Variant report

Variant	rs1242484
Chromosome Location	chr17:17351643-17351644
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 13 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:10)

rs_ID	r²[population]
rs1242476	0.93[AMR][1000 genomes];0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1242477	0.81[EUR][1000 genomes]
rs1242478	0.83[EUR][1000 genomes]
rs1242479	0.87[GIH][hapmap];0.84[EUR][1000 genomes]
rs1242480	0.84[EUR][1000 genomes]
rs1242481	0.84[EUR][1000 genomes]
rs1242482	0.87[GIH][hapmap];0.85[EUR][1000 genomes]
rs1242488	0.80[GIH][hapmap]
rs1269402	0.94[CHB][hapmap];0.93[CHD][hapmap];0.95[JPT][hapmap];0.91[MEX][hapmap];0.84[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs4924852	0.84[AMR][1000 genomes];0.89[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv482648	chr17:17315268-17455442	Flanking Bivalent TSS/Enh Genic enhancers Flanking Active TSS Weak transcription Active TSS Enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
2	nsv1065710	chr17:17328111-17391443	Enhancers Strong transcription Weak transcription Active TSS Bivalent Enhancer Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
3	nsv907729	chr17:17338536-17425279	Enhancers Weak transcription Strong transcription Genic enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs1242484	NCOR1	cis	parietal	SCAN

Chromatin state (count:18 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr17:17344800-17353400	Weak transcription	Brain Germinal Matrix	brain
2	chr17:17346800-17352200	Weak transcription	Sigmoid Colon	Sigmoid Colon
3	chr17:17348200-17351800	Bivalent Enhancer	Foreskin Fibroblast Primary Cells skin01	Skin
4	chr17:17348400-17352000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
5	chr17:17349200-17352200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
6	chr17:17349600-17363200	Weak transcription	Right Atrium	heart
7	chr17:17350000-17351800	Enhancers	HUVEC	blood vessel
8	chr17:17350400-17353800	Weak transcription	Fetal Muscle Leg	muscle
9	chr17:17350400-17363400	Weak transcription	Gastric	stomach
10	chr17:17350600-17352200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
11	chr17:17351000-17353000	Enhancers	HepG2	liver
12	chr17:17351200-17351800	Bivalent Enhancer	Foreskin Fibroblast Primary Cells skin02	Skin
13	chr17:17351200-17354400	Weak transcription	A549	lung
14	chr17:17351400-17353600	Weak transcription	Spleen	Spleen
15	chr17:17351400-17353800	Weak transcription	Adipose Nuclei	Adipose
16	chr17:17351400-17354400	Weak transcription	Fetal Thymus	thymus
17	chr17:17351600-17352200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
18	chr17:17351600-17354000	Weak transcription	Hela-S3	cervix

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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

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