Variant report

Variant	rs13024316
Chromosome Location	chr2:142486253-142486254
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 7 )
Associated
traits (count: 2 )

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

rs_ID	r²[population]
rs12691619	0.88[CEU][hapmap];0.86[EUR][1000 genomes]
rs13009867	0.88[CEU][hapmap];0.85[GIH][hapmap];0.82[MKK][hapmap];0.83[TSI][hapmap];1.00[YRI][hapmap]
rs13016120	0.88[CEU][hapmap];0.83[GIH][hapmap];0.83[LWK][hapmap];0.87[MKK][hapmap];0.81[TSI][hapmap];1.00[YRI][hapmap];0.87[EUR][1000 genomes]
rs2118271	0.87[CEU][hapmap];1.00[YRI][hapmap];0.87[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv834394	chr2:142430225-142593264	Enhancers Weak transcription ZNF genes & repeats Bivalent Enhancer Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
2	nsv433206	chr2:142469781-142486875	Weak transcription Enhancers	Chromatin interactive region	n/a	inside rSNPs	n/a
3	nsv530398	chr2:142474842-142843839	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs13024316	PSMC2	trans	parietal	SCAN
rs13024316	DNAH7	trans	brain	seeQTL

Chromatin state (count:11 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:142485000-142486800	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
2	chr2:142485400-142486400	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr2:142485600-142486400	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
4	chr2:142485600-142486600	Enhancers	HUES48 Cell Line	embryonic stem cell
5	chr2:142485600-142486800	Enhancers	iPS-18 Cell Line	embryonic stem cell
6	chr2:142485600-142486800	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
7	chr2:142485600-142487000	Enhancers	HUES64 Cell Line	embryonic stem cell
8	chr2:142485800-142486400	Enhancers	Cortex derived primary cultured neurospheres	brain
9	chr2:142485800-142486600	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
10	chr2:142486000-142486600	Enhancers	iPS-15b Cell Line	embryonic stem cell
11	chr2:142486200-142486800	Enhancers	iPS-20b 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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