Variant report

Variant	rs1203912
Chromosome Location	chr20:22566820-22566821
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	CTBP2	chr20:22566496-22567946	H1-hESC	embryonic stem cell:	n/a	n/a
2	SUZ12	chr20:22565354-22567935	H1-hESC	embryonic stem cell:	n/a	n/a
3	CTCF	chr20:22566738-22568139	A549	lung:	n/a	chr20:22567481-22567499 chr20:22567482-22567498
4	SUZ12	chr20:22564779-22567986	NT2-D1	testis:	n/a	n/a
5	TCF12	chr20:22563510-22568249	A549	lung:	n/a	chr20:22566208-22566218 chr20:22565506-22565513 chr20:22564334-22564344

Variant related genes	Relation type
FOXA2	TF binding region

Extended variants
information (count: 12 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs1203870	1.00[EUR][1000 genomes]
rs1203885	1.00[EUR][1000 genomes]
rs1203887	1.00[EUR][1000 genomes]
rs1203888	1.00[EUR][1000 genomes]
rs1203893	1.00[EUR][1000 genomes]
rs1203897	1.00[EUR][1000 genomes]
rs1203900	1.00[EUR][1000 genomes]
rs1203906	0.88[AFR][1000 genomes]
rs1203911	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1203913	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1203914	0.92[AFR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:1 , 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

No data

Chromatin state (count:28 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr20:22561200-22567800	Bivalent/Poised TSS	iPS-15b Cell Line	embryonic stem cell
2	chr20:22565000-22567000	Weak transcription	Gastric	stomach
3	chr20:22565800-22567200	Bivalent Enhancer	ES-UCSF4 Cell Line	embryonic stem cell
4	chr20:22566000-22567200	Bivalent Enhancer	Breast Myoepithelial Primary Cells	Breast
5	chr20:22566000-22567200	Weak transcription	K562	blood
6	chr20:22566000-22567400	Flanking Active TSS	HepG2	liver
7	chr20:22566200-22567000	Bivalent Enhancer	HMEC	breast
8	chr20:22566200-22567400	Bivalent Enhancer	HUES48 Cell Line	embryonic stem cell
9	chr20:22566200-22567400	Enhancers	Pancreas	Pancrea
10	chr20:22566200-22567400	Flanking Active TSS	A549	lung
11	chr20:22566200-22567600	Bivalent Enhancer	H1 Cell Line	embryonic stem cell
12	chr20:22566400-22567000	Flanking Bivalent TSS/Enh	Skeletal Muscle Male	skeletal muscle
13	chr20:22566400-22567200	Bivalent Enhancer	Rectal Mucosa Donor 29	rectum
14	chr20:22566400-22567400	Weak transcription	Pancreatic Islets	Pancreatic Islet
15	chr20:22566600-22567000	Bivalent Enhancer	Duodenum Mucosa	Duodenum
16	chr20:22566600-22567000	Enhancers	Rectal Mucosa Donor 31	rectum
17	chr20:22566600-22567000	Bivalent Enhancer	Spleen	Spleen
18	chr20:22566600-22567200	Bivalent Enhancer	iPS DF 6.9 Cell Line	embryonic stem cell
19	chr20:22566600-22567200	Enhancers	Liver	Liver
20	chr20:22566600-22567200	Bivalent Enhancer	Brain Hippocampus Middle	brain
21	chr20:22566600-22567400	Bivalent Enhancer	Stomach Mucosa	stomach
22	chr20:22566800-22567000	Bivalent Enhancer	HUES6 Cell Line	embryonic stem cell
23	chr20:22566800-22567000	Flanking Bivalent TSS/Enh	iPS DF 19.11 Cell Line	embryonic stem cell
24	chr20:22566800-22567000	Bivalent Enhancer	Fetal Brain Male	brain
25	chr20:22566800-22567000	Flanking Bivalent TSS/Enh	Stomach Smooth Muscle	stomach
26	chr20:22566800-22567200	Bivalent Enhancer	Colonic Mucosa	Colon
27	chr20:22566800-22567400	Bivalent Enhancer	Foreskin Fibroblast Primary Cells skin02	Skin
28	chr20:22566800-22567400	Bivalent Enhancer	Foreskin Keratinocyte Primary Cells skin03	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links