Variant report

Variant	rs12201085
Chromosome Location	chr6:36401381-36401382
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 4 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:3)

rs_ID	r²[population]
rs12191389	0.89[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs12193641	0.86[AMR][1000 genomes]
rs72851235	0.89[AMR][1000 genomes];0.87[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	nsv885806	chr6:36349890-36621178	Flanking Bivalent TSS/Enh Strong transcription Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	103 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs12201085	KCTD20	cis	Skin Sun Exposed Lower leg	GTEx

Chromatin state (count:15 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:36392000-36404200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
2	chr6:36399000-36410200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
3	chr6:36400400-36408400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
4	chr6:36400400-36409200	Weak transcription	Placenta	Placenta
5	chr6:36400600-36404200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
6	chr6:36400600-36404200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
7	chr6:36400600-36404200	Weak transcription	GM12878-XiMat	blood
8	chr6:36400600-36408800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
9	chr6:36400600-36408800	Weak transcription	HSMM	muscle
10	chr6:36400800-36403200	Weak transcription	Osteobl	bone
11	chr6:36400800-36403600	Weak transcription	NH-A	brain
12	chr6:36400800-36406000	Weak transcription	A549	lung
13	chr6:36400800-36409000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
14	chr6:36401000-36403400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
15	chr6:36401200-36404000	Weak transcription	Muscle Satellite Cultured Cells	--

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

what's new

Quick links