Variant report

Variant	rs9885849
Chromosome Location	chr6:55806339-55806340
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	RAD21	chr6:55806275-55806995	SK-N-SH	brain:	n/a	n/a
2	CTCF	chr6:55806338-55806980	A549	lung:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:55310627..55311224-chr6:55806307..55806968,2	MCF-7	breast:
2	chr6:55313873..55314721-chr6:55806208..55806737,2	MCF-7	breast:

Variant related genes	Relation type
NPM1P36	TF binding region

Extended variants
information (count: 28 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:22)

rs_ID	r²[population]
rs11965332	1.00[EUR][1000 genomes]
rs35338969	1.00[EUR][1000 genomes]
rs57942055	1.00[EUR][1000 genomes]
rs59302865	1.00[EUR][1000 genomes]
rs6459121	1.00[EUR][1000 genomes]
rs6902463	0.88[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs6922937	0.88[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs6925547	0.93[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs6938871	0.88[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs73442195	1.00[EUR][1000 genomes]
rs73444263	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73444285	0.90[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs73446214	0.82[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs73455141	1.00[EUR][1000 genomes]
rs73457035	1.00[EUR][1000 genomes]
rs7453182	1.00[EUR][1000 genomes]
rs9464312	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9464313	0.91[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs9464314	0.88[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs9475483	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9475484	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9475485	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1034037	chr6:55222409-56069600	Enhancers Strong transcription Weak transcription Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Active TSS ZNF genes & repeats Flanking Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
2	nsv1024174	chr6:55713889-55829936	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
3	nsv1029301	chr6:55713889-55834480	Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Strong transcription Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
4	nsv830665	chr6:55755560-55920219	Flanking Active TSS Weak transcription Enhancers Active TSS Bivalent Enhancer ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
5	nsv5312	chr6:55784991-55830051	Active TSS Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats	TF binding region Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
6	nsv885911	chr6:55789704-56143231	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:0 , 50 per page) page:

No data

Quick Search:

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

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links