Variant report

Variant	rs909975
Chromosome Location	chr6:133014991-133014992
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 18 )
Associated
traits (count: 4 )

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs1044593	0.85[YRI][hapmap];0.88[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs1073954	0.86[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs2050154	0.83[AMR][1000 genomes]
rs2251455	0.85[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs2745426	0.87[MEX][hapmap];0.81[TSI][hapmap];0.85[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs2745427	0.85[YRI][hapmap];0.88[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs2745429	0.85[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs2745430	0.85[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs2745440	0.85[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs2745444	0.81[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs2745445	0.86[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs2840813	0.85[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs3823026	0.85[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs4897605	0.86[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs742516	0.92[CEU][hapmap];0.85[TSI][hapmap];0.90[EUR][1000 genomes]
rs909977	0.84[TSI][hapmap];0.85[AMR][1000 genomes];0.81[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:4)

SNP	Gene	Cis/trans	Tissue	Source
rs909975	VNN1	cis	lung	GTEx
rs909975	BCLAF1	cis	parietal	SCAN
rs909975	VNN1	cis	multi-tissue	Pritchard
rs909975	VNN1	cis	Whole Blood	GTEx

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:133004800-133016400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
2	chr6:133008800-133016200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
3	chr6:133010400-133015200	Strong transcription	Primary neutrophils fromperipheralblood	blood
4	chr6:133011000-133015200	Strong transcription	Monocytes-CD14+_RO01746	blood
5	chr6:133011200-133015000	Strong transcription	Primary monocytes fromperipheralblood	blood
6	chr6:133011800-133017200	Weak transcription	Spleen	Spleen
7	chr6:133012600-133015000	Weak transcription	Stomach Mucosa	stomach
8	chr6:133013000-133015000	Weak transcription	Primary hematopoietic stem cells	blood
9	chr6:133014200-133015000	Enhancers	Adipose Nuclei	Adipose
10	chr6:133014200-133015000	Enhancers	Pancreas	Pancrea
11	chr6:133014200-133015000	Enhancers	Rectal Mucosa Donor 31	rectum
12	chr6:133014600-133015400	Genic enhancers	Liver	Liver
13	chr6:133014800-133015200	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
14	chr6:133014800-133015200	Strong transcription	Duodenum Mucosa	Duodenum

Quick Search:

Input of quick search could be:

dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

what's new

Quick links