Variant report

Variant	rs2859131
Chromosome Location	chr6:36119657-36119658
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 17 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs2071864	0.82[CHD][hapmap];0.85[GIH][hapmap]
rs2239798	0.80[CEU][hapmap]
rs2815804	0.83[EUR][1000 genomes]
rs2815807	0.89[ASW][hapmap];0.84[CHB][hapmap];0.95[CHD][hapmap];0.95[GIH][hapmap];0.90[JPT][hapmap];0.95[LWK][hapmap];0.91[MEX][hapmap];0.97[MKK][hapmap];0.82[TSI][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2859129	1.00[ASW][hapmap];1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2859133	0.97[AFR][1000 genomes];0.94[AMR][1000 genomes];0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4713933	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9394331	0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9462161	0.93[CEU][hapmap];0.89[YRI][hapmap];0.90[AFR][1000 genomes]
rs9470222	0.94[ASW][hapmap];0.93[CEU][hapmap];0.93[LWK][hapmap];0.97[MKK][hapmap];0.88[TSI][hapmap];0.89[YRI][hapmap];0.90[AFR][1000 genomes]
rs9470226	0.93[CEU][hapmap];0.89[YRI][hapmap];0.87[AFR][1000 genomes]
rs9470229	0.80[CEU][hapmap];0.86[MKK][hapmap]
rs9470230	0.80[CEU][hapmap]
rs9470233	0.80[CEU][hapmap]
rs9470234	0.80[CEU][hapmap]
rs9470235	0.80[CEU][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	esv3363467	chr6:35820920-36222197	Enhancers Strong transcription Bivalent Enhancer Active TSS Genic enhancers Flanking Active TSS Weak transcription Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs2859131	MAPK14	cis	cerebellum	SCAN
rs2859131	MDGA1	cis	parietal	SCAN
rs2859131	C6orf222	cis	parietal	SCAN

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:36101200-36129400	Weak transcription	Brain Inferior Temporal Lobe	brain
2	chr6:36110000-36145000	Weak transcription	Primary T cells from cord blood	blood
3	chr6:36110200-36137200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
4	chr6:36118000-36127800	Weak transcription	Skeletal Muscle Female	skeletal muscle
5	chr6:36118000-36129000	Weak transcription	HepG2	liver
6	chr6:36118600-36120600	Weak transcription	Monocytes-CD14+_RO01746	blood
7	chr6:36118600-36145800	Weak transcription	Skeletal Muscle Male	skeletal muscle
8	chr6:36119200-36120200	Weak transcription	Placenta	Placenta

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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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