Variant report

Variant	rs6691856
Chromosome Location	chr1:179628216-179628217
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 59 )
Associated
traits (count: 5 )

rSNPs within LD-proxies of this variant (count:58)

rs_ID	r²[population]
rs10157829	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10494517	0.82[JPT][hapmap]
rs10494518	0.81[JPT][hapmap]
rs10798709	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap]
rs10913846	0.95[CEU][hapmap];0.82[CHB][hapmap];0.89[JPT][hapmap]
rs10913863	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap]
rs11578278	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap]
rs11581272	0.85[EUR][1000 genomes]
rs11585517	0.82[JPT][hapmap]
rs11589161	0.90[JPT][hapmap]
rs11808258	0.81[JPT][hapmap]
rs12021675	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12035247	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[YRI][hapmap];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12042409	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];0.90[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12045588	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12564117	0.89[CEU][hapmap]
rs1410593	0.85[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap]
rs1999068	0.82[ASN][1000 genomes]
rs2209922	0.81[JPT][hapmap]
rs2274622	0.80[JPT][hapmap]
rs3765547	0.81[CHB][hapmap];0.80[JPT][hapmap]
rs4072098	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap]
rs4408116	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap]
rs4474210	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[YRI][hapmap];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4520380	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4651045	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap]
rs4652406	0.82[JPT][hapmap]
rs4652412	0.82[JPT][hapmap]
rs4652429	0.83[JPT][hapmap]
rs4652432	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap]
rs4652433	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs4652434	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap]
rs4652438	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[YRI][hapmap]
rs4652442	0.84[AFR][1000 genomes];0.87[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs55635521	0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs58593782	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61310274	0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6425574	0.82[JPT][hapmap]
rs6425580	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs6425581	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs6425585	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs6425588	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6672701	0.89[CEU][hapmap]
rs6689426	0.84[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6692069	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6699527	0.84[AFR][1000 genomes];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs74132225	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs744446	0.82[ASN][1000 genomes]
rs7519436	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap]
rs7520355	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7540303	0.89[CEU][hapmap];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7547484	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7547988	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs964983	0.81[JPT][hapmap]
rs964984	0.81[JPT][hapmap]
rs9661439	0.86[AFR][1000 genomes];0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9661468	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9662949	0.84[AFR][1000 genomes];0.87[AMR][1000 genomes];0.89[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	nsv1013000	chr1:179589193-179628536	Enhancers Weak transcription Bivalent Enhancer	TF binding region Chromatin interactive region	2 gene(s)	inside rSNPs	n/a

mRNA abundance (count:5)

SNP	Gene	Cis/trans	Tissue	Source
rs6691856	TDRD5	cis	Adipose Subcutaneous	GTEx
rs6691856	TDRD5	cis	Esophagus Mucosa	GTEx
rs6691856	TDRD5	cis	Thyroid	GTEx
rs6691856	TDRD5	cis	Artery Aorta	GTEx
rs6691856	TDRD5	cis	Nerve Tibial	GTEx

Chromatin state (count:3 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:179627800-179628600	Enhancers	Monocytes-CD14+_RO01746	blood
2	chr1:179628000-179632200	Weak transcription	HUVEC	blood vessel
3	chr1:179628200-179628600	Enhancers	Primary neutrophils fromperipheralblood	blood

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