Variant report

Variant	rs58680169
Chromosome Location	chr2:55354503-55354504
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr2:55347589..55350399-chr2:55353012..55356550,3	K562	blood:
2	chr2:55354045..55358992-chr2:55359264..55362961,10	K562	blood:
3	chr2:55317491..55320389-chr2:55353097..55355543,2	K562	blood:
4	chr2:55354045..55357806-chr2:55359264..55361491,4	K562	blood:

Extended variants
information (count: 32 )
Associated
traits (count: 2 )

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

rs_ID	r²[population]
rs10194457	0.85[ASN][1000 genomes]
rs11892071	0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4233958	0.85[ASN][1000 genomes]
rs4672022	0.85[ASN][1000 genomes]
rs55691469	0.96[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs55875262	0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs56056614	0.83[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs56073856	0.83[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs56231606	0.83[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs56285641	0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6721769	0.83[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6721928	0.83[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6731596	0.84[ASN][1000 genomes]
rs6745066	0.84[ASN][1000 genomes]
rs72795491	0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs72795493	0.91[EUR][1000 genomes]
rs72795498	0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs72795499	0.84[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs72797513	0.83[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs72797515	0.83[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs72797516	0.83[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs72797517	0.83[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs72797519	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs72797522	0.83[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs72797530	0.83[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs72797534	0.81[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs72797535	0.81[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs72797536	0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs72797537	0.83[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7575639	0.85[ASN][1000 genomes]
rs7585618	0.85[ASN][1000 genomes]
rs9789426	0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs58680169	CLHC1	cis	Artery Tibial	GTEx
rs58680169	FLJ31438	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:23 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:55347600-55360600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr2:55348200-55360600	Weak transcription	Stomach Mucosa	stomach
3	chr2:55348400-55360400	Weak transcription	HUES6 Cell Line	embryonic stem cell
4	chr2:55348600-55360800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
5	chr2:55348800-55360400	Weak transcription	NHDF-Ad	bronchial
6	chr2:55349800-55360600	Weak transcription	Fetal Stomach	stomach
7	chr2:55350000-55355200	Weak transcription	Fetal Muscle Leg	muscle
8	chr2:55350000-55360600	Weak transcription	Psoas Muscle	Psoas
9	chr2:55350000-55360800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
10	chr2:55350000-55360800	Weak transcription	Lung	lung
11	chr2:55350000-55360800	Weak transcription	Ovary	ovary
12	chr2:55350200-55355200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
13	chr2:55350200-55356400	Weak transcription	Monocytes-CD14+_RO01746	blood
14	chr2:55351200-55359600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
15	chr2:55351400-55360600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
16	chr2:55351400-55360600	Weak transcription	HSMMtube	muscle
17	chr2:55351600-55354600	Weak transcription	Brain Inferior Temporal Lobe	brain
18	chr2:55351600-55360400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
19	chr2:55351800-55354600	Weak transcription	Brain Cingulate Gyrus	brain
20	chr2:55351800-55354600	Weak transcription	Brain Substantia Nigra	brain
21	chr2:55354400-55354800	Enhancers	Brain Angular Gyrus	brain
22	chr2:55354400-55355800	Enhancers	Brain Hippocampus Middle	brain
23	chr2:55354400-55356800	Enhancers	K562	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links