Variant report

Variant	rs60938827
Chromosome Location	chr3:141482434-141482435
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:141480779..141483716-chr3:141486935..141488677,2	MCF-7	breast:
2	chr3:141470691..141472976-chr3:141480546..141482501,2	K562	blood:

Extended variants
information (count: 32 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:31)

rs_ID	r²[population]
rs11542226	0.83[EUR][1000 genomes]
rs16851704	0.86[EUR][1000 genomes]
rs16851717	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16851740	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16851752	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1879284	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1879285	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1980192	0.84[AFR][1000 genomes];0.88[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs3773840	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4538350	0.84[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57394236	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57805567	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs57983026	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58115387	0.83[EUR][1000 genomes]
rs58300294	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs59998648	0.86[EUR][1000 genomes]
rs61278509	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs61294533	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs61632965	0.86[EUR][1000 genomes]
rs6783647	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6783736	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73872318	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs73872319	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs73872322	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs73872326	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs7632069	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7642922	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7643689	0.83[EUR][1000 genomes]
rs9789959	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs9789973	0.90[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9790075	0.88[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	nsv949709	chr3:141295050-142178144	Weak transcription Strong transcription Flanking Active TSS Enhancers Genic enhancers Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	61 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs60938827	RNF7	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:20 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:141461800-141498200	Weak transcription	Right Ventricle	heart
2	chr3:141467000-141483400	Weak transcription	Fetal Lung	lung
3	chr3:141470000-141482600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
4	chr3:141470000-141483400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
5	chr3:141470000-141483400	Weak transcription	Primary hematopoietic stem cells	blood
6	chr3:141470000-141483400	Weak transcription	Fetal Stomach	stomach
7	chr3:141470000-141483600	Weak transcription	Primary monocytes fromperipheralblood	blood
8	chr3:141470000-141486400	Weak transcription	Brain Hippocampus Middle	brain
9	chr3:141470800-141483400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
10	chr3:141471600-141483600	Weak transcription	Fetal Thymus	thymus
11	chr3:141471800-141483600	Weak transcription	Monocytes-CD14+_RO01746	blood
12	chr3:141472000-141500800	Weak transcription	Thymus	Thymus
13	chr3:141472600-141484800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
14	chr3:141482000-141483400	Enhancers	K562	blood
15	chr3:141482400-141482800	Bivalent Enhancer	HepG2	liver
16	chr3:141482400-141483400	Weak transcription	Placenta	Placenta
17	chr3:141482400-141484000	Weak transcription	Lung	lung
18	chr3:141482400-141484600	Enhancers	Primary neutrophils fromperipheralblood	blood
19	chr3:141482400-141485800	Weak transcription	Gastric	stomach
20	chr3:141482400-141488200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived

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