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mmu_circCcdc57_1333
Basic information of circular RNA
PanCircBase ID:
mmu_circCcdc57_1333
mm39_Chr. Position ID:
chr11|120751226|120776889|-
Gene name:
Ccdc57
Transcript:
ENSMUST00000056781.5
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
8
Exon/intron indexes:
18,17,16,15,14,13,12,11
Exon/intron offsets:
0,737,6154,13185,18477,21414,24832,25449
Genomic length:
25663
Exon/intron sizes in nt:
2,26,13,21,22,21,41,71,00,00,00,000
Flanking exon/introns:
chr11:120717750-120751226|chr11:120776889-120785424
Splice length:
1333
Other database IDs:
CIRCpedia: MMU_CIRCpedia_5240, circAtlas: mmu-Ccdc57_0019
Human Ortholog IDs:
Mature spliced Sequence:
GTACCTCCTCAGCAGCATGAAGGAGAAATAAGGGCAGATTCTCCATCTACTGAGATCCAGAGGCTACAGGAACAGAATGCAGGTCTGCGGAACGCTGTTTCACAGATGAGGAGAGAGATGGAGATGCTGAGCGGTCATCTCCCCCCTGCCCAGCCAGAAGAGTGTTCAAATGCAGACCCTGATCCCAAGGCTGGAGGAGACTCCACCCCTCCAGATTATGTTCTGACCCTTGAAGCAGAAATGCAAAATCTAAAGCATAAACTTAAGGCATTGGAGGAACAACTACAAAGCACAGAAGAGCCAGTGAAGACGTCCGTGGCCACTGCTGATCCACACCATGGTGTCCACAGCTCTGCAGCAGCAGCTGACGCAGCTCTGGCAGACCAGACATCCACTGCATTAGCACTCAGAAAACTTGGAGACAGAGTGCACCTCTTGAACTTGCTGGTGACACAGCTCAAAAGGAAGCTGCGGCAGAAGCCCCGGGAGCTGGTCCCTGTCCAACACGAGGTCCCCAGTGAGGTGGACCAGGTGCACCTGGAGGTTTTGGAGCTGCAGAAGCAGGTGGCTGAGTTAAGGAAGCATCTCAAGGTGACACCCCAGGGAGAGCCTTCATCCAGGGAGCAGTTACAGAGACAGGGTGTGGCAGACCGGTACCCCATGGGCATGGAAGACCAGACGGAGTCCCCTACTTTCCCCCAGGAAGGGGCACAGCCTCCACAGACCATATATGTGACCCATCTGCAAAGGAAATTAAAGGATGCAGCTAGGAAAATACTCAGCCTCCGCCTAGAGAGGGAACAGCTCCTAGAAATGGGAAATAGACTCCGAGCTGAGCAAGGCCACGCAAAAGGGAAACCAACTCCTTGCCCAGGTCCTCCCACCTCTGAACCCCAGGACCCCCAGGAGGTGCCTGAGAGATCTTTGGACCGTGGCCCACCTTTGGGACAATTGCAGCCCTACTCAACAACTCAGGACCCCAGGCACACCAAGAGAAGATGTGCTTCTGAGTATGCAGGGAAGAGTCAACCCCACTCAGCACAAGTGGGCAGCAAAACCAACACCCCACGAGGCCACAAGGCAGAAATGGCGTCAAGGCCTGCTCAGCTCTCACAGAAGCAGCACAGAATCCCCACAGAGACTTGGAAGCCAGTTTATCAGAAAGAAAACAGGACCCCAAAGCTACCACAGGCTCATGAAGTCCCTGAAGAAAGTGACCACCGTACCCACAGATCGTCTTCATTGGCCAGCAGTTCCCTCCAAGACATCTGGAGGCTGCTAGAGCTGGGATCCAGCCCTTCGGGCGTCCCCTCACAGGATAACTCTGTTGCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CAAGACATCTGGAGGCTGCT
59.75
TCTGTTCCTGTAGCCTCTGGA
59.92
149
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCAGCAGTTCCCTCCAAGAC
60.32
TCTGTTCCTGTAGCCTCTGGA
59.92
163
PCR template sequence:
TCGTCTTCATTGGCCAGCAGTTCCCTCCAAGACATCTGGAGGCTGCTAGAGCTGGGATCCAGCCCTTCGGGCGTCCCCTCACAGGATAACTCTGTTGCAGGTACCTCCTCAGCAGCATGAAGGAGAAATAAGGGCAGATTCTCCATCTACTGAGATCCAGAGGCTACAGGAACAGAATGCAGGTCTGCGGAACGCTGTTT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
10
Interacting miRNAs (#binding sites)
mmu-miR-211-5p(1), mmu-miR-18a-5p(1), mmu-miR-143-3p(1), mmu-miR-339-5p(1), mmu-miR-676-3p(1), mmu-miR-705(1), mmu-miR-29b-2-5p(1), mmu-miR-532-5p(1), mmu-miR-3470b(1), mmu-miR-296-3p(1)
siRNAs for circular RNA silencing
Junction sequence
AACTCTGTTGCAGGTACCTCCTCAGC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCCCDC57_1333_ORF_1
1.032
0.217097222
0.998509769
1248
ORF sequence:
ATGAGGAGAGAGATGGAGATGCTGAGCGGTCATCTCCCCCCTGCCCAGCCAGAAGAGTGTTCAAATGCAGACCCTGATCCCAAGGCTGGAGGAGACTCCACCCCTCCAGATTATGTTCTGACCCTTGAAGCAGAAATGCAAAATCTAAAGCATAAACTTAAGGCATTGGAGGAACAACTACAAAGCACAGAAGAGCCAGTGAAGACGTCCGTGGCCACTGCTGATCCACACCATGGTGTCCACAGCTCTGCAGCAGCAGCTGACGCAGCTCTGGCAGACCAGACATCCACTGCATTAGCACTCAGAAAACTTGGAGACAGAGTGCACCTCTTGAACTTGCTGGTGACACAGCTCAAAAGGAAGCTGCGGCAGAAGCCCCGGGAGCTGGTCCCTGTCCAACACGAGGTCCCCAGTGAGGTGGACCAGGTGCACCTGGAGGTTTTGGAGCTGCAGAAGCAGGTGGCTGAGTTAAGGAAGCATCTCAAGGTGACACCCCAGGGAGAGCCTTCATCCAGGGAGCAGTTACAGAGACAGGGTGTGGCAGACCGGTACCCCATGGGCATGGAAGACCAGACGGAGTCCCCTACTTTCCCCCAGGAAGGGGCACAGCCTCCACAGACCATATATGTGACCCATCTGCAAAGGAAATTAAAGGATGCAGCTAGGAAAATACTCAGCCTCCGCCTAGAGAGGGAACAGCTCCTAGAAATGGGAAATAGACTCCGAGCTGAGCAAGGCCACGCAAAAGGGAAACCAACTCCTTGCCCAGGTCCTCCCACCTCTGAACCCCAGGACCCCCAGGAGGTGCCTGAGAGATCTTTGGACCGTGGCCCACCTTTGGGACAATTGCAGCCCTACTCAACAACTCAGGACCCCAGGCACACCAAGAGAAGATGTGCTTCTGAGTATGCAGGGAAGAGTCAACCCCACTCAGCACAAGTGGGCAGCAAAACCAACACCCCACGAGGCCACAAGGCAGAAATGGCGTCAAGGCCTGCTCAGCTCTCACAGAAGCAGCACAGAATCCCCACAGAGACTTGGAAGCCAGTTTATCAGAAAGAAAACAGGACCCCAAAGCTACCACAGGCTCATGAAGTCCCTGAAGAAAGTGACCACCGTACCCACAGATCGTCTTCATTGGCCAGCAGTTCCCTCCAAGACATCTGGAGGCTGCTAGAGCTGGGATCCAGCCCTTCGGGCGTCCCCTCACAGGATAACTCTGTTGCAGGTACCTCCTCAGCAGCATGA
Peptide sequence:
MRREMEMLSGHLPPAQPEECSNADPDPKAGGDSTPPDYVLTLEAEMQNLKHKLKALEEQLQSTEEPVKTSVATADPHHGVHSSAAAADAALADQTSTALALRKLGDRVHLLNLLVTQLKRKLRQKPRELVPVQHEVPSEVDQVHLEVLELQKQVAELRKHLKVTPQGEPSSREQLQRQGVADRYPMGMEDQTESPTFPQEGAQPPQTIYVTHLQRKLKDAARKILSLRLEREQLLEMGNRLRAEQGHAKGKPTPCPGPPTSEPQDPQEVPERSLDRGPPLGQLQPYSTTQDPRHTKRRCASEYAGKSQPHSAQVGSKTNTPRGHKAEMASRPAQLSQKQHRIPTETWKPVYQKENRTPKLPQAHEVPEESDHRTHRSSSLASSSLQDIWRLLELGSSPSGVPSQDNSVAGTSSAA
IRESfinder result
IRESfinder score
0.471520136
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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