Variant report

Variant	rs1887665
Chromosome Location	chr9:16004012-16004013
allele	C/G
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:9)

rs_ID	r²[population]
rs2987097	0.87[ASN][1000 genomes]
rs3008718	0.87[ASN][1000 genomes]
rs3008720	0.87[ASN][1000 genomes]
rs3008721	0.87[ASN][1000 genomes]
rs3008722	0.87[ASN][1000 genomes]
rs3008724	0.86[ASN][1000 genomes]
rs3008725	0.87[ASN][1000 genomes]
rs3124457	0.84[ASN][1000 genomes]
rs6475000	0.87[ASN][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	nsv892625	chr9:15326251-16064850	Enhancers Active TSS Weak transcription Strong transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
2	nsv892637	chr9:15926508-16060746	Enhancers Strong transcription Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
3	nsv949463	chr9:15970668-16377360	Enhancers ZNF genes & repeats Flanking Active TSS Weak transcription Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
4	nsv831521	chr9:15974174-16106565	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Strong transcription Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs1887665	HAUS6	cis	parietal	SCAN

Chromatin state (count:9 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:16000200-16010400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
2	chr9:16001600-16011800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
3	chr9:16002400-16012800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr9:16003600-16004400	Enhancers	iPS-18 Cell Line	embryonic stem cell
5	chr9:16003600-16004600	Enhancers	iPS-15b Cell Line	embryonic stem cell
6	chr9:16003800-16004200	Enhancers	H1 Cell Line	embryonic stem cell
7	chr9:16003800-16004200	Enhancers	HUES6 Cell Line	embryonic stem cell
8	chr9:16003800-16004200	Enhancers	HUES64 Cell Line	embryonic stem cell
9	chr9:16003800-16004400	Enhancers	ES-UCSF4 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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