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mmu_ciCopb2_892
Basic information of circular RNA
PanCircBase ID:
mmu_ciCopb2_892
mm39_Chr. Position ID:
chr9|98468199|98469091|+
Gene name:
Copb2
Transcript:
ENSMUST00000035033.7
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
17
Exon/intron offsets:
0
Genomic length:
892
Exon/intron sizes in nt:
892
Flanking exon/introns:
chr9:98468199-98469092
Splice length:
892
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAAGTATTATCTCAAGGTCTAAAACACTTTTAAGGAGTTGTAAGCAGTGTTTCTCCACTGACTGTGAGGATGGTGCTTGAGAGGCATATGGTACACAAATCCTGGGACAGCTGGTGATGGCCGACTGTTGCTGAATGGTGGGGGCAGCCAGAGAACAGTGCTACCTACCTTGGTGGCACTAGCCTTCAGCAAGGTGCTCTGGTAACTTTTGATCTCTATCTTTATGCTTGAGTTGTTAATTAATGTGTGGTTCAGAGTCAGAGAGCCCACCAGTCACTTATTCCTAGACCATTTTACTGAATGATAGGAGGCTGCTGTTCTCCAGTTGGTACCTAATGGCAGGCAGAGGACTGTCTGCACCAGGCAGTTCTGACCTGTTATGTGCAAGGATAGGAGGATGAAAATGCTATTTACTATTTGAGCTCAACTGTGAAAACATCATGAATTTTTAAGTCTAGCAGAGTTAATGTGAGCTATGTCATATGGACATCAGTTTGCCTTTTAGAAATAAACATAAAAGTATTACTAATCTTGCTCTATGTGCCAAACATCCTAGACCTCACCGTCAAACATTTTATTAAGGTTTGCTAAAGAACCGAACTCCAGGGATTAGTGCACACTAGACAAGTATTCATTACTGAGCTGCACTTCCAGACCTGTCATAAAACTCAGTTATACAAATAAGCTGAAAGCAGTCATGAACACTGCTGTGCCTCACACCCACAAAGTTCGCTGGTTTTGTTCAACATTGAGACAAAGGGCTGAGCAACAGAAGTGAATGTGCAAGGGGCAGAGGCACTGGAGGATTTTGCCTCTGCAACAGGTTCACACTTTCAGCTTTATCTGCTGTTACCATTTGTTTGTCTAACAGCATCTCCGCTTTACTCTGTA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCCTCTGCAACAGGTTCACA
60.82
ATGCCTCTCAAGCACCATCC
60.11
169
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGCCTCTGCAACAGGTTCAC
60.82
ATGCCTCTCAAGCACCATCC
60.11
170
PCR template sequence:
AGAGGCACTGGAGGATTTTGCCTCTGCAACAGGTTCACACTTTCAGCTTTATCTGCTGTTACCATTTGTTTGTCTAACAGCATCTCCGCTTTACTCTGTAGTAAGTATTATCTCAAGGTCTAAAACACTTTTAAGGAGTTGTAAGCAGTGTTTCTCCACTGACTGTGAGGATGGTGCTTGAGAGGCATATGGTACACAAA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
18
Interacting miRNAs (#binding sites)
mmu-miR-134-5p(1), mmu-miR-200a-3p(1), mmu-miR-141-3p(1), mmu-miR-27b-3p(1), mmu-miR-27a-3p(1), mmu-miR-199a-5p(1), mmu-miR-181a-5p(1), mmu-miR-29b-3p(1), mmu-miR-29a-3p(1), mmu-miR-29c-3p(1), mmu-miR-298-5p(1), mmu-miR-181b-5p(1), mmu-miR-433-3p(1), mmu-miR-96-5p(1), mmu-miR-212-3p(1), mmu-miR-194-5p(1), mmu-miR-690(1), mmu-miR-181d-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GCTTTACTCTGTAGTAAGTATTATCT
siRNA sets
GATAATACTTACTACAGAG, AGATAATACTTACTACAGA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
NA
NA
NA
NA
NA
ORF sequence:
NA
Peptide sequence:
NA
IRESfinder result
IRESfinder score
0.748824852
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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