Variant report

Variant	rs372805524
Chromosome Location	chr5:1930131-1930132
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:14)
CpG islands
(count:0)
Chromatin interactive
region (count:1)
LncRNA
region (count:2)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:14 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr5:1929600-1930181	Gliobla	brain:	n/a	n/a
2	MYC	chr5:1930076-1930131	H1-hESC	embryonic stem cell:	n/a	n/a
3	POLR2A	chr5:1929934-1930291	A549	lung:	n/a	n/a
4	GABPA	chr5:1929834-1930182	K562	blood:	n/a	n/a
5	NR2C2	chr5:1929198-1930575	GM12878	blood:	n/a	n/a
6	MAX	chr5:1929231-1930154	HUVEC	blood vessel:	n/a	n/a
7	POLR2A	chr5:1930119-1930320	MCF-7	breast:	n/a	n/a
8	POLR2A	chr5:1927991-1933825	MCF10A-Er-Src	breast:	n/a	n/a
9	NFATC1	chr5:1929891-1930456	GM12878	blood:	n/a	n/a
10	POLR2A	chr5:1928300-1932687	MCF10A-Er-Src	breast:	n/a	n/a
11	ZNF274	chr5:1930037-1930336	H1-hESC	embryonic stem cell:	n/a	n/a
12	CTCF	chr5:1929185-1930322	GM19239	blood:	n/a	n/a
13	SUZ12	chr5:1929166-1930596	H1-hESC	embryonic stem cell:	n/a	n/a
14	POLR2A	chr5:1930039-1930240	HepG2	liver:	n/a	n/a

No data

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

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr5:1928752..1930799-chr5:1946292..1948777,2	MCF-7	breast:

(count:2 , 50 per page) page: 1

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-IRX4-2	chr5:1929007-1930243	XLOC_004707
2	lnc-IRX4-2	chr5:1929770-1930148	NONHSAT100080

No data

Variant related genes	Relation type
ENSG00000248994	TF binding region

Extended variants
information (count: 22 )
Associated
traits (count: 0)

Variant overlapped rSNPs/rCNVs (count:22 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv933805	chr5:1450724-1941619	Enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Active TSS Strong transcription Active TSS Weak transcription Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	96 gene(s)	inside rSNPs	diseases
2	nsv817407	chr5:1495354-2191460	Weak transcription Strong transcription Enhancers Flanking Active TSS Bivalent/Poised TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	107 gene(s)	inside rSNPs	diseases
3	nsv869236	chr5:1719263-2259100	Flanking Active TSS Active TSS Bivalent/Poised TSS Bivalent Enhancer Enhancers Weak transcription ZNF genes & repeats Genic enhancers Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	66 gene(s)	inside rSNPs	diseases
4	nsv881557	chr5:1822326-1932463	Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
5	nsv880886	chr5:1880891-1936443	Bivalent Enhancer Bivalent/Poised TSS Weak transcription Active TSS Flanking Bivalent TSS/Enh Enhancers Flanking Active TSS ZNF genes & repeats Genic enhancers Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
6	nsv880460	chr5:1886471-1936443	Bivalent Enhancer Flanking Bivalent TSS/Enh Enhancers Bivalent/Poised TSS Weak transcription Flanking Active TSS Genic enhancers Active TSS Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
7	nsv915846	chr5:1891098-2167677	Active TSS Genic enhancers Enhancers Weak transcription ZNF genes & repeats Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
8	nsv881650	chr5:1892995-1944487	Enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Weak transcription Active TSS ZNF genes & repeats Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
9	nsv880653	chr5:1892995-1946697	Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Weak transcription Bivalent Enhancer Active TSS ZNF genes & repeats Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
10	nsv1015576	chr5:1894124-1942909	Active TSS Weak transcription Bivalent Enhancer Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
11	nsv880562	chr5:1895829-1936443	Enhancers Weak transcription Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
12	nsv881174	chr5:1895829-1942834	Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Enhancers Active TSS Bivalent Enhancer Weak transcription Flanking Active TSS Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
13	nsv880381	chr5:1895829-1946697	Enhancers Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Active TSS Strong transcription ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
14	nsv1026930	chr5:1898993-2126061	Bivalent/Poised TSS Flanking Active TSS Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Weak transcription Genic enhancers Strong transcription ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
15	nsv508344	chr5:1905222-1976860	Enhancers Active TSS Weak transcription ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
16	nsv881562	chr5:1907974-1976187	Enhancers Weak transcription Genic enhancers Bivalent Enhancer ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Flanking Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
17	nsv880964	chr5:1912921-1953161	Weak transcription ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Enhancers Active TSS Flanking Active TSS Bivalent Enhancer Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
18	nsv596897	chr5:1924628-1934490	Bivalent Enhancer Bivalent/Poised TSS Enhancers Genic enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
19	esv3429117	chr5:1927452-1931450	Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Weak transcription Active TSS Enhancers Flanking Active TSS ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
20	esv3379236	chr5:1927852-1931550	Active TSS Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Weak transcription ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
21	esv3382920	chr5:1927852-1931550	Enhancers Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Weak transcription Bivalent/Poised TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
22	esv3356023	chr5:1930087-1930641	Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Weak transcription Genic enhancers	TF binding region Chromatin interactive region lncRNA	3 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	chr5:1927800-1930400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr5:1928400-1930400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
3	chr5:1929200-1930200	Enhancers	Breast Myoepithelial Primary Cells	Breast
4	chr5:1929200-1930200	Genic enhancers	Esophagus	oesophagus
5	chr5:1929200-1930400	ZNF genes & repeats	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr5:1929200-1930400	Bivalent/Poised TSS	Fetal Lung	lung
7	chr5:1929200-1930400	Enhancers	Pancreas	Pancrea
8	chr5:1929200-1930400	ZNF genes & repeats	Right Atrium	heart
9	chr5:1929200-1930600	ZNF genes & repeats	H9 Cell Line	embryonic stem cell
10	chr5:1929200-1930600	ZNF genes & repeats	iPS DF 19.11 Cell Line	embryonic stem cell
11	chr5:1929200-1930600	Flanking Bivalent TSS/Enh	Fetal Kidney	kidney
12	chr5:1929200-1930600	ZNF genes & repeats	Lung	lung
13	chr5:1929200-1930600	Enhancers	Ovary	ovary
14	chr5:1929200-1930800	Enhancers	Right Ventricle	heart
15	chr5:1929600-1930200	Enhancers	Gastric	stomach
16	chr5:1929600-1931400	Bivalent Enhancer	H1 Derived Mesenchymal Stem Cells	ES cell derived
17	chr5:1929800-1930200	Flanking Bivalent TSS/Enh	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
18	chr5:1929800-1930200	Bivalent Enhancer	Fetal Heart	heart
19	chr5:1929800-1930200	Bivalent/Poised TSS	Skeletal Muscle Male	skeletal muscle
20	chr5:1929800-1931200	Bivalent Enhancer	Fetal Brain Male	brain
21	chr5:1930000-1930200	Genic enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
22	chr5:1930000-1930200	Bivalent Enhancer	Duodenum Mucosa	Duodenum
23	chr5:1930000-1930200	Bivalent Enhancer	Fetal Thymus	thymus
24	chr5:1930000-1930200	Flanking Bivalent TSS/Enh	Skeletal Muscle Female	skeletal muscle
25	chr5:1930000-1930400	Bivalent/Poised TSS	Rectal Smooth Muscle	rectum
26	chr5:1930000-1930400	Enhancers	NHEK	skin
27	chr5:1930000-1930400	ZNF genes & repeats	NHLF	lung
28	chr5:1930000-1930600	Bivalent Enhancer	H1 Cell Line	embryonic stem cell
29	chr5:1930000-1930600	Bivalent Enhancer	Primary B cells from peripheral blood	blood
30	chr5:1930000-1930600	Bivalent Enhancer	Primary hematopoietic stem cells G-CSF-mobilized Male	--

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links