Variant report

Variant	rs552085668
Chromosome Location	chr20:22548583-22548584
allele	C/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	SUZ12	chr20:22547785-22550361	NT2-D1	testis:	n/a	n/a
2	POLR2A	chr20:22548319-22548630	H1-hESC	embryonic stem cell:	n/a	n/a
3	SP1	chr20:22548529-22548990	H1-hESC	embryonic stem cell:	n/a	chr20:22548581-22548595 chr20:22548582-22548591 chr20:22548575-22548584 chr20:22548580-22548592 chr20:22548581-22548591 chr20:22548581-22548590 chr20:22548580-22548592 chr20:22548917-22548926 chr20:22548573-22548585 chr20:22548963-22548973 chr20:22548574-22548588 chr20:22548574-22548584 chr20:22548915-22548927 chr20:22548915-22548927 chr20:22548963-22548973
4	POLR2A	chr20:22548261-22548719	HepG2	liver:	n/a	n/a
5	CTBP2	chr20:22548308-22549987	H1-hESC	embryonic stem cell:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr20:22537625..22541473-chr20:22546828..22550085,4	MCF-7	breast:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-FOXA2-2	chr20:22548432-22548833	NONHSAT078994

Variant related genes	Relation type
LINC00261	TF binding region

Extended variants
information (count: 2 )
Associated
traits (count: 0)

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv428690	chr20:22528757-22649625	Bivalent Enhancer Flanking Bivalent TSS/Enh Enhancers Flanking Active TSS Bivalent/Poised TSS Active TSS Weak transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
2	esv3381101	chr20:22548552-22551550	Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS Enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers Weak transcription Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:20 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr20:22540000-22548800	Weak transcription	Gastric	stomach
2	chr20:22544600-22549400	Genic enhancers	Liver	Liver
3	chr20:22545600-22548600	Weak transcription	Pancreas	Pancrea
4	chr20:22546600-22548800	Bivalent Enhancer	ES-UCSF4 Cell Line	embryonic stem cell
5	chr20:22547000-22550800	Strong transcription	HepG2	liver
6	chr20:22547200-22549000	Bivalent Enhancer	H1 Cell Line	embryonic stem cell
7	chr20:22547800-22549800	Bivalent Enhancer	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
8	chr20:22548000-22548600	Bivalent Enhancer	HUES64 Cell Line	embryonic stem cell
9	chr20:22548000-22548600	Enhancers	Pancreatic Islets	Pancreatic Islet
10	chr20:22548000-22549000	Enhancers	K562	blood
11	chr20:22548000-22549200	Weak transcription	Rectal Mucosa Donor 31	rectum
12	chr20:22548200-22548800	Flanking Bivalent TSS/Enh	iPS-20b Cell Line	embryonic stem cell
13	chr20:22548200-22549000	Transcr. at gene 5' and 3'	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
14	chr20:22548400-22548600	Bivalent Enhancer	Stomach Mucosa	stomach
15	chr20:22548400-22548800	Bivalent/Poised TSS	HUES6 Cell Line	embryonic stem cell
16	chr20:22548400-22549000	Bivalent Enhancer	H1 Derived Mesenchymal Stem Cells	ES cell derived
17	chr20:22548400-22549400	Bivalent/Poised TSS	ES-I3 Cell Line	embryonic stem cell
18	chr20:22548400-22549400	Flanking Bivalent TSS/Enh	HUES48 Cell Line	embryonic stem cell
19	chr20:22548400-22549800	Bivalent/Poised TSS	iPS-15b Cell Line	embryonic stem cell
20	chr20:22548400-22549800	Bivalent/Poised TSS	iPS-18 Cell Line	embryonic stem cell

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