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mmu_circAtr_1384
Basic information of circular RNA
PanCircBase ID:
mmu_circAtr_1384
mm39_Chr. Position ID:
chr9|95756130|95770296|+
Gene name:
Atr
Transcript:
ENSMUST00000034980.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
9
Exon/intron indexes:
11,12,13,14,15,16,17,18,19
Exon/intron offsets:
0,273,625,1516,4377,7148,9038,11264,14022
Genomic length:
14166
Exon/intron sizes in nt:
1,91,10,11,72,17,11,95,00,00,00,00,000
Flanking exon/introns:
chr9:95753740-95756130|chr9:95770296-95772815
Splice length:
1384
Other database IDs:
circAtlas: mmu-Atr_0063
Human Ortholog IDs:
Mature spliced Sequence:
CTTTCATAGACAATCTACATCATCTTTGTAAGCATCTTGATTTTCAAGAAGATGAAAGAGAGGTAAAAGCAGTTCTTGGGACTTTATTAAATTTGATGGAAGATCCAGACAAGGATGTTAGAATTGCTTTTAGTGGAAATATCAAGTATATATTGGAATCCTTGAACTCTGAAGATGGATTCGTAAAAGAGCTTTTTGTCTTAAGAATGAAGGAAGCATATACTCATGCCCAAATAGCAAGGAATAATGAGCTAAAGGATACTTTGATTCTTACAACAGGGGATATTGGAAGGGCAGCAAAAGGAGATTTGATACCTTTCGCACTCTTGCATTTACTGCATTGCTTGCTGTCTAAGTCTGCATCCGTCTCTGGAGCGGCATACACAGAGATTCGAGCACTAGTTGCAGCTAAAAGTGTTAAACTGCAGAATTTTTTCAGTCAATATAAGAAACCGATCTGTCAGTTTTTGGTAGAATCTCTCCACTCCAGTCAGATGACAGCACTCCCAAGTGCTCCTTGCCAGTCTTCTGAGATTCGAAAACAAGATGTTGCTCATCACAGAGAGATGGCTTTAAATACCTTATCAGAAATTGCCAATGTTTTTGACTTTCCTGATCTTAATCGTTTCCTGACAAGGACATTACAAGTTCTGCTTCCTGATCTTGCTGCCAAAGCAAGTCCTGCAGCATCGGCTCTCATTCGAACTTTAGGGAAACAATTAAATGTCAGTCGTCGAGAGATTTTAATAAATAACTTCAAATACATCTTTTCCCATTTGGTTTGTTCTTGTTCCAAAGATGAATTAGAACGTGCTCTTCATTATCTGAAGAATGAAACAGAAATTGAGTTGGGGAGCCTGTTAAGACAGGATTTTCAAGGATTGCATAACGAATTATTGCTGCGTATTGGAGAACATTATCAACAAGTTTTCAATGGTTTGTCAATACTTGCCTCATTTGCATCTAGTGATGATCCATATCAGGGACCACGAGATATTACATCACCTGAACTGATGGCTGATTATTTGCAACCAAAATTGTTGGGCATTCTGGCCTTTTTTAATATGCAGTTGCTGAGCTCCAGTGTTGGCATTGAAGATAAGAAAATGGCCTTGACTAGTTTGATGTCTTTGATGAAGTTGATGGGACCTAAACATGTCAGTTCTGTGAGAGTAAAAATGATGACCACACTGAGAACTGGTCTTAGATTCAAGGATGATTTTCCTGAGTTATGCTGCAGAGCATGGGACTGCTTTGTTCGCTGTCTGGATCACGCTTACCTGGGACCCCTGCTCAGTCATGTCATAGTGGCTTTGTTACCTCTCATACACATGCAGCCTAAAGAAACTGCTGCTATCTTTCACTACCTCATCATTGAAAACAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GACCCCTGCTCAGTCATGTC
60.11
CCCAAGAACTGCTTTTACCTCTC
59.25
180
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GACCCCTGCTCAGTCATGTC
60.11
CCCAAGAACTGCTTTTACCTCT
58.24
180
PCR template sequence:
GACCCCTGCTCAGTCATGTCATAGTGGCTTTGTTACCTCTCATACACATGCAGCCTAAAGAAACTGCTGCTATCTTTCACTACCTCATCATTGAAAACAGCTTTCATAGACAATCTACATCATCTTTGTAAGCATCTTGATTTTCAAGAAGATGAAAGAGAGGTAAAAGCAGTTCTTGGGACTTTATTAAATTTGATGGA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
15
Interacting miRNAs (#binding sites)
mmu-miR-362-5p(2), mmu-let-7a-5p(1), mmu-miR-103-3p(1), mmu-let-7e-5p(1), mmu-let-7b-5p(1), mmu-miR-205-5p(1), mmu-let-7c-5p(1), mmu-miR-322-5p(1), mmu-miR-216a-5p(1), mmu-let-7d-5p(1), mmu-miR-107-3p(1), mmu-miR-342-5p(1), mmu-miR-98-5p(1), mmu-miR-29b-2-5p(1), mmu-miR-697(1)
siRNAs for circular RNA silencing
Junction sequence
TCATTGAAAACAGCTTTCATAGACAA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCATR_1384_ORF_1
0.8404
-0.036332802
0.99643155
1320
ORF sequence:
ATGGAAGATCCAGACAAGGATGTTAGAATTGCTTTTAGTGGAAATATCAAGTATATATTGGAATCCTTGAACTCTGAAGATGGATTCGTAAAAGAGCTTTTTGTCTTAAGAATGAAGGAAGCATATACTCATGCCCAAATAGCAAGGAATAATGAGCTAAAGGATACTTTGATTCTTACAACAGGGGATATTGGAAGGGCAGCAAAAGGAGATTTGATACCTTTCGCACTCTTGCATTTACTGCATTGCTTGCTGTCTAAGTCTGCATCCGTCTCTGGAGCGGCATACACAGAGATTCGAGCACTAGTTGCAGCTAAAAGTGTTAAACTGCAGAATTTTTTCAGTCAATATAAGAAACCGATCTGTCAGTTTTTGGTAGAATCTCTCCACTCCAGTCAGATGACAGCACTCCCAAGTGCTCCTTGCCAGTCTTCTGAGATTCGAAAACAAGATGTTGCTCATCACAGAGAGATGGCTTTAAATACCTTATCAGAAATTGCCAATGTTTTTGACTTTCCTGATCTTAATCGTTTCCTGACAAGGACATTACAAGTTCTGCTTCCTGATCTTGCTGCCAAAGCAAGTCCTGCAGCATCGGCTCTCATTCGAACTTTAGGGAAACAATTAAATGTCAGTCGTCGAGAGATTTTAATAAATAACTTCAAATACATCTTTTCCCATTTGGTTTGTTCTTGTTCCAAAGATGAATTAGAACGTGCTCTTCATTATCTGAAGAATGAAACAGAAATTGAGTTGGGGAGCCTGTTAAGACAGGATTTTCAAGGATTGCATAACGAATTATTGCTGCGTATTGGAGAACATTATCAACAAGTTTTCAATGGTTTGTCAATACTTGCCTCATTTGCATCTAGTGATGATCCATATCAGGGACCACGAGATATTACATCACCTGAACTGATGGCTGATTATTTGCAACCAAAATTGTTGGGCATTCTGGCCTTTTTTAATATGCAGTTGCTGAGCTCCAGTGTTGGCATTGAAGATAAGAAAATGGCCTTGACTAGTTTGATGTCTTTGATGAAGTTGATGGGACCTAAACATGTCAGTTCTGTGAGAGTAAAAATGATGACCACACTGAGAACTGGTCTTAGATTCAAGGATGATTTTCCTGAGTTATGCTGCAGAGCATGGGACTGCTTTGTTCGCTGTCTGGATCACGCTTACCTGGGACCCCTGCTCAGTCATGTCATAGTGGCTTTGTTACCTCTCATACACATGCAGCCTAAAGAAACTGCTGCTATCTTTCACTACCTCATCATTGAAAACAGCTTTCATAGACAATCTACATCATCTTTGTAA
Peptide sequence:
MEDPDKDVRIAFSGNIKYILESLNSEDGFVKELFVLRMKEAYTHAQIARNNELKDTLILTTGDIGRAAKGDLIPFALLHLLHCLLSKSASVSGAAYTEIRALVAAKSVKLQNFFSQYKKPICQFLVESLHSSQMTALPSAPCQSSEIRKQDVAHHREMALNTLSEIANVFDFPDLNRFLTRTLQVLLPDLAAKASPAASALIRTLGKQLNVSRREILINNFKYIFSHLVCSCSKDELERALHYLKNETEIELGSLLRQDFQGLHNELLLRIGEHYQQVFNGLSILASFASSDDPYQGPRDITSPELMADYLQPKLLGILAFFNMQLLSSSVGIEDKKMALTSLMSLMKLMGPKHVSSVRVKMMTTLRTGLRFKDDFPELCCRAWDCFVRCLDHAYLGPLLSHVIVALLPLIHMQPKETAAIFHYLIIENSFHRQSTSSL
IRESfinder result
IRESfinder score
0.759802112
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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