Variant report

Variant	rs12059789
Chromosome Location	chr1:175146381-175146382
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr1:175145820..175147499-chr1:175149198..175150741,2	K562	blood:
2	chr1:174967921..174970641-chr1:175144834..175147291,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000116161	Chromatin interaction

Extended variants
information (count: 5 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:3)

rs_ID	r²[population]
rs12084117	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6683120	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9970575	1.00[EUR][1000 genomes];1.00[ASN][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	nsv522101	chr1:175109517-175151183	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
2	nsv528874	chr1:175140319-175151183	Strong transcription Weak transcription Enhancers Genic enhancers Active TSS Flanking Active TSS ZNF genes & repeats	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:76 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:175126800-175148800	Strong transcription	Primary monocytes fromperipheralblood	blood
2	chr1:175127000-175148400	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
3	chr1:175127200-175147800	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
4	chr1:175127400-175149400	Strong transcription	Monocytes-CD14+_RO01746	blood
5	chr1:175129200-175159600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
6	chr1:175130200-175152600	Weak transcription	HUES48 Cell Line	embryonic stem cell
7	chr1:175135000-175152600	Weak transcription	Aorta	Aorta
8	chr1:175135000-175158400	Weak transcription	Rectal Smooth Muscle	rectum
9	chr1:175136000-175151600	Weak transcription	Fetal Stomach	stomach
10	chr1:175136000-175157600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
11	chr1:175136200-175146800	Weak transcription	Placenta Amnion	Placenta Amnion
12	chr1:175138000-175148000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
13	chr1:175139400-175148400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
14	chr1:175140200-175146600	Strong transcription	Primary neutrophils fromperipheralblood	blood
15	chr1:175140200-175147800	Strong transcription	Liver	Liver
16	chr1:175140600-175147200	Weak transcription	Gastric	stomach
17	chr1:175140800-175148200	Weak transcription	Esophagus	oesophagus
18	chr1:175140800-175149200	Weak transcription	Small Intestine	intestine
19	chr1:175141000-175160200	Weak transcription	HUVEC	blood vessel
20	chr1:175141400-175158400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
21	chr1:175141600-175147800	Strong transcription	Adipose Nuclei	Adipose
22	chr1:175141600-175149200	Strong transcription	Primary T cells from cord blood	blood
23	chr1:175142800-175149000	Weak transcription	Psoas Muscle	Psoas
24	chr1:175143000-175160800	Weak transcription	Fetal Muscle Trunk	muscle
25	chr1:175143600-175158000	Weak transcription	Rectal Mucosa Donor 31	rectum
26	chr1:175143800-175146800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
27	chr1:175144000-175151000	Weak transcription	K562	blood
28	chr1:175144200-175147800	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
29	chr1:175144200-175148600	Strong transcription	Primary B cells from cord blood	blood
30	chr1:175144400-175148800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
31	chr1:175144800-175146800	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
32	chr1:175144800-175147200	Strong transcription	Primary T cells fromperipheralblood	blood
33	chr1:175144800-175147800	Strong transcription	Primary T helper cells PMA-I stimulated	--
34	chr1:175145000-175146400	Strong transcription	Primary T helper cells fromperipheralblood	blood
35	chr1:175145000-175147000	Strong transcription	Fetal Thymus	thymus
36	chr1:175145000-175147400	Strong transcription	NHEK	skin
37	chr1:175145000-175148400	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
38	chr1:175145200-175146600	Strong transcription	Duodenum Smooth Muscle	Duodenum
39	chr1:175145200-175146800	Strong transcription	Skeletal Muscle Male	skeletal muscle
40	chr1:175145200-175147000	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
41	chr1:175145200-175147000	Strong transcription	Duodenum Mucosa	Duodenum
42	chr1:175145200-175147200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
43	chr1:175145200-175147400	Genic enhancers	Placenta	Placenta
44	chr1:175145200-175147400	Strong transcription	Skeletal Muscle Female	skeletal muscle
45	chr1:175145400-175146600	Strong transcription	Ovary	ovary
46	chr1:175145400-175147000	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
47	chr1:175145400-175147000	Strong transcription	Fetal Muscle Leg	muscle
48	chr1:175145400-175147400	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
49	chr1:175145400-175148000	Strong transcription	Primary hematopoietic stem cells	blood
50	chr1:175145400-175148000	Strong transcription	Rectal Mucosa Donor 29	rectum

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links