Variant report

Variant	rs1444600
Chromosome Location	chr3:133288506-133288507
allele	A/G
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:7)
LncRNA
region (count:1)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:7 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr3:133285334..133290041-chr3:133290312..133295358,10	MCF-7	breast:
2	chr3:133287190..133289166-chr3:133290175..133292220,2	K562	blood:
3	chr3:133286764..133288801-chr3:133292241..133294020,2	K562	blood:
4	chr3:133169398..133190840-chr3:133288286..133298861,41	MCF-7	breast:
5	chr3:133180154..133181710-chr3:133287523..133290190,2	MCF-7	breast:
6	chr3:133267011..133268726-chr3:133286807..133288849,2	MCF-7	breast:
7	chr3:133283859..133285638-chr3:133287475..133289524,2	K562	blood:

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

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-CDV3-1	chr3:133288236-133288814	NONHSAT092191

No data

Variant related genes	Relation type
ENSG00000249993	Chromatin interaction
ENSG00000091527	Chromatin interaction

Extended variants
information (count: 25 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:25)

rs_ID	r²[population]
rs10433415	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.95[MEX][hapmap];0.96[MKK][hapmap];0.97[TSI][hapmap];0.92[YRI][hapmap];0.98[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10935068	0.95[ASN][1000 genomes]
rs13091585	0.96[ASN][1000 genomes]
rs1382701	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1842155	0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1867506	0.83[ASN][1000 genomes]
rs2002016	0.95[ASN][1000 genomes]
rs35318210	0.89[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3860498	0.93[JPT][hapmap]
rs4017074	1.00[CHB][hapmap];0.86[CHD][hapmap];0.87[GIH][hapmap];0.93[JPT][hapmap];0.94[ASN][1000 genomes]
rs4527377	0.89[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4854723	0.91[ASN][1000 genomes]
rs4854724	0.92[ASN][1000 genomes]
rs4854727	0.86[CHD][hapmap];0.87[GIH][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs4854729	0.83[ASN][1000 genomes]
rs4854732	0.97[ASN][1000 genomes]
rs4854733	1.00[CEU][hapmap];0.89[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap];0.97[TSI][hapmap];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6763627	0.94[ASN][1000 genomes]
rs6773777	0.94[ASN][1000 genomes]
rs6773891	0.94[ASN][1000 genomes]
rs6778062	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6785365	0.94[ASN][1000 genomes]
rs6809513	0.94[ASN][1000 genomes]
rs7614812	0.96[ASN][1000 genomes]
rs872134	0.82[CEU][hapmap];1.00[CHB][hapmap];0.93[CHD][hapmap];0.93[JPT][hapmap];0.96[ASN][1000 genomes]

No data

Chromatin state (count:63 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:133280800-133290600	Weak transcription	Primary hematopoietic stem cells	blood
2	chr3:133285000-133289200	Weak transcription	Lung	lung
3	chr3:133285000-133291600	Weak transcription	Stomach Smooth Muscle	stomach
4	chr3:133285200-133289600	Enhancers	Primary B cells from peripheral blood	blood
5	chr3:133286600-133290000	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
6	chr3:133286600-133290400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
7	chr3:133286600-133291800	Enhancers	HMEC	breast
8	chr3:133286800-133288600	Flanking Active TSS	A549	lung
9	chr3:133286800-133288800	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
10	chr3:133286800-133288800	Enhancers	HUVEC	blood vessel
11	chr3:133286800-133289600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
12	chr3:133286800-133290200	Enhancers	NHDF-Ad	bronchial
13	chr3:133286800-133290200	Enhancers	NHEK	skin
14	chr3:133286800-133291600	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
15	chr3:133287000-133288600	Weak transcription	Primary B cells from cord blood	blood
16	chr3:133287000-133289400	Enhancers	ES-I3 Cell Line	embryonic stem cell
17	chr3:133287000-133289800	Enhancers	Placenta Amnion	Placenta Amnion
18	chr3:133287000-133290000	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
19	chr3:133287000-133290200	Enhancers	Placenta	Placenta
20	chr3:133287000-133290200	Enhancers	NHLF	lung
21	chr3:133287000-133291800	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
22	chr3:133287000-133291800	Enhancers	HSMMtube	muscle
23	chr3:133287200-133289000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
24	chr3:133287200-133290000	Enhancers	Stomach Mucosa	stomach
25	chr3:133287200-133290200	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
26	chr3:133287400-133289000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
27	chr3:133287400-133289400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
28	chr3:133287400-133290000	Enhancers	Aorta	Aorta
29	chr3:133287400-133290000	Enhancers	HepG2	liver
30	chr3:133287400-133290800	Enhancers	Monocytes-CD14+_RO01746	blood
31	chr3:133287400-133291000	Enhancers	Primary monocytes fromperipheralblood	blood
32	chr3:133287400-133291200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
33	chr3:133287400-133291600	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
34	chr3:133287600-133288600	Weak transcription	Adipose Nuclei	Adipose
35	chr3:133287600-133288600	Enhancers	NH-A	brain
36	chr3:133287600-133288800	Weak transcription	Thymus	Thymus
37	chr3:133287600-133290200	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
38	chr3:133287600-133290800	Enhancers	Primary hematopoietic stem cells short term culture	blood
39	chr3:133287600-133291000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
40	chr3:133287600-133291000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
41	chr3:133287800-133288600	Weak transcription	Skeletal Muscle Female	skeletal muscle
42	chr3:133287800-133290800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
43	chr3:133287800-133290800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
44	chr3:133287800-133291200	Weak transcription	Duodenum Mucosa	Duodenum
45	chr3:133287800-133291400	Weak transcription	HUES6 Cell Line	embryonic stem cell
46	chr3:133287800-133291600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
47	chr3:133288000-133289000	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
48	chr3:133288000-133289400	Weak transcription	Duodenum Smooth Muscle	Duodenum
49	chr3:133288000-133290000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
50	chr3:133288000-133291000	Weak transcription	Spleen	Spleen

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links