Variant report

Variant	rs537349889
Chromosome Location	chr15:58553061-58553062
allele	G/T
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	TBP	chr15:58552974-58553499	Hela-S3	cervix:	n/a	n/a
2	MYC	chr15:58552587-58553823	Hela-S3	cervix:	n/a	n/a
3	CHD2	chr15:58552757-58553501	Hela-S3	cervix:	n/a	n/a
4	FOS	chr15:58552468-58553585	MCF10A-Er-Src	breast:	n/a	chr15:58553397-58553408 chr15:58553396-58553403 chr15:58552677-58552686 chr15:58553396-58553404
5	STAT3	chr15:58552280-58553670	MCF10A-Er-Src	breast:	n/a	chr15:58552678-58552686 chr15:58552621-58552632 chr15:58552623-58552632 chr15:58553376-58553384 chr15:58552683-58552694 chr15:58552656-58552667 chr15:58552622-58552631
6	TFAP2A	chr15:58552622-58553827	Hela-S3	cervix:	n/a	n/a
7	EP300	chr15:58552867-58553528	Hela-S3	cervix:	n/a	n/a
8	MAZ	chr15:58552965-58553528	Hela-S3	cervix:	n/a	n/a
9	STAT1	chr15:58552315-58554192	Hela-S3	cervix:	n/a	chr15:58552678-58552686 chr15:58552623-58552632 chr15:58553376-58553384 chr15:58552621-58552632 chr15:58552622-58552631
10	MYC	chr15:58553010-58553691	MCF10A-Er-Src	breast:	n/a	n/a
11	RAD21	chr15:58552957-58553566	Hela-S3	cervix:	n/a	n/a
12	TFAP2C	chr15:58552527-58553997	Hela-S3	cervix:	n/a	n/a
13	FOS	chr15:58553028-58553628	MCF10A-Er-Src	breast:	n/a	chr15:58553397-58553408 chr15:58553396-58553403 chr15:58553396-58553404
14	USF2	chr15:58552523-58553548	Hela-S3	cervix:	n/a	n/a
15	ZNF143	chr15:58552879-58553456	Hela-S3	cervix:	n/a	chr15:58552950-58552965
16	SMC3	chr15:58552593-58553579	Hela-S3	cervix:	n/a	n/a
17	POLR2A	chr15:58550245-58553629	MCF10A-Er-Src	breast:	n/a	n/a
18	STAT3	chr15:58552377-58553634	MCF10A-Er-Src	breast:	n/a	chr15:58552678-58552686 chr15:58552621-58552632 chr15:58552623-58552632 chr15:58553376-58553384 chr15:58552683-58552694 chr15:58552656-58552667 chr15:58552622-58552631
19	MAX	chr15:58552514-58553596	Hela-S3	cervix:	n/a	n/a
20	MAX	chr15:58552628-58553534	Hela-S3	cervix:	n/a	n/a
21	GTF2F1	chr15:58552595-58553404	Hela-S3	cervix:	n/a	n/a
22	TCF7L2	chr15:58552510-58553807	Hela-S3	cervix:	n/a	n/a
23	BRCA1	chr15:58552861-58553491	Hela-S3	cervix:	n/a	n/a
24	FOS	chr15:58552458-58553675	MCF10A-Er-Src	breast:	n/a	chr15:58553397-58553408 chr15:58553396-58553403 chr15:58552677-58552686 chr15:58553396-58553404
25	STAT3	chr15:58551801-58553564	MCF10A-Er-Src	breast:	n/a	chr15:58552678-58552686 chr15:58552621-58552632 chr15:58552623-58552632 chr15:58553376-58553384 chr15:58551844-58551852 chr15:58552683-58552694 chr15:58552656-58552667 chr15:58552622-58552631
26	FOS	chr15:58552458-58553644	MCF10A-Er-Src	breast:	n/a	chr15:58553397-58553408 chr15:58553396-58553403 chr15:58552677-58552686 chr15:58553396-58553404
27	FOS	chr15:58552956-58553585	Hela-S3	cervix:	n/a	chr15:58553397-58553408 chr15:58553396-58553403 chr15:58553396-58553404
28	CEBPB	chr15:58552578-58553640	Hela-S3	cervix:	n/a	n/a
29	RCOR1	chr15:58553044-58553659	Hela-S3	cervix:	n/a	n/a
30	POLR2A	chr15:58552424-58553485	Hela-S3	cervix:	n/a	n/a
31	STAT3	chr15:58553059-58553487	MCF10A-Er-Src	breast:	n/a	chr15:58553376-58553384
32	MYC	chr15:58553000-58553629	MCF10A-Er-Src	breast:	n/a	n/a
33	MXI1	chr15:58552943-58553456	Hela-S3	cervix:	n/a	n/a
34	POLR2A	chr15:58552361-58554026	MCF10A-Er-Src	breast:	n/a	n/a

Variant related genes	Relation type
ALDH1A2	TF binding region

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	nsv1047246	chr15:58375607-58707158	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
2	nsv833024	chr15:58447459-58621963	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Strong transcription Bivalent Enhancer Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
3	nsv1050473	chr15:58479888-58562270	Active TSS Enhancers Flanking Active TSS Weak transcription Strong transcription Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
4	nsv904264	chr15:58505122-58588510	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Bivalent Enhancer Strong transcription Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
5	nsv904265	chr15:58517528-58588510	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
6	nsv1051058	chr15:58519922-59092530	Strong transcription Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
7	nsv542401	chr15:58519922-59092530	Strong transcription Weak transcription Active TSS Flanking Active TSS Enhancers Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
8	nsv529717	chr15:58519923-58756814	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Active TSS Strong transcription Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
9	nsv1042201	chr15:58520746-58780710	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Active TSS Bivalent/Poised TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
10	nsv569598	chr15:58552606-58852463	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer Genic enhancers Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:45 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:58547800-58557000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr15:58549600-58558600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
3	chr15:58550200-58554000	Enhancers	HMEC	breast
4	chr15:58550400-58561800	Weak transcription	Liver	Liver
5	chr15:58551000-58553400	Enhancers	ES-WA7 Cell Line	embryonic stem cell
6	chr15:58551000-58553400	Enhancers	H1 Cell Line	embryonic stem cell
7	chr15:58551000-58553600	Enhancers	HUES64 Cell Line	embryonic stem cell
8	chr15:58551200-58553600	Enhancers	ES-I3 Cell Line	embryonic stem cell
9	chr15:58551600-58554000	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
10	chr15:58551800-58553200	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
11	chr15:58551800-58553200	Enhancers	K562	blood
12	chr15:58551800-58553400	Enhancers	HUES6 Cell Line	embryonic stem cell
13	chr15:58551800-58554400	Enhancers	Placenta	Placenta
14	chr15:58552000-58553200	Enhancers	iPS-15b Cell Line	embryonic stem cell
15	chr15:58552000-58553400	Enhancers	H9 Cell Line	embryonic stem cell
16	chr15:58552200-58553400	Flanking Active TSS	Skeletal Muscle Female	skeletal muscle
17	chr15:58552200-58553600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
18	chr15:58552200-58553600	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
19	chr15:58552400-58553200	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
20	chr15:58552400-58553400	Enhancers	NHLF	lung
21	chr15:58552400-58553800	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
22	chr15:58552400-58553800	Flanking Active TSS	Skeletal Muscle Male	skeletal muscle
23	chr15:58552400-58553800	Flanking Active TSS	Hela-S3	cervix
24	chr15:58552400-58554000	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
25	chr15:58552400-58554200	Enhancers	Breast Myoepithelial Primary Cells	Breast
26	chr15:58552400-58554400	Enhancers	Psoas Muscle	Psoas
27	chr15:58552600-58553200	Enhancers	Brain Anterior Caudate	brain
28	chr15:58552600-58553400	Enhancers	Primary T cells from cord blood	blood
29	chr15:58552600-58553400	Enhancers	Fetal Muscle Leg	muscle
30	chr15:58552600-58553600	Enhancers	Placenta Amnion	Placenta Amnion
31	chr15:58552600-58553800	Enhancers	Fetal Heart	heart
32	chr15:58552600-58554000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
33	chr15:58552800-58553200	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
34	chr15:58552800-58553400	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
35	chr15:58552800-58553400	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
36	chr15:58552800-58553400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
37	chr15:58552800-58553400	Enhancers	Rectal Mucosa Donor 31	rectum
38	chr15:58552800-58553400	Enhancers	Spleen	Spleen
39	chr15:58552800-58553800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
40	chr15:58552800-58553800	Enhancers	Esophagus	oesophagus
41	chr15:58552800-58554200	Enhancers	Left Ventricle	heart
42	chr15:58553000-58553200	Flanking Active TSS	NHEK	skin
43	chr15:58553000-58553400	Enhancers	HUES48 Cell Line	embryonic stem cell
44	chr15:58553000-58553800	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
45	chr15:58553000-58553800	Enhancers	NHDF-Ad	bronchial

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links