top of page
mmu_circAtrn_260
Basic information of circular RNA
PanCircBase ID:
mmu_circAtrn_260
mm39_Chr. Position ID:
chr2|130789478|130799031|+
Gene name:
Atrn
Transcript:
ENSMUST00000028781.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
6,7
Exon/intron offsets:
0,9462
Genomic length:
9553
Exon/intron sizes in nt:
169,91
Flanking exon/introns:
chr2:130788139-130789478|chr2:130799031-130799824
Splice length:
260
Other database IDs:
CIRCpedia: MMU_CIRCpedia_7639, circAtlas: mmu-Atrn_0019
Human Ortholog IDs:
Mature spliced Sequence:
GTCCTGGATGCTCAATTCCTGTGCCAGCTAACCAGTCTTTTTGGACTCGAGAAGAATATTCTGATTTAAAGCTTCCCAGAGCCTCTCATAAAGCTGTGGTCAATGGAAATATAATGTGGGTTGTTGGCGGATATATGTTCAACCATTCAGATTACAGCATGGTTTTAGCGTATGACCTGACTTCTAGGGAATGGCTTCCACTAAACCATTCTGTGAACAGTGTGGTTGTAAGATATGGTCATTCTTTGGCATTACATAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACCTGACTTCTAGGGAATGGC
59.16
ATGAGAGGCTCTGGGAAGCT
60.33
175
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACCTGACTTCTAGGGAATGGC
59.16
TGAGAGGCTCTGGGAAGCTT
60.55
174
PCR template sequence:
GGTTTTAGCGTATGACCTGACTTCTAGGGAATGGCTTCCACTAAACCATTCTGTGAACAGTGTGGTTGTAAGATATGGTCATTCTTTGGCATTACATAAGGTCCTGGATGCTCAATTCCTGTGCCAGCTAACCAGTCTTTTTGGACTCGAGAAGAATATTCTGATTTAAAGCTTCCCAGAGCCTCTCATAAAGCTGTGGT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
NA
Interacting miRNAs (#binding sites)
NA
siRNAs for circular RNA silencing
Junction sequence
GGCATTACATAAGGTCCTGGATGCTC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCATRN_260_ORF_1
0.8424
-0.088748507
0.076361742
216
ORF sequence:
ATGTGGGTTGTTGGCGGATATATGTTCAACCATTCAGATTACAGCATGGTTTTAGCGTATGACCTGACTTCTAGGGAATGGCTTCCACTAAACCATTCTGTGAACAGTGTGGTTGTAAGATATGGTCATTCTTTGGCATTACATAAGGTCCTGGATGCTCAATTCCTGTGCCAGCTAACCAGTCTTTTTGGACTCGAGAAGAATATTCTGATTTAA
Peptide sequence:
MWVVGGYMFNHSDYSMVLAYDLTSREWLPLNHSVNSVVVRYGHSLALHKVLDAQFLCQLTSLFGLEKNILI
IRESfinder result
IRESfinder score
0.752303026
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page