Variant report

Variant	rs41312200
Chromosome Location	chr9:116185569-116185570
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:116178873..116180669-chr9:116183451..116186283,2	MCF-7	breast:
2	chr9:116184373..116186750-chr9:116189178..116191939,3	K562	blood:
3	chr9:116111702..116114290-chr9:116184822..116187394,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000119411	Chromatin interaction

Extended variants
information (count: 35 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs10981793	1.00[ASN][1000 genomes]
rs12338788	1.00[ASN][1000 genomes]
rs12347382	0.86[ASN][1000 genomes]
rs12351728	0.86[ASN][1000 genomes]
rs17525042	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17553698	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34106027	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34142167	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35081798	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs35120599	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35329679	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3747813	1.00[EUR][1000 genomes]
rs3761819	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3810925	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3810926	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3827674	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs41276809	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs41276823	0.92[EUR][1000 genomes]
rs41306506	1.00[EUR][1000 genomes]
rs41316948	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55714377	0.86[ASN][1000 genomes]
rs7042968	1.00[ASN][1000 genomes]
rs72760096	1.00[ASN][1000 genomes]
rs72761906	0.86[ASN][1000 genomes]
rs72761963	0.86[ASN][1000 genomes]
rs72761965	0.86[ASN][1000 genomes]
rs7852118	0.86[ASN][1000 genomes]
rs7855434	0.86[ASN][1000 genomes]
rs7856689	1.00[ASN][1000 genomes]
rs7857217	0.86[ASN][1000 genomes]
rs7864467	0.86[ASN][1000 genomes]
rs7864816	1.00[ASN][1000 genomes]
rs7870142	0.86[ASN][1000 genomes]
rs7870912	0.86[ASN][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	nsv530949	chr9:115821128-116487796	Flanking Active TSS Enhancers Active TSS Weak transcription Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	71 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs41312200	RGS3	cis	Whole Blood	GTEx

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:116174200-116187000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr9:116180400-116186600	Weak transcription	Primary B cells from cord blood	blood
3	chr9:116182400-116186000	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
4	chr9:116183200-116186400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
5	chr9:116184600-116199200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin

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