Variant report

Variant	rs2213661
Chromosome Location	chr6:36126650-36126651
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 5 )
Associated
traits (count: 3 )

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

rs_ID	r²[population]
rs11759995	0.91[AFR][1000 genomes];0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs17715303	0.88[ASW][hapmap];1.00[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];0.94[LWK][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs763096	0.80[CEU][hapmap];0.89[JPT][hapmap];0.88[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs9689951	0.80[AMR][1000 genomes]

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
rs2213661	MDGA1	cis	parietal	SCAN
rs2213661	MAPK14	cis	cerebellum	SCAN
rs2213661	SNRPC	cis	cerebellum	SCAN

Chromatin state (count:12 , 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	chr6:36118600-36145800	Weak transcription	Skeletal Muscle Male	skeletal muscle
7	chr6:36122600-36128000	Weak transcription	Ovary	ovary
8	chr6:36124400-36128000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
9	chr6:36125800-36127000	Enhancers	Primary monocytes fromperipheralblood	blood
10	chr6:36126200-36126800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
11	chr6:36126200-36127000	Enhancers	Monocytes-CD14+_RO01746	blood
12	chr6:36126400-36127000	Enhancers	Primary neutrophils fromperipheralblood	blood

Quick Search:

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

what's new

Quick links