Variant report

Variant	rs6036565
Chromosome Location	chr20:23854714-23854715
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 11 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:8)

rs_ID	r²[population]
rs1799841	0.90[EUR][1000 genomes]
rs2071442	0.86[ASN][1000 genomes]
rs2285059	0.91[EUR][1000 genomes]
rs4075883	0.85[ASN][1000 genomes]
rs4239744	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4350819	0.85[ASN][1000 genomes]
rs4813509	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4815244	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv491876	chr20:23436633-24031374	Weak transcription Flanking Active TSS Enhancers Active TSS Strong transcription Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
2	nsv833944	chr20:23806288-24021865	Bivalent Enhancer Genic enhancers Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
3	nsv585730	chr20:23809681-23862844	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs6036565	CST5	cis	lung	GTEx

Chromatin state (count:16 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr20:23848800-23860400	Enhancers	Fetal Thymus	thymus
2	chr20:23851400-23859400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
3	chr20:23851800-23855400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
4	chr20:23852400-23864800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
5	chr20:23852800-23858200	Enhancers	Dnd41	blood
6	chr20:23853000-23855400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
7	chr20:23853200-23855400	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
8	chr20:23853400-23855400	Enhancers	Fetal Adrenal Gland	Adrenal Gland
9	chr20:23853400-23856800	Enhancers	Thymus	Thymus
10	chr20:23853600-23855600	Weak transcription	H1 Cell Line	embryonic stem cell
11	chr20:23854000-23855800	Enhancers	Primary T cells from cord blood	blood
12	chr20:23854400-23854800	Weak transcription	HUES6 Cell Line	embryonic stem cell
13	chr20:23854400-23854800	Enhancers	Duodenum Smooth Muscle	Duodenum
14	chr20:23854400-23855200	Enhancers	Primary T helper naive cells fromperipheralblood	blood
15	chr20:23854600-23854800	Weak transcription	H9 Cell Line	embryonic stem cell
16	chr20:23854600-23858200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

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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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