Variant report

Variant	rs1447611
Chromosome Location	chr3:160593356-160593357
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 18 )
Associated
traits (count: 1 )

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

rs_ID	r²[population]
rs12636616	0.86[CHB][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap]
rs12638359	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs12638531	1.00[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs1447614	0.86[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.94[LWK][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs1447625	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.84[LWK][hapmap];1.00[MEX][hapmap];0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1447627	1.00[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs34673399	0.97[ASN][1000 genomes]
rs56707676	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs61344153	0.97[ASN][1000 genomes]
rs61651193	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs6785317	1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[YRI][hapmap];0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs6800633	1.00[CHB][hapmap];0.82[ASN][1000 genomes]
rs6806892	1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[YRI][hapmap];0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7636214	1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv532666	chr3:159777847-160703202	Enhancers Weak transcription ZNF genes & repeats Strong transcription Bivalent/Poised TSS Active TSS Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	271 gene(s)	inside rSNPs	diseases
2	nsv1009249	chr3:160496237-160627378	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Active TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
3	nsv536780	chr3:160496237-160627378	Enhancers Flanking Active TSS Active TSS Weak transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
4	esv32963	chr3:160555238-160603116	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs1447611	FOXG1	trans	lymphoblastoid	seeQTL

Chromatin state (count:14 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:160588200-160594000	Weak transcription	Fetal Heart	heart
2	chr3:160588200-160594400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
3	chr3:160588400-160594000	Weak transcription	Duodenum Smooth Muscle	Duodenum
4	chr3:160588400-160594000	Weak transcription	Left Ventricle	heart
5	chr3:160588400-160594200	Weak transcription	Stomach Smooth Muscle	stomach
6	chr3:160588600-160594000	Weak transcription	Right Atrium	heart
7	chr3:160588600-160594400	Weak transcription	Right Ventricle	heart
8	chr3:160589000-160596000	Weak transcription	Colon Smooth Muscle	Colon
9	chr3:160589200-160594000	Weak transcription	Brain Anterior Caudate	brain
10	chr3:160591800-160595600	Enhancers	Skeletal Muscle Female	skeletal muscle
11	chr3:160592200-160595600	Enhancers	Skeletal Muscle Male	skeletal muscle
12	chr3:160592800-160594000	Weak transcription	Fetal Muscle Leg	muscle
13	chr3:160592800-160594000	Weak transcription	Psoas Muscle	Psoas
14	chr3:160593200-160593600	Weak transcription	Pancreatic Islets	Pancreatic Islet

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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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