Variant report

Variant	rs9474788
Chromosome Location	chr6:54153701-54153702
allele	C/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:17)

rs_ID	r²[population]
rs6902373	0.98[AFR][1000 genomes]
rs6928234	1.00[YRI][hapmap]
rs6936714	0.87[AFR][1000 genomes]
rs6940326	1.00[YRI][hapmap]
rs7743272	0.93[YRI][hapmap]
rs9296748	0.93[AFR][1000 genomes]
rs9296749	1.00[AFR][1000 genomes]
rs9367560	0.83[AFR][1000 genomes]
rs9370287	0.92[YRI][hapmap]
rs9464050	1.00[YRI][hapmap]
rs9464053	1.00[YRI][hapmap]
rs9474786	0.91[AFR][1000 genomes]
rs9474787	1.00[AFR][1000 genomes]
rs9474789	0.98[AFR][1000 genomes]
rs9474790	0.83[AFR][1000 genomes]
rs9474798	1.00[YRI][hapmap]
rs9474812	0.85[YRI][hapmap]

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	nsv1067663	chr6:53796341-54449718	Enhancers Active TSS Weak transcription Strong transcription Flanking Active TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
2	nsv529158	chr6:53796341-54449718	Weak transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Strong transcription Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
3	nsv885888	chr6:54132353-54266032	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:19 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:54149600-54155400	Weak transcription	Muscle Satellite Cultured Cells	--
2	chr6:54151200-54155400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
3	chr6:54151200-54155600	Weak transcription	Osteobl	bone
4	chr6:54151400-54155400	Weak transcription	NH-A	brain
5	chr6:54151400-54155400	Weak transcription	NHLF	lung
6	chr6:54151400-54155800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
7	chr6:54151400-54155800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
8	chr6:54151400-54156000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
9	chr6:54151600-54155400	Weak transcription	HSMM	muscle
10	chr6:54151600-54155400	Weak transcription	NHDF-Ad	bronchial
11	chr6:54151800-54154800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
12	chr6:54152600-54157400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
13	chr6:54152800-54153800	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
14	chr6:54152800-54156000	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
15	chr6:54153000-54154000	Enhancers	HMEC	breast
16	chr6:54153200-54157600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
17	chr6:54153400-54153800	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
18	chr6:54153600-54153800	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
19	chr6:54153600-54154600	Weak transcription	NHEK	skin

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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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