Variant report

Variant	rs1629023
Chromosome Location	chr3:59746073-59746074
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 12 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs13313901	0.85[CHD][hapmap];0.81[ASN][1000 genomes]
rs1349019	0.93[EUR][1000 genomes]
rs1385716	1.00[CEU][hapmap];0.84[GIH][hapmap];1.00[TSI][hapmap];0.94[EUR][1000 genomes]
rs1666065	0.95[EUR][1000 genomes]
rs1666066	0.89[AFR][1000 genomes];0.95[EUR][1000 genomes]
rs1683346	0.82[ASW][hapmap];1.00[CEU][hapmap];0.98[GIH][hapmap];0.92[JPT][hapmap];0.95[MEX][hapmap];0.92[MKK][hapmap];0.97[TSI][hapmap];0.83[YRI][hapmap];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1683347	0.80[ASN][1000 genomes]
rs2605437	0.94[EUR][1000 genomes]
rs9826481	0.88[ASN][1000 genomes]
rs993000	0.84[CHB][hapmap];0.82[ASN][1000 genomes]
rs994928	0.89[AFR][1000 genomes];0.93[EUR][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	nsv1014601	chr3:59666609-59888166	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh	Chromatin interactive region lncRNA miRNA target site	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs1629023	FHIT	cis	cerebellum	SCAN

Chromatin state (count:31 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:59738200-59747000	Enhancers	Primary T cells from cord blood	blood
2	chr3:59738400-59749000	Enhancers	Primary T helper cells PMA-I stimulated	--
3	chr3:59738400-59749200	Enhancers	Primary T helper cells fromperipheralblood	blood
4	chr3:59738800-59754400	Enhancers	Primary T helper naive cells fromperipheralblood	blood
5	chr3:59739000-59747200	Enhancers	Primary T helper naive cells from peripheral blood	blood
6	chr3:59740000-59749000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
7	chr3:59741400-59746600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
8	chr3:59741600-59757800	Weak transcription	Sigmoid Colon	Sigmoid Colon
9	chr3:59743200-59747000	Enhancers	Primary T killer memory cells from peripheral blood	blood
10	chr3:59743400-59748400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
11	chr3:59743400-59750200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
12	chr3:59744400-59746200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
13	chr3:59744400-59746800	Enhancers	Fetal Thymus	thymus
14	chr3:59744600-59746200	Enhancers	Breast Myoepithelial Primary Cells	Breast
15	chr3:59744600-59746400	Enhancers	Stomach Mucosa	stomach
16	chr3:59745000-59746200	Enhancers	Fetal Intestine Small	intestine
17	chr3:59745000-59746200	Weak transcription	Thymus	Thymus
18	chr3:59745000-59746200	Enhancers	HepG2	liver
19	chr3:59745000-59748800	Weak transcription	NHDF-Ad	bronchial
20	chr3:59745200-59746800	Enhancers	Primary T killer naive cells fromperipheralblood	blood
21	chr3:59745200-59757000	Weak transcription	Dnd41	blood
22	chr3:59745400-59751200	Weak transcription	Osteobl	bone
23	chr3:59745600-59746400	Weak transcription	Primary T cells fromperipheralblood	blood
24	chr3:59745600-59747800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
25	chr3:59745600-59748000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
26	chr3:59745600-59748400	Weak transcription	Fetal Muscle Leg	muscle
27	chr3:59745600-59751200	Weak transcription	Fetal Lung	lung
28	chr3:59745600-59752200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
29	chr3:59745800-59748200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
30	chr3:59746000-59746400	Enhancers	ES-I3 Cell Line	embryonic stem cell
31	chr3:59746000-59746800	Enhancers	HUES64 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links