Variant report

Variant	rs3099959
Chromosome Location	chr2:39128610-39128611
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr2:38975072..38976872-chr2:39126935..39129724,2	K562	blood:
2	chr2:38978315..38980438-chr2:39126850..39128881,2	K562	blood:
3	chr2:39116218..39118780-chr2:39126799..39129645,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000152147	Chromatin interaction
ENSG00000214694	Chromatin interaction
ENSG00000115875	Chromatin interaction

Extended variants
information (count: 39 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:39)

rs_ID	r²[population]
rs1010858	0.83[EUR][1000 genomes]
rs1010859	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs10181808	0.89[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs10204999	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs10779923	0.94[CHB][hapmap]
rs11124654	0.80[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs11124655	0.83[ASN][1000 genomes]
rs1131752	0.83[EUR][1000 genomes]
rs11689954	0.81[CEU][hapmap];0.87[EUR][1000 genomes]
rs12621073	0.83[AMR][1000 genomes];0.98[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12712628	0.89[EUR][1000 genomes]
rs13035182	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs17422748	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs1901289	0.94[CHB][hapmap];0.82[ASN][1000 genomes]
rs2060743	0.94[CHB][hapmap]
rs2373473	0.81[CEU][hapmap]
rs3099940	0.92[CEU][hapmap];0.84[EUR][1000 genomes]
rs3099941	0.92[CEU][hapmap];0.84[EUR][1000 genomes]
rs3099942	0.91[CEU][hapmap];0.87[EUR][1000 genomes]
rs3099945	0.92[CEU][hapmap]
rs3099957	0.84[CEU][hapmap];0.82[EUR][1000 genomes]
rs3099958	0.84[CEU][hapmap];0.85[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs3099998	0.84[EUR][1000 genomes]
rs373300	0.81[CEU][hapmap];0.82[CHB][hapmap];0.81[EUR][1000 genomes]
rs384007	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs384421	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs389023	0.88[EUR][1000 genomes]
rs4265996	0.89[CHB][hapmap]
rs434696	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs4670267	0.89[CHB][hapmap]
rs4670268	0.88[CEU][hapmap];0.89[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs4670899	0.88[CEU][hapmap];0.94[CHB][hapmap];0.89[EUR][1000 genomes]
rs6544180	0.83[AMR][1000 genomes];0.98[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6706091	0.96[CEU][hapmap];0.94[CHB][hapmap];0.97[EUR][1000 genomes]
rs6738069	0.88[CEU][hapmap];0.87[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs6744514	0.92[CEU][hapmap];0.94[CHB][hapmap];0.89[EUR][1000 genomes]
rs6754902	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs8179664	0.81[CEU][hapmap];0.82[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs9808136	0.88[CEU][hapmap];0.94[CHB][hapmap];0.89[EUR][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs3099959	DHX57	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:5 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:39104200-39129000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
2	chr2:39110200-39186800	Weak transcription	Stomach Smooth Muscle	stomach
3	chr2:39120800-39132400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
4	chr2:39125600-39129000	Weak transcription	Gastric	stomach
5	chr2:39126800-39134000	Weak transcription	Aorta	Aorta

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