Variant report

Variant	rs3966013
Chromosome Location	chr4:174046343-174046344
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr4:174046313..174049132-chr4:174086110..174088705,2	K562	blood:
2	chr4:174044743..174047315-chr4:174090478..174092236,2	MCF-7	breast:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-HMGB2-4	chr4:174046340-174046372	XLOC_004161

Variant related genes	Relation type
ENSG00000245213	Chromatin interaction

Extended variants
information (count: 30 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs10012945	1.00[ASW][hapmap];1.00[CEU][hapmap];0.94[GIH][hapmap];0.94[LWK][hapmap];1.00[MEX][hapmap];0.96[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10022143	0.84[EUR][1000 genomes]
rs11725123	0.82[EUR][1000 genomes]
rs11725185	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11725544	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs11728445	1.00[EUR][1000 genomes]
rs11737666	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs11737713	0.81[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs13114380	0.83[EUR][1000 genomes]
rs13120298	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs13121054	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs13125078	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs13125357	0.83[EUR][1000 genomes]
rs13131149	0.82[EUR][1000 genomes]
rs13132608	0.81[EUR][1000 genomes]
rs13138296	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13147948	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[TSI][hapmap];0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17255483	0.93[CEU][hapmap]
rs28709360	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs28735865	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34155242	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34215795	0.97[EUR][1000 genomes]
rs4314263	0.89[EUR][1000 genomes]
rs60568577	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs62341067	0.81[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs62341069	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62343177	0.82[EUR][1000 genomes]
rs71609810	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7679498	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[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	nsv949126	chr4:173466221-174051451	Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:174042600-174069000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr4:174044200-174046600	Weak transcription	Fetal Thymus	thymus
3	chr4:174044200-174049600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
4	chr4:174044400-174046600	Weak transcription	Thymus	Thymus
5	chr4:174044600-174047000	Enhancers	K562	blood
6	chr4:174045800-174047000	Enhancers	Hela-S3	cervix
7	chr4:174046200-174046800	Enhancers	HUVEC	blood vessel
8	chr4:174046200-174047200	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin

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