Variant report

Variant	rs11230235
Chromosome Location	chr11:60063596-60063597
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 9 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:8)

rs_ID	r²[population]
rs10431136	1.00[YRI][hapmap];0.84[AFR][1000 genomes]
rs10897024	0.87[YRI][hapmap];0.97[AFR][1000 genomes];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11230239	1.00[YRI][hapmap];0.86[AFR][1000 genomes]
rs11230240	1.00[ASW][hapmap];0.88[LWK][hapmap];0.86[MKK][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes]
rs2044981	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[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];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2044982	0.83[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs61900468	0.82[AFR][1000 genomes]
rs7103808	0.84[AFR][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	nsv832174	chr11:59909267-60073908	Enhancers ZNF genes & repeats Weak transcription Strong transcription Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA	5 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs11230235	SLC22A6	cis	cerebellum	SCAN
rs11230235	MS4A4A	cis	cerebellum	SCAN

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:60056800-60069000	Weak transcription	Placenta	Placenta
2	chr11:60058000-60074800	Weak transcription	Primary hematopoietic stem cells	blood
3	chr11:60059200-60078400	Weak transcription	Primary B cells from cord blood	blood
4	chr11:60059600-60066800	Strong transcription	Monocytes-CD14+_RO01746	blood
5	chr11:60060200-60064000	Weak transcription	Primary neutrophils fromperipheralblood	blood
6	chr11:60061800-60064600	Weak transcription	Primary monocytes 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