Variant report

Variant	rs10877700
Chromosome Location	chr12:62004315-62004316
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 15 )
Associated
traits (count: 4 )

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs10877707	0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11174116	0.80[AFR][1000 genomes];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11174122	0.89[CEU][hapmap];0.91[CHB][hapmap];0.96[GIH][hapmap];0.95[JPT][hapmap];0.95[LWK][hapmap];0.93[TSI][hapmap];0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11174125	0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11174126	0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11174141	0.86[MKK][hapmap]
rs11609247	0.89[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1395490	0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1580975	0.88[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs34032839	0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4616113	0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs61941851	0.80[AFR][1000 genomes];0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7974797	0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1042044	chr12:61256015-62196885	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Strong transcription Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
2	nsv832434	chr12:61823919-62033626	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:4)

SNP	Gene	Cis/trans	Tissue	Source
rs10877700	RPL41	cis	cerebellum	SCAN
rs10877700	SCN4A	trans	parietal	SCAN
rs10877700	R3HDM2	cis	cerebellum	SCAN
rs10877700	OS9	cis	cerebellum	SCAN

Chromatin state (count:2 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:62003800-62004800	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr12:62004000-62004400	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived

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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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