Variant report

Variant	rs564
Chromosome Location	chr9:96328303-96328304
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	CEBPB	chr9:96328201-96328402	H1-hESC	embryonic stem cell:	n/a	chr9:96328270-96328281
2	CEBPB	chr9:96328142-96328440	A549	lung:	n/a	chr9:96328270-96328281
3	CEBPB	chr9:96328169-96328437	IMR90	lung:	n/a	chr9:96328270-96328281
4	CEBPB	chr9:96328128-96328443	K562	blood:	n/a	chr9:96328270-96328281
5	MAZ	chr9:96328276-96330025	IMR90	lung:	n/a	chr9:96329520-96329531 chr9:96329653-96329662
6	RAD21	chr9:96328253-96329760	SK-N-SH	brain:	n/a	chr9:96329385-96329399 chr9:96328804-96328823 chr9:96328807-96328820
7	CEBPB	chr9:96328194-96328400	Hela-S3	cervix:	n/a	chr9:96328270-96328281
8	STAT3	chr9:96328189-96328389	MCF10A-Er-Src	breast:	n/a	n/a
9	CEBPB	chr9:96328114-96328447	HepG2	liver:	n/a	chr9:96328270-96328281

No.	Distal block	Cell Line	Cell type
1	chr9:96290421..96292489-chr9:96327392..96330270,2	MCF-7	breast:
2	chr9:96210381..96218248-chr9:96327402..96333234,10	MCF-7	breast:
3	chr9:96212024..96217170-chr9:96326121..96330116,7	MCF-7	breast:
4	chr9:96213362..96216144-chr9:96327494..96330556,6	K562	blood:
5	chr9:96213362..96215557-chr9:96327494..96329016,2	K562	blood:

Variant related genes	Relation type
ENSG00000263875	TF binding region
ENSG00000188938	Chromatin interaction
ENSG00000048828	Chromatin interaction

Extended variants
information (count: 90 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:88)

rs_ID	r²[population]
rs10512223	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs1055710	0.83[AMR][1000 genomes]
rs10739950	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs10761227	0.86[AMR][1000 genomes]
rs10761228	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs10761229	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs10761230	0.86[AFR][1000 genomes];0.86[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs10761231	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10761232	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs10761233	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10761235	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10761238	0.83[EUR][1000 genomes]
rs10821128	0.88[AMR][1000 genomes]
rs10821129	0.86[AMR][1000 genomes]
rs10821130	0.86[AMR][1000 genomes]
rs10821134	0.86[AFR][1000 genomes];0.86[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs10821136	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs10821137	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs10821138	0.86[AFR][1000 genomes];0.86[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs10821139	0.86[AFR][1000 genomes];0.86[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs10821140	0.86[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs10821141	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs10821142	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs10821143	0.86[AFR][1000 genomes];0.86[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs10821145	0.88[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs10821146	0.88[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs10821147	0.88[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs10821148	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10821150	0.86[AFR][1000 genomes];0.88[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10821151	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10821152	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10821153	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10821154	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10821157	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10821158	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10821159	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10821160	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10821163	0.83[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10992746	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs10992748	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs10992749	0.85[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs10992751	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs10992754	0.86[AFR][1000 genomes];0.86[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs10992756	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs10992757	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs10992759	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs10992768	0.88[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs10992770	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs10992772	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10992779	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10992780	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10992781	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10992790	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs10992792	0.84[EUR][1000 genomes]
rs11790060	0.88[AMR][1000 genomes]
rs11790449	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs11791374	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs12376738	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs12377399	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs12377707	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs12380167	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs13285064	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs13294381	0.83[EUR][1000 genomes]
rs1412050	0.88[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs1556416	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs16909199	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs2150749	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs2183760	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs2297376	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs34866682	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs34883241	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs36016074	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs3813387	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs3813388	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs4307405	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs4743922	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs4743924	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs4743928	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs4744240	0.86[AMR][1000 genomes]
rs4744242	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs4744247	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs4744249	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs4744250	0.88[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs4744253	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs4744254	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7864396	0.83[AFR][1000 genomes]
rs7869969	0.88[AMR][1000 genomes]
rs882851	0.88[AMR][1000 genomes];0.88[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	nsv1041803	chr9:96299639-96342013	Flanking Active TSS Weak transcription Strong transcription Active TSS Enhancers Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
2	nsv824984	chr9:96310933-96375022	Flanking Active TSS Weak transcription Enhancers Strong transcription Genic enhancers Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	18 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:126 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:96307600-96329000	Weak transcription	Right Atrium	heart
2	chr9:96312600-96329000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
3	chr9:96320400-96328400	Weak transcription	Fetal Heart	heart
4	chr9:96321200-96328800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
5	chr9:96322400-96329000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
6	chr9:96324800-96328600	Weak transcription	Stomach Mucosa	stomach
7	chr9:96325000-96328800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
8	chr9:96325000-96329000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
9	chr9:96325600-96329000	Weak transcription	Small Intestine	intestine
10	chr9:96325800-96328400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
11	chr9:96325800-96328600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
12	chr9:96326000-96328400	Weak transcription	Primary B cells from cord blood	blood
13	chr9:96326000-96328600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
14	chr9:96326000-96328600	Weak transcription	H1 Cell Line	embryonic stem cell
15	chr9:96326000-96329000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
16	chr9:96326200-96328400	Weak transcription	Fetal Kidney	kidney
17	chr9:96326200-96328600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
18	chr9:96326200-96328600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
19	chr9:96326200-96328600	Weak transcription	Brain Germinal Matrix	brain
20	chr9:96326200-96328600	Weak transcription	Pancreatic Islets	Pancreatic Islet
21	chr9:96326200-96329000	Weak transcription	Pancreas	Pancrea
22	chr9:96326400-96328400	Weak transcription	HMEC	breast
23	chr9:96326400-96328600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
24	chr9:96326400-96328600	Weak transcription	HSMMtube	muscle
25	chr9:96326400-96329000	Weak transcription	Brain Angular Gyrus	brain
26	chr9:96326600-96328600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
27	chr9:96326600-96328600	Weak transcription	Primary B cells from peripheral blood	blood
28	chr9:96326600-96328600	Weak transcription	Fetal Brain Male	brain
29	chr9:96326600-96328600	Weak transcription	Fetal Lung	lung
30	chr9:96326600-96328600	Weak transcription	HepG2	liver
31	chr9:96326600-96328600	Weak transcription	NH-A	brain
32	chr9:96326600-96329000	Weak transcription	Colon Smooth Muscle	Colon
33	chr9:96326600-96329000	Weak transcription	NHDF-Ad	bronchial
34	chr9:96326800-96328400	Weak transcription	Primary T cells from cord blood	blood
35	chr9:96326800-96328400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
36	chr9:96326800-96328400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
37	chr9:96326800-96328400	Weak transcription	Fetal Stomach	stomach
38	chr9:96326800-96328400	Weak transcription	A549	lung
39	chr9:96326800-96328600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
40	chr9:96326800-96328600	Weak transcription	Primary T cells fromperipheralblood	blood
41	chr9:96326800-96328600	Weak transcription	Muscle Satellite Cultured Cells	--
42	chr9:96326800-96328600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
43	chr9:96326800-96328600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
44	chr9:96326800-96328600	Weak transcription	Brain Inferior Temporal Lobe	brain
45	chr9:96326800-96328600	Weak transcription	Skeletal Muscle Male	skeletal muscle
46	chr9:96326800-96328600	Weak transcription	Thymus	Thymus
47	chr9:96326800-96328600	Weak transcription	K562	blood
48	chr9:96326800-96328600	Weak transcription	NHLF	lung
49	chr9:96326800-96328800	Weak transcription	H9 Cell Line	embryonic stem cell
50	chr9:96326800-96328800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links