Variant report

Variant	rs892459
Chromosome Location	chr2:21584340-21584341
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 15 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs1106843	0.92[EUR][1000 genomes]
rs12713441	0.87[EUR][1000 genomes]
rs13410732	0.98[EUR][1000 genomes]
rs219515	0.83[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs219516	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs219517	0.83[EUR][1000 genomes]
rs219518	0.83[EUR][1000 genomes]
rs219519	0.82[EUR][1000 genomes]
rs219521	0.81[EUR][1000 genomes]
rs219562	0.80[EUR][1000 genomes]
rs432705	0.87[AFR][1000 genomes];0.86[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1011486	chr2:21475803-22364002	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
2	nsv535602	chr2:21475803-22364002	Enhancers Weak transcription ZNF genes & repeats Active TSS Bivalent Enhancer Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
3	nsv455863	chr2:21547003-21615340	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Active TSS	TF binding region Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
4	nsv581170	chr2:21547003-21615340	Enhancers Weak transcription ZNF genes & repeats Bivalent Enhancer Flanking Active TSS Active TSS	TF binding region Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs892459	FKBP1B	cis	cerebellum	SCAN
rs892459	SMC6	cis	cerebellum	SCAN
rs892459	MEIS2	trans	cerebellum	SCAN

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:21581600-21585800	Enhancers	Breast Myoepithelial Primary Cells	Breast
2	chr2:21582000-21634600	Weak transcription	Aorta	Aorta
3	chr2:21583200-21586000	Weak transcription	Placenta Amnion	Placenta Amnion
4	chr2:21583400-21584400	Enhancers	HMEC	breast
5	chr2:21583600-21585200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
6	chr2:21583600-21585800	Enhancers	NHEK	skin
7	chr2:21584000-21585400	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
8	chr2:21584000-21585400	Enhancers	Fetal Lung	lung

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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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