Variant report

Variant	rs549845320
Chromosome Location	chr15:54129777-54129778
allele	A/C
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	SIN3AK20	chr15:54129135-54130064	MCF-7	breast:	n/a	n/a
2	CTCF	chr15:54129740-54129890	MCF-7	breast:	n/a	n/a
3	NR2F2	chr15:54129343-54129904	MCF-7	breast:	n/a	n/a
4	GATA3	chr15:54129258-54129964	MCF-7	breast:	n/a	n/a
5	GATA3	chr15:54129395-54129803	T-47D	breast:	n/a	n/a
6	SIN3AK20	chr15:54129195-54129970	MCF-7	breast:	n/a	n/a
7	CTCF	chr15:54129660-54129810	HRE	kidney:	n/a	n/a
8	GATA3	chr15:54129185-54129866	MCF-7	breast:	n/a	n/a
9	REST	chr15:54129455-54129791	PFSK-1	brain:	n/a	n/a
10	TCF12	chr15:54129116-54130028	MCF-7	breast:	n/a	n/a
11	REST	chr15:54129350-54129922	MCF-7	breast:	n/a	n/a
12	HDAC2	chr15:54129421-54129870	MCF-7	breast:	n/a	n/a
13	REST	chr15:54129436-54129960	MCF-7	breast:	n/a	n/a
14	TCF7L2	chr15:54129409-54129960	MCF-7	breast:	n/a	n/a
15	TCF12	chr15:54129205-54129833	A549	lung:	n/a	n/a
16	TEAD4	chr15:54129486-54129841	A549	lung:	n/a	n/a
17	REST	chr15:54129358-54129929	A549	lung:	n/a	n/a
18	HDAC2	chr15:54129476-54129838	MCF-7	breast:	n/a	n/a
19	TCF12	chr15:54129299-54129991	MCF-7	breast:	n/a	n/a
20	GATA3	chr15:54129168-54130015	MCF-7	breast:	n/a	n/a

Variant related genes	Relation type
ENSG00000259301	TF binding region

Extended variants
information (count: 15 )
Associated
traits (count: 0)

Variant overlapped rSNPs/rCNVs (count:15 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv904223	chr15:53665247-54340070	Flanking Active TSS Enhancers Weak transcription Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Strong transcription Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
2	nsv904224	chr15:53668018-54210677	Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer Bivalent/Poised TSS Strong transcription Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
3	nsv1052235	chr15:53677524-54618723	Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Active TSS Weak transcription Strong transcription ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
4	nsv542388	chr15:53677524-54618723	Enhancers Active TSS Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
5	nsv9267	chr15:53821005-54132612	Weak transcription Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
6	nsv904226	chr15:53883244-54458310	Bivalent/Poised TSS Bivalent Enhancer Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
7	nsv457144	chr15:53890362-54455757	Enhancers Bivalent/Poised TSS Flanking Active TSS Weak transcription Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
8	nsv569440	chr15:53890362-54455757	ZNF genes & repeats Bivalent Enhancer Enhancers Weak transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
9	nsv569441	chr15:53890362-54456754	Enhancers Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh Weak transcription Active TSS Bivalent Enhancer ZNF genes & repeats Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
10	nsv457145	chr15:53890393-54456754	Active TSS Enhancers Bivalent/Poised TSS Weak transcription Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
11	nsv569442	chr15:53890393-54456754	Bivalent/Poised TSS Active TSS Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
12	nsv949528	chr15:54041154-54281981	Weak transcription Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Active TSS Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
13	nsv457147	chr15:54080810-54156980	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
14	nsv569452	chr15:54080810-54156980	Enhancers Weak transcription Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
15	nsv977870	chr15:54129750-54137194	Weak transcription Enhancers Flanking Active TSS	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:22 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:54122400-54129800	Enhancers	Fetal Intestine Small	intestine
2	chr15:54123400-54130000	Enhancers	Fetal Intestine Large	intestine
3	chr15:54125600-54130200	Enhancers	HepG2	liver
4	chr15:54126000-54136200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
5	chr15:54127800-54135800	Weak transcription	Sigmoid Colon	Sigmoid Colon
6	chr15:54128200-54135400	Weak transcription	Gastric	stomach
7	chr15:54128400-54129800	Enhancers	ES-I3 Cell Line	embryonic stem cell
8	chr15:54128400-54129800	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
9	chr15:54128400-54130000	Enhancers	Rectal Mucosa Donor 31	rectum
10	chr15:54128800-54129800	Enhancers	NH-A	brain
11	chr15:54128800-54130000	Enhancers	Fetal Kidney	kidney
12	chr15:54129000-54129800	Enhancers	Duodenum Mucosa	Duodenum
13	chr15:54129000-54130000	Enhancers	Stomach Mucosa	stomach
14	chr15:54129200-54129800	Enhancers	iPS-20b Cell Line	embryonic stem cell
15	chr15:54129400-54129800	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
16	chr15:54129400-54129800	Enhancers	Fetal Stomach	stomach
17	chr15:54129400-54130000	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
18	chr15:54129600-54129800	Enhancers	HUES6 Cell Line	embryonic stem cell
19	chr15:54129600-54129800	Enhancers	Fetal Brain Male	brain
20	chr15:54129600-54130000	Flanking Active TSS	A549	lung
21	chr15:54129600-54134200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
22	chr15:54129600-54136600	Weak transcription	Fetal Lung	lung

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