Variant report

Variant	rs12421737
Chromosome Location	chr11:56888920-56888921
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 17 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs10501362	0.89[EUR][1000 genomes]
rs12421295	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs17649150	0.89[EUR][1000 genomes]
rs1941047	0.82[ASN][1000 genomes]
rs2000737	0.81[ASN][1000 genomes]
rs506788	0.83[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs56007623	0.92[AFR][1000 genomes];0.83[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs61886739	0.89[EUR][1000 genomes]
rs61886744	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs638326	0.84[EUR][1000 genomes]
rs7110024	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72914002	0.89[EUR][1000 genomes]
rs72915952	0.92[AFR][1000 genomes];0.84[AMR][1000 genomes];0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs752969	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][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	nsv832162	chr11:56716658-56901528	Bivalent Enhancer Enhancers Flanking Active TSS Active TSS Weak transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	8 gene(s)	inside rSNPs	diseases
2	nsv915640	chr11:56814841-57139786	Weak transcription Transcr. at gene 5' and 3' Enhancers Genic enhancers Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
3	nsv482317	chr11:56857026-57028631	Enhancers Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs12421737	OR8I2	cis	cerebellum	SCAN
rs12421737	PRG2	cis	cerebellum	SCAN

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:56886600-56891000	Weak transcription	Right Atrium	heart
2	chr11:56886800-56889400	Weak transcription	HUES64 Cell Line	embryonic stem cell
3	chr11:56886800-56890400	Weak transcription	HUES48 Cell Line	embryonic stem cell
4	chr11:56887000-56889200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
5	chr11:56887600-56889600	Enhancers	Placenta	Placenta
6	chr11:56888000-56889400	Weak transcription	HUES6 Cell Line	embryonic stem cell
7	chr11:56888200-56889200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
8	chr11:56888200-56890600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
9	chr11:56888200-56894600	Enhancers	K562	blood
10	chr11:56888400-56890600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
11	chr11:56888400-56891200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
12	chr11:56888600-56889000	Weak transcription	hESC Derived CD56+ Ectoderm 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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