Variant report

Variant	rs2745430
Chromosome Location	chr6:133008971-133008972
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:133008525..133010705-chr6:133141120..133143788,2	K562	blood:
2	chr6:133008587..133011084-chr6:133135218..133137438,2	MCF-7	breast:
3	chr6:133008010..133010511-chr6:133135141..133137860,2	K562	blood:

Variant related genes	Relation type
ENSG00000206754	Chromatin interaction
ENSG00000112306	Chromatin interaction

Extended variants
information (count: 58 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:56)

rs_ID	r²[population]
rs1044593	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1073954	0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2050154	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs2223613	0.89[EUR][1000 genomes]
rs2247269	0.89[EUR][1000 genomes]
rs2247284	0.89[EUR][1000 genomes]
rs2247285	0.89[EUR][1000 genomes]
rs2251455	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2262437	0.87[EUR][1000 genomes]
rs2262438	0.89[EUR][1000 genomes]
rs2300077	0.80[EUR][1000 genomes]
rs2327275	0.89[EUR][1000 genomes]
rs2745426	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2745427	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2745429	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2745431	0.85[EUR][1000 genomes]
rs2745435	0.89[EUR][1000 genomes]
rs2745436	0.89[EUR][1000 genomes]
rs2745437	0.89[EUR][1000 genomes]
rs2745439	0.89[EUR][1000 genomes]
rs2745440	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2745441	0.89[EUR][1000 genomes]
rs2745442	0.89[EUR][1000 genomes]
rs2745443	0.91[EUR][1000 genomes]
rs2745444	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2745445	0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2840812	0.89[ASN][1000 genomes]
rs2840813	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2840815	0.89[EUR][1000 genomes]
rs2840816	0.89[EUR][1000 genomes]
rs2840817	0.88[EUR][1000 genomes]
rs2840818	0.89[EUR][1000 genomes]
rs2840819	0.86[EUR][1000 genomes]
rs2840820	0.89[EUR][1000 genomes]
rs2840821	0.89[EUR][1000 genomes]
rs2840822	0.89[EUR][1000 genomes]
rs2840823	0.89[EUR][1000 genomes]
rs2840824	0.89[EUR][1000 genomes]
rs2840825	0.89[EUR][1000 genomes]
rs2840826	0.89[EUR][1000 genomes]
rs3798792	0.80[EUR][1000 genomes]
rs3823026	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4897600	0.88[EUR][1000 genomes]
rs4897604	0.88[EUR][1000 genomes]
rs4897605	0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4897609	0.80[EUR][1000 genomes]
rs6936833	0.89[EUR][1000 genomes]
rs6938196	0.89[EUR][1000 genomes]
rs6941705	0.84[EUR][1000 genomes]
rs7742200	0.80[EUR][1000 genomes]
rs909975	0.85[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs909977	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9389027	0.89[EUR][1000 genomes]
rs9399038	0.89[EUR][1000 genomes]
rs990499	0.89[EUR][1000 genomes]
rs990500	0.89[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	nsv532069	chr6:132776411-133462292	Active TSS Strong transcription Weak transcription Enhancers Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	90 gene(s)	inside rSNPs	diseases
2	nsv1015742	chr6:132933666-133285852	Active TSS Flanking Active TSS Enhancers Strong transcription Weak transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	71 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs2745430	VNN1	cis	Whole Blood	GTEx

Chromatin state (count:14 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:133002200-133014600	Strong transcription	Liver	Liver
2	chr6:133004800-133016400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
3	chr6:133005200-133011000	Weak transcription	Gastric	stomach
4	chr6:133007200-133010800	Weak transcription	Duodenum Mucosa	Duodenum
5	chr6:133008200-133009000	Flanking Active TSS	NHEK	skin
6	chr6:133008400-133009000	Enhancers	Primary monocytes fromperipheralblood	blood
7	chr6:133008400-133009000	Enhancers	Stomach Mucosa	stomach
8	chr6:133008400-133009000	Enhancers	HSMM	muscle
9	chr6:133008400-133009000	Enhancers	Monocytes-CD14+_RO01746	blood
10	chr6:133008600-133009200	Enhancers	HMEC	breast
11	chr6:133008800-133009000	Enhancers	Osteobl	bone
12	chr6:133008800-133009600	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
13	chr6:133008800-133010400	Weak transcription	Primary neutrophils fromperipheralblood	blood
14	chr6:133008800-133016200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--

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