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mmu_circCacna2d1_636
Basic information of circular RNA
PanCircBase ID:
mmu_circCacna2d1_636
mm39_Chr. Position ID:
chr5|16504926|16524310|+
Gene name:
Cacna2d1
Transcript:
ENSMUST00000167946.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
11,12,13,14,15,16,17
Exon/intron offsets:
0,2364,12572,13713,14977,17706,19309
Genomic length:
19384
Exon/intron sizes in nt:
159,105,79,50,90,78,75
Flanking exon/introns:
chr5:16472473-16504926|chr5:16524310-16525081
Splice length:
636
Other database IDs:
CIRCpedia: MMU_CIRCpedia_223183, circAtlas: mmu-Cacna2d1_0037
Human Ortholog IDs:
Mature spliced Sequence:
TTTAACAGCAACGCTCAGGATGTAAGCTGTTTCCAGCACCTGGTTCAAGCGAATGTAAGAAATAAGAAGGTGTTGAAAGATGCCGTGAATAACATTACAGCAAAGGGGATCACAGATTACAAGAAAGGCTTTAGCTTTGCCTTCGAACAGCTACTTAATTATAATGTTTCCAGAGCTAATTGCAATAAGATTATCATGTTATTCACGGATGGAGGAGAAGAGAGAGCCCAGGAGATATTTGCCAAATACAATAAAGACAAAAAAGTCCGTGTGTTTACATTTTCCGTCGGTCAACATAATTATGACAGAGGACCTATTCAGTGGATGGCTTGTGAAAATAAAGGTTACTATTATGAGATTCCCTCCATTGGTGCAATAAGAATCAATACTCAGGAATATCTAGATGTTCTGGGAAGACCAATGGTTTTAGCTGGTGACAAAGCGAAGCAAGTTCAATGGACAAATGTGTATTTGGACGCCCTGGAACTGGGACTTGTCATTACTGGAACTCTACCAGTCTTCAACGTCACTGGCCAATCTGAAAATAAGACAAACTTGAAGAACCAGTTGATTCTTGGTGTGATGGGCGTTGATGTGTCTCTGGAAGATATCAAGAGATTGACACCACGTTTTACA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ATTCTTGGTGTGATGGGCGT
59.96
TCACGGCATCTTTCAACACCT
60.2
154
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ATTCTTGGTGTGATGGGCGT
59.96
TCACGGCATCTTTCAACACC
58.77
154
PCR template sequence:
ATCTGAAAATAAGACAAACTTGAAGAACCAGTTGATTCTTGGTGTGATGGGCGTTGATGTGTCTCTGGAAGATATCAAGAGATTGACACCACGTTTTACATTTAACAGCAACGCTCAGGATGTAAGCTGTTTCCAGCACCTGGTTCAAGCGAATGTAAGAAATAAGAAGGTGTTGAAAGATGCCGTGAATAACATTACAG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
9
Interacting miRNAs (#binding sites)
mmu-miR-30e-5p(1), mmu-miR-30a-5p(1), mmu-miR-216a-5p(1), mmu-miR-30d-5p(1), mmu-miR-676-3p(1), mmu-miR-680(1), mmu-miR-207(1), mmu-miR-697(1), mmu-miR-7a-2-3p(1)
siRNAs for circular RNA silencing
Junction sequence
ACCACGTTTTACATTTAACAGCAACG
siRNA sets
GTTAAATGTAAAACGTGGT, TGTTAAATGTAAAACGTGG, CTGTTAAATGTAAAACGTG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCCACNA2D1_636_ORF_1
1.0477
0.075131073
0.991462207
1077
ORF sequence:
ATGTTATTCACGGATGGAGGAGAAGAGAGAGCCCAGGAGATATTTGCCAAATACAATAAAGACAAAAAAGTCCGTGTGTTTACATTTTCCGTCGGTCAACATAATTATGACAGAGGACCTATTCAGTGGATGGCTTGTGAAAATAAAGGTTACTATTATGAGATTCCCTCCATTGGTGCAATAAGAATCAATACTCAGGAATATCTAGATGTTCTGGGAAGACCAATGGTTTTAGCTGGTGACAAAGCGAAGCAAGTTCAATGGACAAATGTGTATTTGGACGCCCTGGAACTGGGACTTGTCATTACTGGAACTCTACCAGTCTTCAACGTCACTGGCCAATCTGAAAATAAGACAAACTTGAAGAACCAGTTGATTCTTGGTGTGATGGGCGTTGATGTGTCTCTGGAAGATATCAAGAGATTGACACCACGTTTTACATTTAACAGCAACGCTCAGGATGTAAGCTGTTTCCAGCACCTGGTTCAAGCGAATGTAAGAAATAAGAAGGTGTTGAAAGATGCCGTGAATAACATTACAGCAAAGGGGATCACAGATTACAAGAAAGGCTTTAGCTTTGCCTTCGAACAGCTACTTAATTATAATGTTTCCAGAGCTAATTGCAATAAGATTATCATGTTATTCACGGATGGAGGAGAAGAGAGAGCCCAGGAGATATTTGCCAAATACAATAAAGACAAAAAAGTCCGTGTGTTTACATTTTCCGTCGGTCAACATAATTATGACAGAGGACCTATTCAGTGGATGGCTTGTGAAAATAAAGGTTACTATTATGAGATTCCCTCCATTGGTGCAATAAGAATCAATACTCAGGAATATCTAGATGTTCTGGGAAGACCAATGGTTTTAGCTGGTGACAAAGCGAAGCAAGTTCAATGGACAAATGTGTATTTGGACGCCCTGGAACTGGGACTTGTCATTACTGGAACTCTACCAGTCTTCAACGTCACTGGCCAATCTGAAAATAAGACAAACTTGAAGAACCAGTTGATTCTTGGTGTGATGGGCGTTGATGTGTCTCTGGAAGATATCAAGAGATTGACACCACGTTTTACA
Peptide sequence:
MLFTDGGEERAQEIFAKYNKDKKVRVFTFSVGQHNYDRGPIQWMACENKGYYYEIPSIGAIRINTQEYLDVLGRPMVLAGDKAKQVQWTNVYLDALELGLVITGTLPVFNVTGQSENKTNLKNQLILGVMGVDVSLEDIKRLTPRFTFNSNAQDVSCFQHLVQANVRNKKVLKDAVNNITAKGITDYKKGFSFAFEQLLNYNVSRANCNKIIMLFTDGGEERAQEIFAKYNKDKKVRVFTFSVGQHNYDRGPIQWMACENKGYYYEIPSIGAIRINTQEYLDVLGRPMVLAGDKAKQVQWTNVYLDALELGLVITGTLPVFNVTGQSENKTNLKNQLILGVMGVDVSLEDIKRLTPRFT
IRESfinder result
IRESfinder score
0.591990577
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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