Variant report

Variant	rs11962468
Chromosome Location	chr6:24226789-24226790
allele	C/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:17)

rs_ID	r²[population]
rs11962116	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs11962500	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs11966291	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs12110711	0.82[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs57440601	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs59336318	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs59713487	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs60955845	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs61232212	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62400392	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs62400393	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs62400397	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs62403464	0.94[AFR][1000 genomes]
rs62403465	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs62403469	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs62403472	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73394068	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes]

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	nsv1029930	chr6:23481989-24289948	Enhancers Flanking Active TSS Strong transcription Bivalent Enhancer Weak transcription Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
2	nsv427746	chr6:24221299-24305709	Weak transcription Enhancers Active TSS Genic enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer	Chromatin interactive region	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	chr6:24206200-24231400	Weak transcription	Fetal Intestine Small	intestine
2	chr6:24206800-24227600	Weak transcription	Fetal Kidney	kidney
3	chr6:24214600-24235400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
4	chr6:24217800-24231600	Weak transcription	Rectal Smooth Muscle	rectum
5	chr6:24224800-24228800	Strong transcription	HepG2	liver
6	chr6:24225000-24229000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr6:24225000-24229200	Weak transcription	Pancreas	Pancrea
8	chr6:24226600-24227000	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived

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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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