Variant report

Variant	rs12236616
Chromosome Location	chr3:24249999-24250000
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 22 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs10511523	0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10816094	0.88[EUR][1000 genomes]
rs1332796	0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1332800	0.83[EUR][1000 genomes]
rs1333121	0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1412881	0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2065511	0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2065512	0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2225596	0.88[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2382002	0.86[EUR][1000 genomes]
rs2780071	0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2780072	0.92[EUR][1000 genomes]
rs2780073	0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4742585	0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4742586	0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7047537	0.86[ASN][1000 genomes]
rs7850556	0.89[EUR][1000 genomes]
rs7866679	0.88[EUR][1000 genomes]
rs9407420	0.86[ASN][1000 genomes]
rs9644896	0.85[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	nsv533980	chr3:23445901-24311972	ZNF genes & repeats Strong transcription Weak transcription Flanking Active TSS Enhancers Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	64 gene(s)	inside rSNPs	diseases
2	nsv3733	chr3:24216577-24261749	Enhancers Weak transcription Strong transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer Genic enhancers	Chromatin interactive region	4 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:24227800-24254200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr3:24238400-24254000	Weak transcription	Aorta	Aorta
3	chr3:24239000-24268200	Weak transcription	Rectal Mucosa Donor 31	rectum
4	chr3:24242000-24254000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
5	chr3:24243000-24254200	Weak transcription	Psoas Muscle	Psoas
6	chr3:24246000-24260400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
7	chr3:24246400-24264400	Weak transcription	Fetal Intestine Small	intestine
8	chr3:24249800-24251400	Weak transcription	Fetal Intestine Large	intestine

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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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