Variant report

Variant	rs8077301
Chromosome Location	chr17:66603826-66603827
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 13 )
Associated
traits (count: 7 )

rSNPs within LD-proxies of this variant (count:12)

rs_ID	r²[population]
rs1116782	0.89[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs17702546	0.93[AFR][1000 genomes];0.99[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs17702693	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.92[CHD][hapmap];0.94[JPT][hapmap];1.00[MEX][hapmap];0.90[MKK][hapmap];1.00[TSI][hapmap];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs28665123	0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs35002536	0.89[AFR][1000 genomes];0.99[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs3815357	0.87[CHB][hapmap]
rs56378596	0.80[ASN][1000 genomes]
rs62087515	0.84[ASN][1000 genomes]
rs986099	0.84[ASN][1000 genomes]
rs9896434	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9908210	0.92[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs9915927	0.82[AFR][1000 genomes];0.81[AMR][1000 genomes];0.89[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	nsv833524	chr17:66524030-66705194	Enhancers Weak transcription Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases

mRNA abundance (count:7)

SNP	Gene	Cis/trans	Tissue	Source
rs8077301	AMZ2	cis	cerebellum	SCAN
rs8077301	AMZ2	cis	parietal	SCAN
rs8077301	FTSJ3	cis	cerebellum	SCAN
rs8077301	ABCA6	cis	parietal	SCAN
rs8077301	AMZ2P1	cis	parietal	SCAN
rs8077301	ICAM2	cis	parietal	SCAN
rs8077301	ABCA9	cis	parietal	SCAN

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr17:66599400-66604200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
2	chr17:66600000-66604000	Weak transcription	H1 Cell Line	embryonic stem cell
3	chr17:66601800-66604000	Weak transcription	HUES64 Cell Line	embryonic stem cell
4	chr17:66602200-66604000	Enhancers	Liver	Liver
5	chr17:66602200-66605800	ZNF genes & repeats	HUES6 Cell Line	embryonic stem cell
6	chr17:66603200-66604600	ZNF genes & repeats	ES-I3 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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