Variant report

Variant	rs2894816
Chromosome Location	chr6:53834698-53834699
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 23 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs12196155	0.88[EUR][1000 genomes]
rs1543356	0.83[EUR][1000 genomes]
rs2473599	0.81[EUR][1000 genomes]
rs2473601	0.84[EUR][1000 genomes]
rs2494087	0.82[EUR][1000 genomes]
rs2494089	0.84[EUR][1000 genomes]
rs2494090	0.86[EUR][1000 genomes]
rs2494091	0.84[EUR][1000 genomes]
rs2745460	0.86[EUR][1000 genomes]
rs6458974	1.00[ASN][1000 genomes]
rs6903532	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs761135	0.84[EUR][1000 genomes]
rs761136	0.94[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs763814	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7752800	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs7772783	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs9382261	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs9382262	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs9382264	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs9464005	0.87[EUR][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	nsv1034955	chr6:53447607-53931055	Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Strong transcription Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
2	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
3	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

No data

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:53827400-53836000	Weak transcription	H1 Cell Line	embryonic stem cell
2	chr6:53827400-53836000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
3	chr6:53827800-53836000	Weak transcription	Psoas Muscle	Psoas
4	chr6:53832600-53836000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
5	chr6:53832600-53836000	Weak transcription	H9 Cell Line	embryonic stem cell
6	chr6:53832600-53836000	Weak transcription	HUES6 Cell Line	embryonic stem cell
7	chr6:53832600-53836000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
8	chr6:53832600-53836000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
9	chr6:53832800-53836000	Weak transcription	HUES48 Cell Line	embryonic stem cell
10	chr6:53832800-53836000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
11	chr6:53833200-53836000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
12	chr6:53833400-53835800	Weak transcription	HUES64 Cell Line	embryonic stem cell

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

what's new

Quick links