Variant report

Variant	rs2078634
Chromosome Location	chr4:190858485-190858486
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-FRG2-2	chr4:190858352-190858488	ENSG00000245685
2	lnc-FRG2-2	chr4:190858352-190858488	ENSG00000245685
3	lnc-FRG2-2	chr4:190858352-190858488	ENSG00000245685
4	lnc-FRG2-2	chr4:190858352-190858488	NONHSAT099804

Extended variants
information (count: 35 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:35)

rs_ID	r²[population]
rs10001956	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11132770	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11132771	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11736363	0.82[AFR][1000 genomes];0.86[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs11736387	0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12641802	0.95[CEU][hapmap];0.86[CHB][hapmap];0.93[JPT][hapmap]
rs12646565	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12646667	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12646672	0.82[EUR][1000 genomes]
rs12649488	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12649515	0.82[EUR][1000 genomes]
rs13121836	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs13121986	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs13133725	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs13133958	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs13140896	0.85[AFR][1000 genomes]
rs13148101	0.83[EUR][1000 genomes]
rs1961818	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2037947	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2037948	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2411549	0.84[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4145515	0.89[AFR][1000 genomes];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4145516	0.86[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs4145517	0.89[AFR][1000 genomes];0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6553396	0.91[AFR][1000 genomes];0.85[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6816856	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6820684	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6837422	0.94[AFR][1000 genomes];0.81[AMR][1000 genomes];0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7657916	0.89[EUR][1000 genomes]
rs7658339	0.88[EUR][1000 genomes]
rs7668489	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7675870	0.80[EUR][1000 genomes]
rs7691161	0.84[EUR][1000 genomes]
rs9992042	0.86[EUR][1000 genomes]
rs9996679	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs2078634	AF146191.4	cis	Esophagus Muscularis	GTEx
rs2078634	AF146191.4	cis	Thyroid	GTEx

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:190847600-190860800	Weak transcription	Pancreas	Pancrea
2	chr4:190852200-190861200	Weak transcription	Fetal Intestine Large	intestine
3	chr4:190852400-190860800	Weak transcription	Skeletal Muscle Female	skeletal muscle
4	chr4:190856200-190861200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
5	chr4:190857600-190858600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
6	chr4:190857800-190860800	Weak transcription	Left Ventricle	heart
7	chr4:190857800-190861000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
8	chr4:190858000-190861200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
9	chr4:190858400-190860800	Weak transcription	Colon Smooth Muscle	Colon
10	chr4:190858400-190860800	Weak transcription	Gastric	stomach

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