Variant report

Variant	rs12158002
Chromosome Location	chr22:32057964-32057965
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:14)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:14 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	22:32053085-32061138..22:32150875-32154575	GM12878	blood:
2	chr22:32024471..32026480-chr22:32056771..32058290,2	MCF-7	breast:
3	22:32053085-32061138..22:32284948-32287956	Hela-S3	cervix:
4	chr22:32022238..32024391-chr22:32055761..32058273,2	MCF-7	breast:
5	22:32053085-32061138..22:32347255-32351014	GM12878	blood:
6	chr22:32057033..32060064-chr22:32338919..32341534,3	MCF-7	breast:
7	chr22:32056284..32058646-chr22:32144248..32146954,2	MCF-7	breast:
8	chr22:32054689..32061174-chr22:32339137..32344183,9	K562	blood:
9	22:31936958-31958600..22:32053085-32061138	Hela-S3	cervix:
10	chr22:32056716..32060506-chr22:32341976..32344669,4	MCF-7	breast:
11	chr22:31974704..31977587-chr22:32057867..32059822,2	MCF-7	breast:
12	chr22:32057870..32058631-chr5:177659389..177660070,2	HCT-116	colon:
13	chr22:32055976..32060358-chr22:32339389..32343294,9	K562	blood:
14	chr22:32026032..32028190-chr22:32055546..32059195,4	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000214093	Chromatin interaction
ENSG00000128245	Chromatin interaction
ENSG00000128254	Chromatin interaction
ENSG00000227813	Chromatin interaction
ENSG00000241878	Chromatin interaction
ENSG00000198089	Chromatin interaction
ENSG00000175309	Chromatin interaction
ENSG00000238910	Chromatin interaction
ENSG00000183530	Chromatin interaction
ENSG00000242251	Chromatin interaction

Extended variants
information (count: 85 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:84)

rs_ID	r²[population]
rs1013703	1.00[CHB][hapmap]
rs1076674	1.00[CHB][hapmap];0.86[AMR][1000 genomes]
rs11703040	1.00[CHB][hapmap]
rs11703079	1.00[CEU][hapmap];1.00[CHB][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]
rs11703102	1.00[CHB][hapmap];0.94[AMR][1000 genomes]
rs11703104	1.00[CHB][hapmap]
rs11703232	1.00[CHB][hapmap]
rs11703275	1.00[CHB][hapmap]
rs11703798	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11704129	1.00[CHB][hapmap]
rs11705235	1.00[CHB][hapmap];0.88[EUR][1000 genomes]
rs11705329	1.00[CHB][hapmap]
rs12157427	0.85[AMR][1000 genomes]
rs12159673	1.00[CHB][hapmap]
rs12160120	1.00[CHB][hapmap];0.83[AMR][1000 genomes]
rs12160737	0.85[AMR][1000 genomes]
rs12166848	0.86[AMR][1000 genomes]
rs12171217	0.82[YRI][hapmap]
rs131222	0.83[AMR][1000 genomes]
rs131224	0.83[AMR][1000 genomes]
rs131226	0.82[AMR][1000 genomes]
rs131228	1.00[CHB][hapmap];0.82[AMR][1000 genomes]
rs131235	1.00[CHB][hapmap];0.85[AMR][1000 genomes]
rs131237	1.00[CHB][hapmap];0.85[AMR][1000 genomes]
rs131243	1.00[CHB][hapmap]
rs131246	1.00[CHB][hapmap]
rs131252	1.00[CHB][hapmap]
rs131254	1.00[CHB][hapmap]
rs140079	1.00[CHB][hapmap];0.83[AMR][1000 genomes]
rs16989347	0.91[YRI][hapmap]
rs16989374	1.00[CEU][hapmap];1.00[CHB][hapmap];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16989529	1.00[CHB][hapmap]
rs2040981	1.00[CHB][hapmap]
rs28374732	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs3804088	1.00[CHB][hapmap];0.85[AMR][1000 genomes]
rs56406828	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs5753753	0.85[AMR][1000 genomes]
rs5994417	1.00[CEU][hapmap];1.00[CHB][hapmap];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs5994424	0.81[AMR][1000 genomes]
rs5998063	0.87[AMR][1000 genomes]
rs5998064	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs5998065	0.85[AFR][1000 genomes];0.98[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs5998066	1.00[CHB][hapmap];0.94[AMR][1000 genomes]
rs5998068	1.00[CHB][hapmap];0.94[AMR][1000 genomes]
rs5998070	0.94[AMR][1000 genomes]
rs5998071	0.94[AMR][1000 genomes]
rs5998079	1.00[CHB][hapmap];0.85[AMR][1000 genomes]
rs5998080	1.00[CHB][hapmap];0.86[AMR][1000 genomes]
rs5998081	0.85[AMR][1000 genomes]
rs5998082	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs5998084	0.85[AMR][1000 genomes]
rs5998085	1.00[CHB][hapmap];0.83[AMR][1000 genomes]
rs5998089	0.85[AMR][1000 genomes]
rs5998091	0.83[AMR][1000 genomes]
rs5998093	0.83[AMR][1000 genomes]
rs5998095	0.85[AMR][1000 genomes]
rs5998098	1.00[CHB][hapmap];0.88[AMR][1000 genomes]
rs5998099	1.00[CHB][hapmap];0.87[AMR][1000 genomes]
rs5998114	1.00[CHB][hapmap]
rs5998133	1.00[CHB][hapmap]
rs5998134	1.00[CHB][hapmap]
rs5998135	1.00[CHB][hapmap]
rs60209974	0.84[AMR][1000 genomes]
rs60669705	0.86[AMR][1000 genomes]
rs62239167	0.94[AMR][1000 genomes]
rs62239185	0.82[AMR][1000 genomes]
rs62239186	0.85[AMR][1000 genomes]
rs62239187	0.86[AMR][1000 genomes]
rs62239188	0.87[AMR][1000 genomes]
rs62240684	0.85[AMR][1000 genomes]
rs62240686	0.81[AMR][1000 genomes]
rs62240687	0.81[AMR][1000 genomes]
rs7289259	1.00[CHB][hapmap]
rs740227	0.81[AMR][1000 genomes]
rs8136047	1.00[CHB][hapmap];0.86[AMR][1000 genomes]
rs8141719	1.00[CHB][hapmap];0.85[AMR][1000 genomes]
rs8143084	0.85[AMR][1000 genomes]
rs81946	0.82[AMR][1000 genomes]
rs9619218	0.91[YRI][hapmap]
rs9619221	0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9619222	0.86[AMR][1000 genomes]
rs9619224	1.00[CHB][hapmap];0.88[AMR][1000 genomes]
rs9621307	0.94[AMR][1000 genomes]
rs9621316	0.86[AMR][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	esv2830290	chr22:32011225-32057964	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	33 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:127 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr22:32056600-32058400	Active TSS	GM12878-XiMat	blood
2	chr22:32056600-32058800	Active TSS	NHLF	lung
3	chr22:32056800-32058600	Active TSS	iPS DF 19.11 Cell Line	embryonic stem cell
4	chr22:32056800-32058600	Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
5	chr22:32056800-32058600	Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
6	chr22:32056800-32058600	Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
7	chr22:32056800-32058600	Active TSS	HMEC	breast
8	chr22:32056800-32058600	Active TSS	NHEK	skin
9	chr22:32056800-32058800	Active TSS	Esophagus	oesophagus
10	chr22:32056800-32058800	Flanking Active TSS	Skeletal Muscle Female	skeletal muscle
11	chr22:32056800-32058800	Active TSS	HSMM	muscle
12	chr22:32056800-32059000	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
13	chr22:32057000-32058000	Flanking Active TSS	Primary hematopoietic stem cells short term culture	blood
14	chr22:32057000-32058000	Flanking Active TSS	Primary T regulatory cells fromperipheralblood	blood
15	chr22:32057000-32058000	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
16	chr22:32057000-32058000	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
17	chr22:32057000-32058000	Flanking Active TSS	Cortex derived primary cultured neurospheres	brain
18	chr22:32057000-32058000	Flanking Active TSS	Liver	Liver
19	chr22:32057000-32058000	Flanking Active TSS	Stomach Smooth Muscle	stomach
20	chr22:32057000-32058000	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
21	chr22:32057000-32058400	Active TSS	iPS-18 Cell Line	embryonic stem cell
22	chr22:32057000-32058400	Active TSS	NHDF-Ad	bronchial
23	chr22:32057000-32058600	Active TSS	H9 Cell Line	embryonic stem cell
24	chr22:32057000-32058600	Active TSS	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
25	chr22:32057000-32058600	Active TSS	Stomach Mucosa	stomach
26	chr22:32057000-32058800	Active TSS	ES-I3 Cell Line	embryonic stem cell
27	chr22:32057000-32058800	Active TSS	ES-WA7 Cell Line	embryonic stem cell
28	chr22:32057000-32058800	Active TSS	HUES48 Cell Line	embryonic stem cell
29	chr22:32057000-32058800	Active TSS	HUES64 Cell Line	embryonic stem cell
30	chr22:32057000-32058800	Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
31	chr22:32057000-32058800	Active TSS	Fetal Kidney	kidney
32	chr22:32057000-32058800	Active TSS	Pancreatic Islets	Pancreatic Islet
33	chr22:32057000-32059000	Active TSS	HUES6 Cell Line	embryonic stem cell
34	chr22:32057000-32059000	Active TSS	iPS-15b Cell Line	embryonic stem cell
35	chr22:32057000-32059000	Active TSS	iPS-20b Cell Line	embryonic stem cell
36	chr22:32057000-32059000	Flanking Active TSS	Adipose Nuclei	Adipose
37	chr22:32057200-32058000	Flanking Active TSS	Primary B cells from cord blood	blood
38	chr22:32057200-32058000	Flanking Active TSS	Primary T cells from cord blood	blood
39	chr22:32057200-32058000	Flanking Active TSS	Primary T cells fromperipheralblood	blood
40	chr22:32057200-32058000	Flanking Active TSS	Primary hematopoietic stem cells	blood
41	chr22:32057200-32058000	Flanking Active TSS	Primary T helper memory cells from peripheral blood 1	blood
42	chr22:32057200-32058000	Flanking Active TSS	Primary T helper cells fromperipheralblood	blood
43	chr22:32057200-32058000	Flanking Active TSS	Primary T cells effector/memory enriched fromperipheralblood	blood
44	chr22:32057200-32058000	Flanking Active TSS	Thymus	Thymus
45	chr22:32057200-32058400	Active TSS	H1 Cell Line	embryonic stem cell
46	chr22:32057200-32058800	Active TSS	iPS DF 6.9 Cell Line	embryonic stem cell
47	chr22:32057200-32058800	Flanking Active TSS	Primary mononuclear cells fromperipheralblood	Blood
48	chr22:32057200-32058800	Active TSS	A549	lung
49	chr22:32057200-32059000	Flanking Active TSS	Primary neutrophils fromperipheralblood	blood
50	chr22:32057200-32059000	Bivalent/Poised TSS	HepG2	liver

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links