Variant report

Variant	rs6856609
Chromosome Location	chr4:77015259-77015260
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr4:77006287..77011420-chr4:77011515..77015802,5	K562	blood:
2	chr4:77012326..77015299-chr4:77068893..77071066,2	K562	blood:
3	chr4:76909511..76914243-chr4:77012216..77015645,4	MCF-7	breast:

Variant related genes	Relation type
ENSG00000198301	Chromatin interaction
ENSG00000138750	Chromatin interaction

Extended variants
information (count: 40 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:38)

rs_ID	r²[population]
rs10022137	1.00[CEU][hapmap];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10022519	0.96[CEU][hapmap];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs11097232	1.00[CEU][hapmap];0.85[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs12331521	0.87[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs12510869	0.82[YRI][hapmap]
rs13134121	0.85[YRI][hapmap]
rs13139234	1.00[CEU][hapmap];0.85[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs1372410	0.86[JPT][hapmap]
rs1372411	0.86[JPT][hapmap]
rs1465923	0.82[JPT][hapmap]
rs1542093	0.86[JPT][hapmap]
rs1542094	0.86[JPT][hapmap]
rs1542095	0.86[JPT][hapmap]
rs17001357	0.86[YRI][hapmap]
rs17001391	1.00[JPT][hapmap]
rs17001392	1.00[JPT][hapmap]
rs17001393	1.00[JPT][hapmap]
rs17001395	1.00[JPT][hapmap]
rs17001396	1.00[JPT][hapmap]
rs17001398	1.00[JPT][hapmap]
rs17001551	0.86[JPT][hapmap]
rs17001559	0.86[JPT][hapmap]
rs17001593	0.86[JPT][hapmap]
rs17001598	0.86[JPT][hapmap]
rs17001601	0.86[JPT][hapmap]
rs17001606	0.86[JPT][hapmap]
rs17001633	0.86[JPT][hapmap]
rs3733255	0.86[JPT][hapmap]
rs4077787	0.84[YRI][hapmap]
rs4416503	0.86[JPT][hapmap]
rs4639101	0.86[JPT][hapmap]
rs4859422	0.83[YRI][hapmap]
rs6829592	1.00[YRI][hapmap];0.97[AFR][1000 genomes]
rs7436214	0.86[JPT][hapmap]
rs7654988	1.00[CEU][hapmap];0.85[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs7682766	1.00[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9990550	1.00[CEU][hapmap];0.85[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs9992976	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv529613	chr4:76654941-77081576	Flanking Active TSS Weak transcription Genic enhancers Strong transcription Enhancers Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	38 gene(s)	inside rSNPs	diseases
2	nsv1009047	chr4:76989180-77077885	Enhancers Active TSS Weak transcription Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs6856609	ART3	cis	Nerve Tibial	GTEx

Chromatin state (count:9 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:77008600-77016800	Weak transcription	Psoas Muscle	Psoas
2	chr4:77012400-77015600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
3	chr4:77012400-77015600	Weak transcription	Skeletal Muscle Male	skeletal muscle
4	chr4:77012600-77016200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
5	chr4:77012600-77016800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
6	chr4:77012800-77016400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
7	chr4:77012800-77016800	Weak transcription	HMEC	breast
8	chr4:77014400-77015400	Weak transcription	Pancreas	Pancrea
9	chr4:77015200-77025400	Weak transcription	Skeletal Muscle Female	skeletal muscle

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links