Variant report

Variant	rs1404272
Chromosome Location	chr3:179644264-179644265
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 20 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs11923858	1.00[CHB][hapmap]
rs12171276	0.80[CEU][hapmap]
rs12487519	0.93[CEU][hapmap]
rs13071231	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs13085715	0.84[AMR][1000 genomes]
rs13093050	0.99[EUR][1000 genomes]
rs17691629	0.87[CEU][hapmap];0.86[AFR][1000 genomes]
rs17691869	0.87[CEU][hapmap]
rs17692126	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs17749273	1.00[CHB][hapmap]
rs28651290	0.86[AFR][1000 genomes]
rs34061679	0.99[EUR][1000 genomes]
rs34446871	0.87[CEU][hapmap];0.86[AFR][1000 genomes]
rs62291649	0.86[AFR][1000 genomes]
rs62293070	0.99[EUR][1000 genomes]
rs62293072	0.98[EUR][1000 genomes]
rs6807998	1.00[CHB][hapmap]
rs9822592	0.87[CEU][hapmap]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv829807	chr3:179527567-179745153	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	nsv829808	chr3:179574614-179754321	Strong transcription Bivalent/Poised TSS Enhancers Weak transcription Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:15 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:179639600-179646200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
2	chr3:179640000-179647600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
3	chr3:179642200-179646200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
4	chr3:179642400-179646000	Weak transcription	Thymus	Thymus
5	chr3:179642400-179646400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
6	chr3:179642400-179651000	Weak transcription	H9 Cell Line	embryonic stem cell
7	chr3:179643800-179644400	Enhancers	Brain Hippocampus Middle	brain
8	chr3:179643800-179644400	Enhancers	Brain Substantia Nigra	brain
9	chr3:179644000-179644400	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
10	chr3:179644000-179644400	Enhancers	Brain Inferior Temporal Lobe	brain
11	chr3:179644000-179644400	Enhancers	Pancreas	Pancrea
12	chr3:179644000-179644600	Enhancers	Brain Cingulate Gyrus	brain
13	chr3:179644200-179644400	Enhancers	Brain Anterior Caudate	brain
14	chr3:179644200-179645000	Weak transcription	Brain Angular Gyrus	brain
15	chr3:179644200-179652000	Enhancers	Dnd41	blood

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dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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