Variant report

Variant	rs13028464
Chromosome Location	chr2:178121005-178121006
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:9)
CpG islands
(count:0)
Chromatin interactive
region (count:3)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:9 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr2:178116790-178124433	HepG2	liver:	n/a	n/a
2	POLR2A	chr2:178120823-178121830	GM12878	blood:	n/a	n/a
3	POLR2A	chr2:178120842-178121188	HepG2	liver:	n/a	n/a
4	POLR2A	chr2:178120879-178123272	HepG2	liver:	n/a	n/a
5	POLR2A	chr2:178120787-178122143	IMR90	lung:	n/a	n/a
6	POLR2A	chr2:178120889-178121012	ProgFib	skin:	n/a	n/a
7	POLR2A	chr2:178120886-178123782	K562	blood:	n/a	n/a
8	POLR2A	chr2:178118560-178123274	A549	lung:	n/a	n/a
9	POLR2A	chr2:178120664-178123302	HepG2	liver:	n/a	n/a

No data

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

No.	Distal block	Cell Line	Cell type
1	chr2:178027758..178037377-chr2:178117808..178124193,11	K562	blood:
2	chr2:178025635..178032947-chr2:178118593..178131370,24	K562	blood:
3	chr2:178120960..178123424-chr2:178188023..178191497,3	K562	blood:

No data

Variant related genes	Relation type
MIR3128	TF binding region
ENSG00000236501	Chromatin interaction

Extended variants
information (count: 12 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:12)

rs_ID	r²[population]
rs10183914	0.84[EUR][1000 genomes]
rs13001694	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13005431	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17524059	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs17581525	0.89[EUR][1000 genomes]
rs17647588	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs34468415	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs34551701	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs35284526	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35440573	0.87[EUR][1000 genomes]
rs36030784	0.81[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs62173695	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes]

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:178078600-178121400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr2:178107200-178126000	Weak transcription	Brain Germinal Matrix	brain
3	chr2:178107800-178123000	Enhancers	Psoas Muscle	Psoas
4	chr2:178108200-178122600	Enhancers	Adipose Nuclei	Adipose
5	chr2:178113400-178126600	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
6	chr2:178114600-178125800	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
7	chr2:178114600-178126000	Enhancers	Primary T helper naive cells from peripheral blood	blood
8	chr2:178114800-178121400	Genic enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
9	chr2:178114800-178122600	Enhancers	Brain Hippocampus Middle	brain
10	chr2:178114800-178123200	Enhancers	Primary T killer naive cells fromperipheralblood	blood
11	chr2:178114800-178123400	Enhancers	Stomach Mucosa	stomach
12	chr2:178115000-178123600	Enhancers	Duodenum Smooth Muscle	Duodenum
13	chr2:178115600-178121800	Enhancers	Primary T helper naive cells fromperipheralblood	blood
14	chr2:178116400-178122800	Enhancers	Fetal Intestine Large	intestine
15	chr2:178116600-178121200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
16	chr2:178116600-178121600	Enhancers	Fetal Intestine Small	intestine
17	chr2:178117200-178122800	Enhancers	Fetal Heart	heart
18	chr2:178117800-178122200	Genic enhancers	Hela-S3	cervix
19	chr2:178117800-178122400	Enhancers	Rectal Mucosa Donor 31	rectum
20	chr2:178117800-178124800	Enhancers	Primary T killer memory cells from peripheral blood	blood
21	chr2:178118000-178121600	Weak transcription	Fetal Lung	lung
22	chr2:178118200-178121200	Genic enhancers	Monocytes-CD14+_RO01746	blood
23	chr2:178118200-178123200	Enhancers	Primary neutrophils fromperipheralblood	blood
24	chr2:178118600-178121800	Genic enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
25	chr2:178118600-178122000	Enhancers	Brain Inferior Temporal Lobe	brain
26	chr2:178118800-178121800	Genic enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
27	chr2:178118800-178121800	Genic enhancers	Primary mononuclear cells fromperipheralblood	Blood
28	chr2:178118800-178122400	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
29	chr2:178118800-178122600	Genic enhancers	Primary T cells fromperipheralblood	blood
30	chr2:178118800-178122600	Enhancers	Small Intestine	intestine
31	chr2:178119000-178121200	Enhancers	ES-I3 Cell Line	embryonic stem cell
32	chr2:178119000-178121600	Enhancers	HUES6 Cell Line	embryonic stem cell
33	chr2:178119000-178121600	Enhancers	iPS-20b Cell Line	embryonic stem cell
34	chr2:178119000-178122000	Enhancers	iPS-15b Cell Line	embryonic stem cell
35	chr2:178119200-178121800	Genic enhancers	Fetal Muscle Leg	muscle
36	chr2:178119200-178122600	Enhancers	Right Ventricle	heart
37	chr2:178119400-178121200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
38	chr2:178119400-178121200	Enhancers	Brain Angular Gyrus	brain
39	chr2:178119400-178121400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
40	chr2:178119400-178121400	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
41	chr2:178119400-178121600	Enhancers	Primary T regulatory cells fromperipheralblood	blood
42	chr2:178119400-178122000	Genic enhancers	Muscle Satellite Cultured Cells	--
43	chr2:178119400-178122200	Genic enhancers	Primary hematopoietic stem cells short term culture	blood
44	chr2:178119400-178122600	Enhancers	Pancreas	Pancrea
45	chr2:178119400-178126000	Enhancers	Primary T helper cells fromperipheralblood	blood
46	chr2:178119400-178127800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
47	chr2:178119600-178121400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
48	chr2:178119600-178121400	Enhancers	Liver	Liver
49	chr2:178119600-178121400	Enhancers	Skeletal Muscle Female	skeletal muscle
50	chr2:178119600-178122200	Enhancers	HUVEC	blood vessel

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links