Variant report

Variant	rs1546911
Chromosome Location	chr6:39456287-39456288
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 19 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs1109772	1.00[CHB][hapmap]
rs11751171	1.00[CHB][hapmap]
rs11755807	1.00[CHB][hapmap]
rs11758434	1.00[CHB][hapmap]
rs12194060	1.00[CHB][hapmap]
rs16891904	1.00[CHB][hapmap]
rs17457567	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55637570	1.00[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs55781957	1.00[AFR][1000 genomes]
rs56002751	1.00[ASN][1000 genomes]
rs62403323	1.00[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs62403328	1.00[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs62403335	1.00[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs62403355	1.00[ASN][1000 genomes]
rs62403356	1.00[ASN][1000 genomes]
rs9471115	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[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	nsv885822	chr6:39327708-39721216	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
2	nsv428145	chr6:39404129-39460795	Enhancers Weak transcription Bivalent Enhancer Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh	TF binding region Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
3	nsv885823	chr6:39421715-39526867	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:11 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:39455000-39456400	Enhancers	Stomach Smooth Muscle	stomach
2	chr6:39455200-39456400	Enhancers	Brain Angular Gyrus	brain
3	chr6:39455200-39462800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
4	chr6:39455400-39459000	Enhancers	Fetal Lung	lung
5	chr6:39455400-39465200	Weak transcription	Right Atrium	heart
6	chr6:39455800-39456800	Enhancers	Brain Hippocampus Middle	brain
7	chr6:39456000-39456400	Enhancers	Brain Cingulate Gyrus	brain
8	chr6:39456000-39456400	Enhancers	Colon Smooth Muscle	Colon
9	chr6:39456000-39456400	Enhancers	Rectal Smooth Muscle	rectum
10	chr6:39456200-39456800	Weak transcription	Adipose Nuclei	Adipose
11	chr6:39456200-39457400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte 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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