-53148286	Flanking Active TSS Weak transcription Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription Bivalent/Poised TSS Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	51 gene(s)	inside rSNPs	diseases
3	nsv833006	chr15:52825954-53040462	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	37 gene(s)	inside rSNPs	diseases
4	nsv1049534	chr15:52903314-53022926	Enhancers Genic enhancers Strong transcription Weak transcription Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
5	nsv1049055	chr15:52990467-53030603	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
6	nsv1035212	chr15:52995637-53030603	Enhancers Flanking Active TSS Weak transcription Active TSS Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
7	nsv1049144	chr15:52995637-53039179	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
8	nsv1049619	chr15:52995637-53041887	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
9	nsv515534	chr15:52998262-53025692	Enhancers Flanking Active TSS Bivalent/Poised TSS Weak transcription Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
10	nsv569425	chr15:53001538-53038488	Active TSS Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS	TF binding region Chromatin interactive region	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:30 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:53001200-53002600	Weak transcription	Sigmoid Colon	Sigmoid Colon
2	chr15:53001200-53002800	Flanking Active TSS	HepG2	liver
3	chr15:53001600-53002800	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
4	chr15:53001600-53003200	Enhancers	NHEK	skin
5	chr15:53001800-53002600	Enhancers	Adipose Nuclei	Adipose
6	chr15:53001800-53002600	Flanking Active TSS	GM12878-XiMat	blood
7	chr15:53001800-53002800	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
8	chr15:53001800-53002800	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr15:53001800-53002800	Enhancers	Placenta	Placenta
10	chr15:53001800-53002800	Enhancers	Pancreas	Pancrea
11	chr15:53002000-53002600	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
12	chr15:53002000-53002600	Enhancers	Fetal Intestine Small	intestine
13	chr15:53002000-53002800	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
14	chr15:53002000-53002800	Enhancers	Fetal Intestine Large	intestine
15	chr15:53002000-53003200	Enhancers	Primary B cells from cord blood	blood
16	chr15:53002200-53002600	Enhancers	H1 Cell Line	embryonic stem cell
17	chr15:53002200-53002600	Enhancers	H9 Cell Line	embryonic stem cell
18	chr15:53002200-53002600	Enhancers	iPS-18 Cell Line	embryonic stem cell
19	chr15:53002200-53002600	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
20	chr15:53002200-53002800	Enhancers	iPS-15b Cell Line	embryonic stem cell
21	chr15:53002200-53002800	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
22	chr15:53002200-53003000	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
23	chr15:53002200-53003800	Enhancers	Primary B cells from peripheral blood	blood
24	chr15:53002200-53005400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
25	chr15:53002400-53002600	Enhancers	ES-I3 Cell Line	embryonic stem cell
26	chr15:53002400-53002600	Enhancers	HUES6 Cell Line	embryonic stem cell
27	chr15:53002400-53002600	Enhancers	HUES64 Cell Line	embryonic stem cell
28	chr15:53002400-53002600	Enhancers	iPS-20b Cell Line	embryonic stem cell
29	chr15:53002400-53002800	Enhancers	Liver	Liver
30	chr15:53002400-53007800	Weak transcription	Gastric	stomach

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links