Variant report

Variant	rs6029899
Chromosome Location	chr20:40599150-40599151
allele	A/G
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:7)

rs_ID	r²[population]
rs2281386	0.82[CEU][hapmap]
rs2866987	0.93[EUR][1000 genomes]
rs2866990	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs2903437	0.91[CEU][hapmap];0.82[EUR][1000 genomes]
rs6065420	0.80[AMR][1000 genomes]
rs6072590	0.87[ASW][hapmap];0.81[CHB][hapmap];0.84[MEX][hapmap]
rs6093553	0.92[CEU][hapmap];0.81[EUR][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	nsv3381	chr20:39925326-40765696	Genic enhancers Enhancers Strong transcription Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
2	esv2751913	chr20:40422982-41269321	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	22 gene(s)	inside rSNPs	diseases
3	nsv532516	chr20:40451059-41097155	Weak transcription Strong transcription Enhancers Bivalent Enhancer Active TSS ZNF genes & repeats Flanking Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
4	nsv833986	chr20:40468902-40628365	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Active TSS	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
rs6029899	WFDC5	cis	cerebellum	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr20:40597000-40599600	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
2	chr20:40597400-40599400	Enhancers	Breast Myoepithelial Primary Cells	Breast
3	chr20:40597400-40599800	Enhancers	HUES6 Cell Line	embryonic stem cell
4	chr20:40598000-40599400	Enhancers	Cortex derived primary cultured neurospheres	brain
5	chr20:40598200-40599200	Weak transcription	Fetal Lung	lung
6	chr20:40598200-40599600	Enhancers	Fetal Adrenal Gland	Adrenal Gland
7	chr20:40598400-40599600	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
8	chr20:40598600-40599400	Enhancers	ES-I3 Cell Line	embryonic stem cell
9	chr20:40598600-40599400	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
10	chr20:40598600-40599400	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
11	chr20:40598600-40599600	Enhancers	ES-WA7 Cell Line	embryonic stem cell
12	chr20:40598600-40599600	Enhancers	HUES64 Cell Line	embryonic stem cell
13	chr20:40598600-40599600	Enhancers	iPS-15b Cell Line	embryonic stem cell
14	chr20:40598600-40599600	Enhancers	iPS-20b Cell Line	embryonic stem cell
15	chr20:40598600-40599600	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
16	chr20:40599000-40599800	Enhancers	HUES48 Cell Line	embryonic stem cell

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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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