Variant report

Variant	rs954658
Chromosome Location	chr3:133091120-133091121
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 7 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:6)

rs_ID	r²[population]
rs1513363	0.87[ASW][hapmap]
rs17298063	0.87[ASW][hapmap]
rs4479595	0.87[ASW][hapmap];0.86[CEU][hapmap];0.95[CHB][hapmap];0.88[CHD][hapmap];0.96[GIH][hapmap];0.85[JPT][hapmap];0.85[LWK][hapmap];0.93[MEX][hapmap];0.81[MKK][hapmap];0.96[TSI][hapmap];0.82[AFR][1000 genomes];0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4854579	0.87[ASW][hapmap]
rs4854707	0.87[ASW][hapmap]
rs9821742	0.80[MEX][hapmap]

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	nsv877503	chr3:133035774-133104631	Bivalent/Poised TSS Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs954658	AMOTL2	cis	cerebellum	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:133080800-133098600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
2	chr3:133083200-133099200	Weak transcription	Lung	lung
3	chr3:133085800-133091600	Enhancers	Cortex derived primary cultured neurospheres	brain
4	chr3:133088000-133093800	Weak transcription	HSMMtube	muscle
5	chr3:133089200-133094800	Weak transcription	Fetal Lung	lung
6	chr3:133089600-133093800	Weak transcription	Brain Substantia Nigra	brain
7	chr3:133089800-133092600	Weak transcription	Brain Germinal Matrix	brain
8	chr3:133089800-133093800	Weak transcription	Brain Inferior Temporal Lobe	brain
9	chr3:133090000-133092600	Weak transcription	Fetal Brain Male	brain
10	chr3:133090200-133093800	Weak transcription	Brain Hippocampus Middle	brain
11	chr3:133090200-133093800	Weak transcription	Fetal Brain Female	brain
12	chr3:133090400-133092800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
13	chr3:133090400-133093000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
14	chr3:133090800-133093800	Weak transcription	Brain Cingulate Gyrus	brain
15	chr3:133091000-133091600	Enhancers	Brain Angular Gyrus	brain
16	chr3:133091000-133091600	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain

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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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