Variant report

Variant	rs55880517
Chromosome Location	chr12:48410683-48410684
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 6 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:5)

rs_ID	r²[population]
rs17607800	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs55707383	0.83[AMR][1000 genomes]
rs55953382	0.83[AMR][1000 genomes]
rs56198302	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56369160	1.00[EUR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv832401	chr12:48347453-48477999	Weak transcription Enhancers Bivalent Enhancer Genic enhancers Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs55880517	ZNF641	cis	Whole Blood	GTEx

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:48399400-48415000	Weak transcription	Right Atrium	heart
2	chr12:48407600-48411400	Weak transcription	Rectal Mucosa Donor 31	rectum
3	chr12:48407800-48410800	Weak transcription	Fetal Intestine Small	intestine
4	chr12:48410200-48411400	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr12:48410200-48411600	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr12:48410200-48411600	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
7	chr12:48410400-48411000	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
8	chr12:48410400-48411200	Enhancers	HMEC	breast
9	chr12:48410400-48411400	Bivalent Enhancer	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
10	chr12:48410400-48411600	Bivalent Enhancer	H1 Derived Mesenchymal Stem Cells	ES cell derived
11	chr12:48410600-48410800	Bivalent Enhancer	iPS-18 Cell Line	embryonic stem cell
12	chr12:48410600-48411000	Flanking Bivalent TSS/Enh	HepG2	liver
13	chr12:48410600-48412400	Enhancers	Fetal Intestine Large	intestine
14	chr12:48410600-48414800	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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