Variant report

Variant	rs61789561
Chromosome Location	chr3:135917627-135917628
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:3)
CpG islands
(count:0)
Chromatin interactive
region (count:6)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:3 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	CBX3	chr3:135917295-135917695	K562	blood:	n/a	n/a
2	KAP1	chr3:135917198-135917793	K562	blood:	n/a	n/a
3	SETDB1	chr3:135917171-135917707	U2OS	brain:	n/a	n/a

No data

(count:6 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:135871720..135874662-chr3:135916367..135919284,3	MCF-7	breast:
2	chr3:135912324..135920790-chr3:135965276..135971841,24	K562	blood:
3	chr3:135915695..135917970-chr3:135924534..135927537,3	K562	blood:
4	chr3:135916249..135918777-chr3:135964014..135966844,3	K562	blood:
5	chr3:135914663..135917728-chr3:135920669..135925255,5	MCF-7	breast:
6	chr3:135912523..135919453-chr3:135966949..135972062,29	K562	blood:

No data

No data

No data

Variant related genes	Relation type
MSL2	TF binding region
ENSG00000114054	Chromatin interaction
ENSG00000244740	Chromatin interaction
ENSG00000241438	Chromatin interaction

Extended variants
information (count: 9 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:8)

rs_ID	r²[population]
rs1154988	0.84[EUR][1000 genomes]
rs35087366	1.00[ASN][1000 genomes]
rs61789601	0.91[AFR][1000 genomes];0.90[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs645040	0.85[EUR][1000 genomes]
rs6779146	0.81[EUR][1000 genomes]
rs687339	0.82[EUR][1000 genomes]
rs866782	0.82[EUR][1000 genomes]
rs9647335	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv869409	chr3:135649101-136164174	Strong transcription Genic enhancers Enhancers Active TSS Weak transcription ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	50 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:135916200-135922600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr3:135917200-135918800	Enhancers	Dnd41	blood
3	chr3:135917200-135922400	Weak transcription	HUVEC	blood vessel
4	chr3:135917400-135922000	Weak transcription	HepG2	liver

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