Variant report

Variant	rs9474798
Chromosome Location	chr6:54172298-54172299
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 14 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs28523853	0.89[AFR][1000 genomes]
rs6928234	1.00[ASW][hapmap];0.90[LWK][hapmap];0.93[MKK][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes]
rs6940326	1.00[YRI][hapmap];0.91[AFR][1000 genomes]
rs7743272	0.93[YRI][hapmap]
rs9367560	0.80[AFR][1000 genomes]
rs9370287	0.92[YRI][hapmap]
rs9464050	1.00[YRI][hapmap];0.89[AFR][1000 genomes]
rs9464053	1.00[YRI][hapmap];0.91[AFR][1000 genomes]
rs9474756	0.80[MKK][hapmap]
rs9474790	0.80[AFR][1000 genomes]
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:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:54168800-54176400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr6:54171600-54172800	Enhancers	Fetal Intestine Large	intestine
3	chr6:54171800-54172400	Enhancers	Duodenum Mucosa	Duodenum
4	chr6:54171800-54172400	Enhancers	Rectal Mucosa Donor 31	rectum
5	chr6:54171800-54172600	Enhancers	Fetal Intestine Small	intestine
6	chr6:54171800-54173800	Enhancers	HepG2	liver
7	chr6:54171800-54176600	Active TSS	Rectal Mucosa Donor 29	rectum
8	chr6:54172200-54176200	Active TSS	Fetal Kidney	kidney

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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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