Variant report

Variant	rs1203893
Chromosome Location	chr20:22549221-22549222
allele	A/G
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	SIN3A	chr20:22548975-22549268	H1-hESC	embryonic stem cell:	n/a	n/a
3	SUZ12	chr20:22548639-22549785	H1-hESC	embryonic stem cell:	n/a	n/a
4	E2F6	chr20:22549079-22549442	H1-hESC	embryonic stem cell:	n/a	chr20:22549157-22549169
5	E2F6	chr20:22549055-22549571	H1-hESC	embryonic stem cell:	n/a	chr20:22549157-22549169 chr20:22549462-22549469 chr20:22549462-22549473
6	CTBP2	chr20:22548308-22549987	H1-hESC	embryonic stem cell:	n/a	n/a
7	BACH1	chr20:22549197-22549508	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:

Variant related genes	Relation type
LINC00261	TF binding region

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

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs1203869	0.81[ASN][1000 genomes]
rs1203870	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1203878	0.87[ASN][1000 genomes]
rs1203882	1.00[CHB][hapmap];0.87[ASN][1000 genomes]
rs1203885	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1203887	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1203888	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1203890	1.00[ASN][1000 genomes]
rs1203891	1.00[ASN][1000 genomes]
rs1203897	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1203900	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1203901	0.87[ASN][1000 genomes]
rs1203903	0.87[ASN][1000 genomes]
rs1203904	1.00[CHB][hapmap];0.87[ASN][1000 genomes]
rs1203906	0.87[ASN][1000 genomes]
rs1203908	0.87[ASN][1000 genomes]
rs1203911	1.00[EUR][1000 genomes]
rs1203912	1.00[EUR][1000 genomes]
rs1203913	1.00[EUR][1000 genomes]
rs1203914	1.00[EUR][1000 genomes]

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:43 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr20:22544600-22549400	Genic enhancers	Liver	Liver
2	chr20:22547000-22550800	Strong transcription	HepG2	liver
3	chr20:22547800-22549800	Bivalent Enhancer	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
4	chr20:22548400-22549400	Bivalent/Poised TSS	ES-I3 Cell Line	embryonic stem cell
5	chr20:22548400-22549400	Flanking Bivalent TSS/Enh	HUES48 Cell Line	embryonic stem cell
6	chr20:22548400-22549800	Bivalent/Poised TSS	iPS-15b Cell Line	embryonic stem cell
7	chr20:22548400-22549800	Bivalent/Poised TSS	iPS-18 Cell Line	embryonic stem cell
8	chr20:22548600-22549400	Flanking Bivalent TSS/Enh	HUES64 Cell Line	embryonic stem cell
9	chr20:22548600-22549400	Bivalent Enhancer	Fetal Adrenal Gland	Adrenal Gland
10	chr20:22548600-22549600	Bivalent/Poised TSS	H9 Cell Line	embryonic stem cell
11	chr20:22548600-22549600	Enhancers	Lung	lung
12	chr20:22548600-22550400	Active TSS	Pancreatic Islets	Pancreatic Islet
13	chr20:22548800-22549400	Bivalent/Poised TSS	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
14	chr20:22548800-22549400	Bivalent/Poised TSS	iPS-20b Cell Line	embryonic stem cell
15	chr20:22548800-22549400	Flanking Bivalent TSS/Enh	iPS DF 19.11 Cell Line	embryonic stem cell
16	chr20:22548800-22549400	Bivalent Enhancer	Fetal Muscle Trunk	muscle
17	chr20:22548800-22549400	Bivalent Enhancer	Fetal Muscle Leg	muscle
18	chr20:22548800-22549600	Bivalent Enhancer	iPS DF 6.9 Cell Line	embryonic stem cell
19	chr20:22548800-22549600	Bivalent Enhancer	Skeletal Muscle Male	skeletal muscle
20	chr20:22548800-22549600	Bivalent Enhancer	Spleen	Spleen
21	chr20:22548800-22549800	Bivalent Enhancer	Colonic Mucosa	Colon
22	chr20:22548800-22549800	Bivalent Enhancer	Skeletal Muscle Female	skeletal muscle
23	chr20:22548800-22549800	Bivalent Enhancer	HMEC	breast
24	chr20:22548800-22550000	Bivalent Enhancer	Breast Myoepithelial Primary Cells	Breast
25	chr20:22548800-22550000	Active TSS	Pancreas	Pancrea
26	chr20:22549000-22549400	Flanking Bivalent TSS/Enh	H1 Cell Line	embryonic stem cell
27	chr20:22549000-22549400	Bivalent Enhancer	ES-UCSF4 Cell Line	embryonic stem cell
28	chr20:22549000-22549600	Bivalent/Poised TSS	ES-WA7 Cell Line	embryonic stem cell
29	chr20:22549000-22549600	Bivalent Enhancer	Brain Hippocampus Middle	brain
30	chr20:22549000-22549600	Active TSS	Gastric	stomach
31	chr20:22549000-22549800	Bivalent Enhancer	Foreskin Melanocyte Primary Cells skin03	Skin
32	chr20:22549000-22550000	Bivalent/Poised TSS	Fetal Stomach	stomach
33	chr20:22549000-22551400	Weak transcription	K562	blood
34	chr20:22549200-22549400	Flanking Bivalent TSS/Enh	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
35	chr20:22549200-22549400	Flanking Bivalent TSS/Enh	HUES6 Cell Line	embryonic stem cell
36	chr20:22549200-22549400	Bivalent Enhancer	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
37	chr20:22549200-22549400	Bivalent Enhancer	Brain Inferior Temporal Lobe	brain
38	chr20:22549200-22549400	Flanking Bivalent TSS/Enh	Fetal Intestine Small	intestine
39	chr20:22549200-22549400	Flanking Bivalent TSS/Enh	Stomach Mucosa	stomach
40	chr20:22549200-22549600	Bivalent Enhancer	Small Intestine	intestine
41	chr20:22549200-22549800	Bivalent Enhancer	H1 Derived Mesenchymal Stem Cells	ES cell derived
42	chr20:22549200-22549800	Bivalent Enhancer	Foreskin Keratinocyte Primary Cells skin03	Skin
43	chr20:22549200-22549800	Bivalent Enhancer	Stomach Smooth Muscle	stomach

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