Variant report

Variant	rs1924094
Chromosome Location	chr13:76356557-76356558
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 28 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:24)

rs_ID	r²[population]
rs12427729	1.00[ASW][hapmap];0.90[MEX][hapmap]
rs12428250	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12428617	1.00[CEU][hapmap];0.86[JPT][hapmap];0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12428746	1.00[CEU][hapmap]
rs12429534	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12430034	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs17065053	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs17065074	0.88[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs17065145	0.80[MEX][hapmap]
rs2120061	1.00[ASW][hapmap];0.80[CHD][hapmap];0.86[JPT][hapmap]
rs2241913	0.88[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs3759445	1.00[ASW][hapmap];0.80[CHD][hapmap];0.86[JPT][hapmap]
rs4514560	0.80[TSI][hapmap]
rs4885357	1.00[CEU][hapmap]
rs56030259	0.88[EUR][1000 genomes]
rs58447742	0.81[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs61958154	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs61958155	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs61958156	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs61958157	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs61959560	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs61959561	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs61959624	0.83[AFR][1000 genomes]
rs9544059	1.00[ASW][hapmap];0.85[MEX][hapmap]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv949152	chr13:76211453-76366622	Enhancers Flanking Bivalent TSS/Enh Weak transcription Genic enhancers Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
2	nsv832646	chr13:76300428-76483102	Weak transcription Enhancers Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Strong transcription Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
3	esv2758333	chr13:76321610-76542003	Weak transcription Flanking Active TSS Enhancers Genic enhancers Strong transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
4	esv2759950	chr13:76321610-76542003	Weak transcription Enhancers Active TSS Strong transcription Transcr. at gene 5' and 3' Genic enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:47 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:76323800-76356600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr13:76338000-76356800	Weak transcription	Brain Anterior Caudate	brain
3	chr13:76338000-76362800	Weak transcription	Fetal Stomach	stomach
4	chr13:76338600-76356600	Weak transcription	Left Ventricle	heart
5	chr13:76338800-76371000	Weak transcription	Fetal Thymus	thymus
6	chr13:76340000-76363600	Weak transcription	Thymus	Thymus
7	chr13:76342400-76357800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
8	chr13:76343400-76370800	Weak transcription	Primary T helper cells PMA-I stimulated	--
9	chr13:76344800-76356800	Weak transcription	Fetal Lung	lung
10	chr13:76346800-76361600	Weak transcription	Duodenum Mucosa	Duodenum
11	chr13:76347400-76358000	Weak transcription	Sigmoid Colon	Sigmoid Colon
12	chr13:76347400-76361400	Weak transcription	HMEC	breast
13	chr13:76347800-76356600	Weak transcription	HSMMtube	muscle
14	chr13:76347800-76356800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
15	chr13:76347800-76361400	Weak transcription	Gastric	stomach
16	chr13:76348400-76356600	Weak transcription	Liver	Liver
17	chr13:76349000-76356800	Weak transcription	NHLF	lung
18	chr13:76350000-76371000	Weak transcription	Primary T cells fromperipheralblood	blood
19	chr13:76350200-76358000	Weak transcription	Small Intestine	intestine
20	chr13:76350600-76361200	Weak transcription	Skeletal Muscle Male	skeletal muscle
21	chr13:76351200-76356600	Weak transcription	Pancreatic Islets	Pancreatic Islet
22	chr13:76351400-76356600	Weak transcription	Skeletal Muscle Female	skeletal muscle
23	chr13:76351400-76360200	Weak transcription	Right Ventricle	heart
24	chr13:76351600-76356600	Weak transcription	Muscle Satellite Cultured Cells	--
25	chr13:76351800-76356800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
26	chr13:76352800-76357200	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
27	chr13:76353400-76356600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
28	chr13:76353400-76362800	Weak transcription	Lung	lung
29	chr13:76353400-76370600	Weak transcription	Primary T cells from cord blood	blood
30	chr13:76353800-76356600	Weak transcription	NHDF-Ad	bronchial
31	chr13:76353800-76357200	Weak transcription	HepG2	liver
32	chr13:76353800-76357600	Weak transcription	A549	lung
33	chr13:76354000-76356600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
34	chr13:76354800-76357600	Weak transcription	Fetal Intestine Large	intestine
35	chr13:76354800-76358000	Weak transcription	Rectal Mucosa Donor 31	rectum
36	chr13:76355000-76356600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
37	chr13:76355000-76357600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
38	chr13:76355200-76357400	Weak transcription	Fetal Intestine Small	intestine
39	chr13:76355200-76362400	Weak transcription	Rectal Mucosa Donor 29	rectum
40	chr13:76355600-76356800	Weak transcription	Esophagus	oesophagus
41	chr13:76355600-76370800	Weak transcription	Primary T helper cells fromperipheralblood	blood
42	chr13:76356200-76358000	Strong transcription	HSMM	muscle
43	chr13:76356400-76357000	ZNF genes & repeats	IMR90 fetal lung fibroblasts Cell Line	lung
44	chr13:76356400-76357000	Strong transcription	NH-A	brain
45	chr13:76356400-76357200	ZNF genes & repeats	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
46	chr13:76356400-76357200	Genic enhancers	Hela-S3	cervix
47	chr13:76356400-76358200	Genic enhancers	Osteobl	bone

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links