Variant report

Variant	rs13108125
Chromosome Location	chr4:15443685-15443686
allele	G/T
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:12)

rs_ID	r²[population]
rs10012583	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1048037	0.86[CHD][hapmap]
rs13114920	0.83[EUR][1000 genomes]
rs13116208	0.80[GIH][hapmap]
rs13131227	0.95[CEU][hapmap];0.95[CHB][hapmap];0.98[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];0.85[MEX][hapmap];0.92[TSI][hapmap];0.93[YRI][hapmap];0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2286976	0.81[CHD][hapmap]
rs4698109	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs719993	0.95[CHB][hapmap];0.93[CHD][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs7682982	0.81[CHD][hapmap]
rs961734	0.82[CHB][hapmap]
rs9990934	0.95[CHB][hapmap];0.90[CHD][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs9992835	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][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	esv3448986	chr4:14928802-15805558	Active TSS Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Weak transcription Enhancers ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	52 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs13108125	FAM200B	cis	parietal	SCAN

Chromatin state (count:13 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:15431400-15443800	Weak transcription	Aorta	Aorta
2	chr4:15438200-15452400	Weak transcription	Left Ventricle	heart
3	chr4:15438200-15452600	Weak transcription	Fetal Kidney	kidney
4	chr4:15438400-15443800	Weak transcription	Fetal Muscle Leg	muscle
5	chr4:15438400-15444000	Weak transcription	Ovary	ovary
6	chr4:15438400-15444400	Weak transcription	Skeletal Muscle Female	skeletal muscle
7	chr4:15438400-15446200	Weak transcription	Placenta Amnion	Placenta Amnion
8	chr4:15438400-15458800	Weak transcription	Brain Inferior Temporal Lobe	brain
9	chr4:15438600-15444000	Weak transcription	Stomach Smooth Muscle	stomach
10	chr4:15438800-15453000	Weak transcription	Fetal Lung	lung
11	chr4:15438800-15471200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
12	chr4:15443400-15443800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
13	chr4:15443600-15444400	ZNF genes & repeats	Fetal Stomach	stomach

Quick Search:

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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