Variant report

Variant	rs55840308
Chromosome Location	chr3:139735414-139735415
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 20 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs10513095	0.84[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10935365	0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11715115	0.83[ASN][1000 genomes]
rs11721080	0.84[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11915310	0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1895857	0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4271881	0.82[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4683466	0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs55682807	0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs55722058	0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs55982759	0.81[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs56132049	0.82[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs73226905	0.92[ASN][1000 genomes]
rs7625731	0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1003154	chr3:139060841-139788752	ZNF genes & repeats Flanking Active TSS Strong transcription Enhancers Weak transcription Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
2	nsv536729	chr3:139060841-139788752	Active TSS Enhancers Strong transcription Weak transcription Flanking Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
3	nsv916193	chr3:139187767-139821526	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Bivalent/Poised TSS Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
4	nsv530058	chr3:139243971-139814419	Weak transcription Active TSS Bivalent/Poised TSS Bivalent Enhancer Enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
5	nsv998423	chr3:139526446-139947336	Flanking Bivalent TSS/Enh Weak transcription Bivalent Enhancer Enhancers Bivalent/Poised TSS Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
6	nsv829738	chr3:139670836-139851945	Enhancers Weak transcription Bivalent Enhancer ZNF genes & repeats Strong transcription Flanking Active TSS Active TSS Genic enhancers	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases

No data

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:139714400-139741200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr3:139727600-139737200	Weak transcription	Ovary	ovary
3	chr3:139732000-139739200	Weak transcription	Brain Cingulate Gyrus	brain
4	chr3:139732400-139741200	Weak transcription	Fetal Brain Female	brain
5	chr3:139732400-139742600	Weak transcription	HSMMtube	muscle
6	chr3:139732800-139740200	Weak transcription	Brain Angular Gyrus	brain
7	chr3:139733000-139739200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
8	chr3:139734200-139739200	Weak transcription	Brain Inferior Temporal Lobe	brain
9	chr3:139734400-139738800	Weak transcription	Brain Substantia Nigra	brain
10	chr3:139735200-139738200	Weak transcription	Fetal Brain Male	brain

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

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