Variant report

Variant	rs7025006
Chromosome Location	chr9:21415687-21415688
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 9 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:4)

rs_ID	r²[population]
rs10964983	0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs13296822	0.87[EUR][1000 genomes]
rs4978115	0.81[TSI][hapmap]
rs7033635	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv892724	chr9:20690244-21517302	Genic enhancers Weak transcription Enhancers Bivalent/Poised TSS Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	153 gene(s)	inside rSNPs	diseases
2	esv2752289	chr9:21361957-21499624	Weak transcription Active TSS Enhancers Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
3	nsv466297	chr9:21391698-21507589	Enhancers Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Active TSS Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
4	nsv613758	chr9:21391698-21507589	Enhancers Weak transcription Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
5	nsv892739	chr9:21407250-21470520	Weak transcription Bivalent Enhancer ZNF genes & repeats Enhancers Strong transcription Flanking Active TSS Genic enhancers Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs7025006	ACER2	cis	cerebellum	SCAN
rs7025006	RPS6	cis	cerebellum	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:21412800-21417800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr9:21413800-21416000	Weak transcription	Brain Hippocampus Middle	brain
3	chr9:21414400-21416000	Enhancers	Breast Myoepithelial Primary Cells	Breast
4	chr9:21414400-21416600	Enhancers	Hela-S3	cervix
5	chr9:21414600-21416000	Weak transcription	Rectal Mucosa Donor 31	rectum
6	chr9:21414600-21416000	Enhancers	A549	lung
7	chr9:21414800-21416000	Enhancers	Muscle Satellite Cultured Cells	--
8	chr9:21414800-21420200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
9	chr9:21415000-21416200	Enhancers	Brain Angular Gyrus	brain
10	chr9:21415200-21415800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
11	chr9:21415200-21416000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
12	chr9:21415200-21416000	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
13	chr9:21415200-21416000	Enhancers	Brain Substantia Nigra	brain
14	chr9:21415200-21416000	Enhancers	HMEC	breast
15	chr9:21415200-21416200	Enhancers	Cortex derived primary cultured neurospheres	brain
16	chr9:21415200-21416200	Enhancers	NHEK	skin

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dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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