Variant report

Variant	rs16851704
Chromosome Location	chr3:141452359-141452360
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:141448547..141453826-chr3:141453982..141458606,7	K562	blood:
2	chr3:141296059..141299037-chr3:141450864..141452566,2	K562	blood:
3	chr3:141451116..141452922-chr3:141454419..141455938,2	MCF-7	breast:
4	chr3:141452326..141454943-chr3:141456910..141459390,2	K562	blood:
5	chr3:141451573..141455398-chr3:141593572..141596886,4	MCF-7	breast:

Variant related genes	Relation type
ENSG00000069849	Chromatin interaction
ENSG00000114125	Chromatin interaction
ENSG00000155903	Chromatin interaction

Extended variants
information (count: 42 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:40)

rs_ID	r²[population]
rs1105082	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs11542226	1.00[CEU][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes]
rs1533501	0.81[AFR][1000 genomes]
rs16851689	0.81[GIH][hapmap]
rs16851691	0.81[GIH][hapmap]
rs16851717	1.00[CEU][hapmap];0.90[GIH][hapmap];0.92[MKK][hapmap];0.83[TSI][hapmap];0.88[EUR][1000 genomes]
rs16851740	1.00[CEU][hapmap];0.90[GIH][hapmap];0.92[MKK][hapmap];0.83[TSI][hapmap];0.88[EUR][1000 genomes]
rs16851752	0.86[EUR][1000 genomes]
rs1879284	0.88[EUR][1000 genomes]
rs1879285	0.88[EUR][1000 genomes]
rs1980191	1.00[CHB][hapmap];0.86[CHD][hapmap];0.82[JPT][hapmap];0.88[ASN][1000 genomes]
rs1980192	0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs3773840	1.00[CEU][hapmap];0.88[EUR][1000 genomes]
rs4538350	1.00[CEU][hapmap];0.88[EUR][1000 genomes]
rs4588340	1.00[CEU][hapmap];1.00[YRI][hapmap];0.81[AFR][1000 genomes]
rs57394236	0.81[EUR][1000 genomes]
rs57805567	0.81[EUR][1000 genomes]
rs57983026	0.88[EUR][1000 genomes]
rs58115387	0.85[AFR][1000 genomes]
rs58300294	0.86[EUR][1000 genomes]
rs59998648	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60806348	0.94[ASN][1000 genomes]
rs60938827	0.86[EUR][1000 genomes]
rs61278509	0.81[EUR][1000 genomes]
rs61294533	0.81[EUR][1000 genomes]
rs61632965	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6783647	0.88[EUR][1000 genomes]
rs6783736	0.88[EUR][1000 genomes]
rs6787712	0.83[EUR][1000 genomes]
rs73226657	0.80[ASN][1000 genomes]
rs73872318	0.81[EUR][1000 genomes]
rs73872319	0.81[EUR][1000 genomes]
rs73872322	0.81[EUR][1000 genomes]
rs7630533	0.90[CHB][hapmap];0.82[CHD][hapmap];1.00[JPT][hapmap]
rs7632069	1.00[CEU][hapmap];0.86[EUR][1000 genomes]
rs7642922	0.88[EUR][1000 genomes]
rs7643689	1.00[CEU][hapmap];1.00[YRI][hapmap];0.81[AFR][1000 genomes]
rs868934	0.82[CHB][hapmap];0.90[JPT][hapmap]
rs9789959	0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9789973	0.88[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	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
2	nsv877552	chr3:141420562-141466147	Active TSS Enhancers Strong transcription Flanking Active TSS Genic enhancers Weak transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs16851704	RNF7	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:141444800-141456600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
2	chr3:141447800-141456600	Weak transcription	Fetal Intestine Large	intestine
3	chr3:141449800-141452600	Weak transcription	Primary neutrophils fromperipheralblood	blood
4	chr3:141449800-141456600	Weak transcription	Stomach Mucosa	stomach
5	chr3:141451200-141456600	Weak transcription	Aorta	Aorta
6	chr3:141452200-141453800	Weak transcription	HepG2	liver

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