Variant report

Variant	rs7513178
Chromosome Location	chr1:56930449-56930450
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 33 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:32)

rs_ID	r²[population]
rs10888971	0.86[ASN][1000 genomes]
rs10888972	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11206815	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1261410	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1261412	1.00[CHB][hapmap]
rs1271160	0.92[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs1319274	1.00[CHB][hapmap]
rs1361823	1.00[CHB][hapmap]
rs17407790	1.00[CHB][hapmap]
rs1777276	1.00[CHB][hapmap]
rs1815487	0.82[ASN][1000 genomes]
rs1889145	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1964940	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2184104	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs2780292	0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4912286	0.83[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6421497	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6588633	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6588634	0.82[ASN][1000 genomes]
rs6588635	0.82[ASN][1000 genomes]
rs6670090	0.86[ASN][1000 genomes]
rs6684929	0.92[EUR][1000 genomes]
rs6687307	0.90[EUR][1000 genomes]
rs6693179	0.92[EUR][1000 genomes]
rs6698602	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7365290	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7365293	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7368386	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7513411	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7525346	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7527084	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7535319	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][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	nsv869295	chr1:56894955-57656562	Weak transcription Strong transcription Genic enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs7513178	ZYG11B	cis	cerebellum	SCAN

Chromatin state (count:17 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:56905400-56942600	Weak transcription	Gastric	stomach
2	chr1:56913800-56943200	Weak transcription	Aorta	Aorta
3	chr1:56915200-56935800	Weak transcription	NHLF	lung
4	chr1:56919800-56934200	Weak transcription	Fetal Stomach	stomach
5	chr1:56922800-56934200	Weak transcription	Fetal Muscle Leg	muscle
6	chr1:56924000-56934200	Weak transcription	Right Atrium	heart
7	chr1:56924200-56931800	Weak transcription	Left Ventricle	heart
8	chr1:56924200-56942800	Weak transcription	Right Ventricle	heart
9	chr1:56926800-56939000	Weak transcription	Esophagus	oesophagus
10	chr1:56927800-56930800	Weak transcription	Fetal Intestine Small	intestine
11	chr1:56927800-56931800	Weak transcription	Liver	Liver
12	chr1:56929200-56935800	Weak transcription	HepG2	liver
13	chr1:56929400-56942400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
14	chr1:56929800-56931400	Enhancers	Stomach Mucosa	stomach
15	chr1:56930000-56931400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
16	chr1:56930400-56934200	Weak transcription	NHDF-Ad	bronchial
17	chr1:56930400-56935600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links