Variant report

Variant	rs558578607
Chromosome Location	chr22:31090245-31090246
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:123)
CpG islands
(count:122)
Chromatin interactive
region (count:5)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:123 , 50 per page) page: 1 2 3

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	MYC	chr22:31090124-31090387	MCF10A-Er-Src	breast:	n/a	n/a
2	POLR2A	chr22:31090071-31090579	HCT-116	colon:	n/a	n/a
3	REST	chr22:31089789-31091468	H1-neurons	neurons:	n/a	n/a
4	TCF12	chr22:31089930-31090603	ECC-1	luminal epithelium:	n/a	n/a
5	CTCF	chr22:31090245-31090413	GM19239	blood:	n/a	n/a
6	YY1	chr22:31090045-31090659	ECC-1	luminal epithelium:	n/a	chr22:31090347-31090356
7	EBF1	chr22:31090112-31090364	GM12878	blood:	n/a	n/a
8	RUNX3	chr22:31090069-31090480	GM12878	blood:	n/a	n/a
9	CTCF	chr22:31090160-31090310	GM12865	blood:	n/a	n/a
10	CTCF	chr22:31090216-31090306	H1-hESC	embryonic stem cell:	n/a	n/a
11	TCF3	chr22:31090177-31090664	GM12878	blood:	n/a	chr22:31090649-31090658
12	CTCF	chr22:31090200-31090350	GM12878	blood:	n/a	n/a
13	FOXA2	chr22:31090056-31090452	A549	lung:	n/a	n/a
14	YY1	chr22:31090169-31090455	GM12892	blood:	n/a	chr22:31090347-31090356
15	YY1	chr22:31090143-31090532	HCT-116	colon:	n/a	chr22:31090347-31090356
16	YY1	chr22:31090218-31090439	K562	blood:	n/a	chr22:31090347-31090356
17	MAX	chr22:31090149-31090594	MCF-7	breast:	n/a	n/a
18	YY1	chr22:31090065-31090568	ECC-1	luminal epithelium:	n/a	chr22:31090347-31090356
19	BACH1	chr22:31090133-31090640	H1-hESC	embryonic stem cell:	n/a	n/a
20	POLR2A	chr22:31090009-31090956	H1-hESC	embryonic stem cell:	n/a	n/a
21	SMC3	chr22:31090179-31090330	Hela-S3	cervix:	n/a	n/a
22	YY1	chr22:31090159-31090486	GM12892	blood:	n/a	chr22:31090347-31090356
23	POLR2A	chr22:31090050-31090592	H1-hESC	embryonic stem cell:	n/a	n/a
24	FOXA2	chr22:31090010-31090356	A549	lung:	n/a	n/a
25	TCF12	chr22:31090104-31090625	A549	lung:	n/a	n/a
26	E2F6	chr22:31090131-31090615	A549	lung:	n/a	chr22:31090347-31090356
27	YY1	chr22:31090239-31090437	A549	lung:	n/a	chr22:31090347-31090356
28	CTCF	chr22:31090200-31090350	AG04449	skin:	n/a	n/a
29	ZNF143	chr22:31090235-31090522	GM12878	blood:	n/a	n/a
30	TAF1	chr22:31090107-31090605	H1-neurons	neurons:	n/a	n/a
31	EBF1	chr22:31090075-31090602	GM12878	blood:	n/a	n/a
32	POLR2A	chr22:31090191-31090434	A549	lung:	n/a	n/a
33	MAX	chr22:31090145-31090611	H1-hESC	embryonic stem cell:	n/a	n/a
34	YY1	chr22:31090076-31090703	SK-N-SH_RA	brain:	n/a	chr22:31090347-31090356
35	CHD1	chr22:31090073-31090273	H1-hESC	embryonic stem cell:	n/a	n/a
36	TBP	chr22:31090147-31090747	H1-hESC	embryonic stem cell:	n/a	n/a
37	ZEB1	chr22:31090127-31090502	GM12878	blood:	n/a	n/a
38	CTCF	chr22:31090180-31090330	GM12872	blood:	n/a	n/a
39	MXI1	chr22:31090166-31090601	GM12878	blood:	n/a	n/a
40	TAF1	chr22:31090033-31090662	H1-hESC	embryonic stem cell:	n/a	n/a
41	CTCF	chr22:31090216-31090601	GM12878	blood:	n/a	n/a
42	MAX	chr22:31090078-31090619	H1-hESC	embryonic stem cell:	n/a	n/a
43	TAF1	chr22:31090156-31090459	GM12878	blood:	n/a	n/a
44	TCF12	chr22:31090156-31090438	H1-hESC	embryonic stem cell:	n/a	n/a
45	POLR2A	chr22:31090052-31090594	H1-hESC	embryonic stem cell:	n/a	n/a
46	ATF2	chr22:31090018-31090411	H1-hESC	embryonic stem cell:	n/a	n/a
47	TEAD4	chr22:31090145-31090439	H1-hESC	embryonic stem cell:	n/a	n/a
48	E2F4	chr22:31090156-31090254	MCF10A-Er-Src	breast:	n/a	n/a
49	POLR2A	chr22:31090129-31090786	GM12878	blood:	n/a	n/a
50	YY1	chr22:31090206-31090443	GM12891	blood:	n/a	chr22:31090347-31090356

(count:122 , 50 per page) page: 1 2 3

No.	Chromosome Location	Cell Line	Cell type	Cell Stage
1	chr22:31090201-31090251	IMR90	lung:	fetal
2	chr22:31090201-31090251	GM12892	blood:	n/a
3	chr22:31090223-31090273	HRCEpiC	kidney:	n/a
4	chr22:31090201-31090251	HEEpiC	esophagus:	n/a
5	chr22:31090223-31090273	HPAEpiC	pulmonary alveolar:	n/a
6	chr22:31090223-31090273	HIPEpiC	eye:	n/a
7	chr22:31090201-31090251	HRPEpiC	eye:	n/a
8	chr22:31090223-31090273	HEEpiC	esophagus:	n/a
9	chr22:31090223-31090273	HepG2	liver:	n/a
10	chr22:31090201-31090251	AG09319	gingival:	n/a
11	chr22:31090201-31090251	HAEpiC	amniotic membrane:	n/a
12	chr22:31090201-31090251	PrEC	prostate:	n/a
13	chr22:31090201-31090251	HCF	heart:	n/a
14	chr22:31090201-31090251	SK-N-SH_RA	brain:	n/a
15	chr22:31090223-31090273	ProgFib	skin:	n/a
16	chr22:31090223-31090273	IMR90	lung:	fetal
17	chr22:31090201-31090251	AG04450	lung:	fetal
18	chr22:31090223-31090273	NT2-D1	testis:	n/a
19	chr22:31090201-31090251	AG04449	skin:	fetal
20	chr22:31090201-31090251	SKMC	muscle:	n/a
21	chr22:31090223-31090273	GM12878	blood:	n/a
22	chr22:31090201-31090251	Caco-2	colon:	n/a
23	chr22:31090201-31090251	HNPCEpiC	eye:	n/a
24	chr22:31090201-31090251	BE2_C	brain:	n/a
25	chr22:31090223-31090273	HNPCEpiC	eye:	n/a
26	chr22:31090223-31090273	GM06990	blood:	n/a
27	chr22:31090223-31090273	AG09319	gingival:	n/a
28	chr22:31090201-31090251	U87	brain:	n/a
29	chr22:31090201-31090251	NHBE	bronchial:	n/a
30	chr22:31090201-31090251	NH-A	brain:	n/a
31	chr22:31090201-31090251	K562	blood:	n/a
32	chr22:31090223-31090273	HRPEpiC	eye:	n/a
33	chr22:31090223-31090273	SAEC	small airway:	n/a
34	chr22:31090223-31090273	MCF-7	breast:	n/a
35	chr22:31090201-31090251	GM12878	blood:	n/a
36	chr22:31090201-31090251	HCM	heart:	n/a
37	chr22:31090223-31090273	Jurkat	blood:	n/a
38	chr22:31090223-31090273	BE2_C	brain:	n/a
39	chr22:31090223-31090273	SK-N-SH_RA	brain:	n/a
40	chr22:31090223-31090273	GM12891	blood:	n/a
41	chr22:31090223-31090273	SKMC	muscle:	n/a
42	chr22:31090223-31090273	Hepatocyte	liver:	n/a
43	chr22:31090223-31090273	HMEC	breast:	n/a
44	chr22:31090201-31090251	GM12891	blood:	n/a
45	chr22:31090201-31090251	HL-60	blood:	n/a
46	chr22:31090223-31090273	HCT-116	colon:	n/a
47	chr22:31090201-31090251	HIPEpiC	eye:	n/a
48	chr22:31090201-31090251	HEK293	kidney:	embryo
49	chr22:31090223-31090273	K562	blood:	n/a
50	chr22:31090223-31090273	A549	lung:	n/a

(count:5 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr22:31057579..31060597-chr22:31088878..31091753,3	MCF-7	breast:
2	chr22:30820440..30822751-chr22:31090157..31092444,2	MCF-7	breast:
3	chr22:31031588..31032094-chr22:31090123..31090949,2	MCF-7	breast:
4	chr22:31062708..31065866-chr22:31088934..31092028,6	MCF-7	breast:
5	chr22:31062803..31066328-chr22:31088733..31092098,4	MCF-7	breast:

No data

Variant related genes	Relation type
OSBP2	TF binding region
OSBP2	CpG island
ENSG00000100036	Chromatin interaction
ENSG00000242114	Chromatin interaction
ENSG00000167065	Chromatin interaction

Extended variants
information (count: 3 )
Associated
traits (count: 0)

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv915818	chr22:30708245-31346302	Active TSS Flanking Active TSS Bivalent Enhancer Genic enhancers Weak transcription Enhancers Transcr. at gene 5' and 3' Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	82 gene(s)	inside rSNPs	diseases
2	esv3356283	chr22:31089477-31092325	Enhancers Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Weak transcription Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	6 gene(s)	inside rSNPs	diseases
3	esv3428599	chr22:31089827-31092000	Bivalent Enhancer Active TSS Flanking Active TSS Enhancers Bivalent/Poised TSS Weak transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:124 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr22:31089400-31091600	Active TSS	Fetal Kidney	kidney
2	chr22:31089800-31090400	Flanking Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
3	chr22:31089800-31090400	Enhancers	Fetal Brain Male	brain
4	chr22:31089800-31090600	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
5	chr22:31089800-31090600	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
6	chr22:31089800-31091200	Flanking Active TSS	Primary hematopoietic stem cells short term culture	blood
7	chr22:31089800-31091200	Active TSS	Fetal Brain Female	brain
8	chr22:31089800-31091400	Bivalent/Poised TSS	Primary T cells from cord blood	blood
9	chr22:31089800-31091600	Active TSS	Hela-S3	cervix
10	chr22:31089800-31091800	Active TSS	Primary T regulatory cells fromperipheralblood	blood
11	chr22:31089800-31092000	Active TSS	Brain Inferior Temporal Lobe	brain
12	chr22:31090000-31090400	Bivalent/Poised TSS	H9 Derived Neuron Cultured Cells	ES cell derived
13	chr22:31090000-31090400	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
14	chr22:31090000-31090400	Flanking Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
15	chr22:31090000-31090400	Bivalent Enhancer	Primary neutrophils fromperipheralblood	blood
16	chr22:31090000-31090400	Flanking Bivalent TSS/Enh	Primary B cells from cord blood	blood
17	chr22:31090000-31090400	Flanking Active TSS	Primary T helper memory cells from peripheral blood 2	blood
18	chr22:31090000-31090400	Flanking Active TSS	Primary T helper cells fromperipheralblood	blood
19	chr22:31090000-31090400	Flanking Active TSS	Primary T killer naive cells fromperipheralblood	blood
20	chr22:31090000-31090400	Flanking Active TSS	Colon Smooth Muscle	Colon
21	chr22:31090000-31090400	Flanking Bivalent TSS/Enh	Duodenum Smooth Muscle	Duodenum
22	chr22:31090000-31090400	Flanking Bivalent TSS/Enh	Fetal Adrenal Gland	Adrenal Gland
23	chr22:31090000-31090400	Flanking Active TSS	Ovary	ovary
24	chr22:31090000-31090400	Flanking Active TSS	Rectal Mucosa Donor 31	rectum
25	chr22:31090000-31090400	Flanking Active TSS	GM12878-XiMat	blood
26	chr22:31090000-31090400	Flanking Active TSS	HSMM	muscle
27	chr22:31090000-31090400	Flanking Active TSS	Osteobl	bone
28	chr22:31090000-31090600	Flanking Active TSS	iPS DF 19.11 Cell Line	embryonic stem cell
29	chr22:31090000-31090600	Flanking Bivalent TSS/Enh	Primary B cells from peripheral blood	blood
30	chr22:31090000-31090600	Flanking Bivalent TSS/Enh	Primary T cells fromperipheralblood	blood
31	chr22:31090000-31090600	Flanking Active TSS	Primary hematopoietic stem cells	blood
32	chr22:31090000-31090600	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
33	chr22:31090000-31090600	Flanking Active TSS	Muscle Satellite Cultured Cells	--
34	chr22:31090000-31090600	Flanking Active TSS	Cortex derived primary cultured neurospheres	brain
35	chr22:31090000-31090600	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
36	chr22:31090000-31090600	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
37	chr22:31090000-31090600	Flanking Bivalent TSS/Enh	Adipose Nuclei	Adipose
38	chr22:31090000-31090600	Flanking Active TSS	Liver	Liver
39	chr22:31090000-31090600	Flanking Active TSS	Colonic Mucosa	Colon
40	chr22:31090000-31090600	Flanking Active TSS	Duodenum Mucosa	Duodenum
41	chr22:31090000-31090600	Flanking Active TSS	Esophagus	oesophagus
42	chr22:31090000-31090600	Flanking Bivalent TSS/Enh	Fetal Muscle Trunk	muscle
43	chr22:31090000-31090600	Flanking Bivalent TSS/Enh	Fetal Muscle Leg	muscle
44	chr22:31090000-31090600	Flanking Bivalent TSS/Enh	Skeletal Muscle Male	skeletal muscle
45	chr22:31090000-31090600	Flanking Active TSS	Stomach Smooth Muscle	stomach
46	chr22:31090000-31090600	Flanking Active TSS	HMEC	breast
47	chr22:31090000-31090600	Flanking Active TSS	HUVEC	blood vessel
48	chr22:31090000-31090600	Flanking Bivalent TSS/Enh	Monocytes-CD14+_RO01746	blood
49	chr22:31090000-31090800	Active TSS	HUES48 Cell Line	embryonic stem cell
50	chr22:31090000-31091000	Active TSS	H1 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links