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mmu_ciCacna1a_2951
Basic information of circular RNA
PanCircBase ID:
mmu_ciCacna1a_2951
mm39_Chr. Position ID:
chr8|85320849|85323800|+
Gene name:
Cacna1a
Transcript:
ENSMUST00000238701.2
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
33
Exon/intron offsets:
0
Genomic length:
2951
Exon/intron sizes in nt:
2951
Flanking exon/introns:
chr8:85320849-85328017
Splice length:
2951
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAAGTCTCCTGCCAGCTTCTCTCTGGGTGACTCGGGGCTGCACTAGTGGGAGGCAACAGTTGCTGGCAGGCACAGTGGCCAGCTGGTAGCATAGAGGGAGAACATCAGAGGCACAGCCTGAGACAGGAGTGAGGGTGAAGTTTTTCTGGGTGGTAATTTGGGGGTACGAAAACAGTTTTTAAGGTTTCAGTGAAGAGGGGAGAGAGGTATGTCCAAAGCTGGGACATAGGGCCAAGGCAGAGCAGTGTGCCTCTCTGCCTGGTGGCTGGTGAATTGTGAATAGTGTTACCAGTTCACTACATTGAGAGCTCATGCCTTTAAAGACAAATAGAACTGAATTCCTGATCCAACCGGACCACGAATTGTGGTCCACTGCCCCCTGCTGGCCATGGTGGGGATAGCACTTTCAAGACCTTAGGCTAGTCTCTGGAATAAGCAGCCCTCCACCAGCCCCAGGCAATGCAAATAAGGAAAGTGGGGAGAGAGGAGTACCTGAGCTTTCAGACTACATTGTAATTATCCCTTTTTAGGTAAATCTAAGAGTCCCCAGAGTCCCCTCCCAAACCTTGTCCTTGGCCATGAGCCAGTGACCCCTGACTTGGGAACCCTCAGGAGACTAAGGAGACCATAGGAGATCCTCCCAGGGGACCAGAAACAAAAAGCTACTCATCGATGCCCAGCGTCAGTGATGGTGTGGATTGTCCCCACACACCCCCCAATGACAATGGAAATAATAATAACTGGACTGGGGGTGTGGCCTAGCGGCAGAGTCCTGGCTTGGCTTGTGTGAGGCCCTGGGTTGGTCTCCTACCCCCAAAACAAAATAAAACAAAGACAAAAAAACAAAACATCAACAAAACACCCACAGAGAATGTGTGCCAAGCACCTCAGATGAGCTGTCTCCCACTGAGAAACTTGATCAGAGCACAGGAGAATTGTCTCAAAGGGTTAGACTGGATTGTCCAAGAGGGTGAGGGCTCAAGGGCTCTGGGAGGAAAGAGCTGGACAAAGGTCGGAGTAGCAGCCAGCAGAGAGCTCTGGAGAGAGGTCCTGTCTACCCGTCCTCTCCCACCAGAGCCCCTGGCTGACCCAAGAGAAATGGGGGGAGAAAATTCGCCCTGCATGGGACTCACTCCACATAGCAGGAAACTGACACCCAACACCAGGAGGCAAGCACTCACATAAGGCTCTGGAAACCCCAGAACAGATGTGACCATTTTCCCATTCCTCCTGCAAGGCTGGCACTTCTGGGACCTTCAGATGGGAGGGTCAGGACAGCTTAAGACAATGTCCGTTTAGGTTCAGTTTGAGAGGAGCTGCCTGCTTCCCAGTAGAGCAAGTGAAGTTGGTTAAAACTCCCAGTTGCGCGAGGACAGTGGTGGCACATGCCTTTAATCCCGGCACTTGGGAGGCAGAGGCAGGTGGATTTCTGAATTCGAGGCCAGCCTGGTCTACAGAGTTAGTTCCAGGACAGTCAGGGCTACACAGAGAAACCCTGTCTCGAAAAACAAAAACAAAAACAAAACAAAACAAAAAAACCCTCCCAGTTGCCAGTAAGACATCCTTAGGTCTAGATCCCACTGCTTATAGCCTGTAAGATAGCGGCACCTAGAGGCCAATTCGGAGACATCAGGACCATTACCGAAGCCAAACAGCCCTCCCAGTCACCCAGTTGCTCTGGTCATATCACCCCTTTGCAGCAGGGATGATGCCTGCCACCAACTTCCTCAATTCCATTACCTGACTCACACTCATCCAGACTTTGATCAGGCACACGTGGGTGTAGAGACAGAACGAAAAGAGCCAGACGAAGCAGCAAGCACGGAGAGTACCTGACCCAGAGGGCTCTCAGCTTTAGACAGGACTGTAGAGAATAACAGGTAGGAGCCATTAAGATGACTCTGTGGGCTAAGATGCCTGCTCCCGAGCCTGGCTACCTGTCTTAAGCTACCTTTCTATTATTGTGAAGAGACACCATGACCAAGACAACTTAACAAAAGAAAGCATTTAACTGAGGGCTCATGGTTCCAGAAGGGAATAGAGTCTGTGACCATCATGTCAGGGAACAGGGGAAGGGAGGGGCCAGGGAGGGAGGGAGCGAGCAGGAGCTACCTGGAAATGACATGAAATTTTGGAACCTCAAATCTCTCCCAGGGACGCACCCCCAGTGAGGCCGCTCCTCCTAATCCTTCCCAAGCAGTTCCACCAATTGGAGACAAAGTAGTCAAATATATAGCCTATGGGGGGCCATGCTCACTCAAATGACCTGAGTTCAATCCCTGGGACCTACACAGGCACACTAAATAAATAAATAAAATGTAATCTTAAAAAATTAAAGGAAATGAGCTGGGAGGGCAATTCAGTGGCAGAGCCCTGCCTACAACCCTACAGTGAGGGCTTAGGGACATGGGTGTGTGGTGGAGCACACACCTTAAACCCTCCCCTCCCCACTGTGAGGACCTGTGGGTGTGGCTCAGTGGTAGAGCTCTGGTTTTGCTTGTGGGAGACTCTGCACCTAGCCATAGTAGTACGCACACAAAAACCCCCTCCTGAAGTGCTTGGCACAGAACCTACCACAAAATCACCAATGACTTACCTCCCAGTGGTTATTGTTATTCCTATTGTTATTGTCCCATGAGTGTACCTTGATGTCAAACTGCCCTAAGACACTGCCACTTTGAGGGAAGGATTGGGGAGGGGGTACCTATGACCTGTCCTCACCCTGCACCAGGTGCTGGTAGCTCCTGTCTGGGACCCAGGTAAGGCCCCCATCCTTGAGGCTAGAGCCAAGCTGAGTTGGGAGAGCAGGAGGGCAGTTAGCTCCCTGGGACTTGAGGGGCTGAGATGGTAGCTTAACCCTGGGCTTTAATGACATGCCCAGAAGTGGCCGGGGGCGGGTTTGCCCATGCGCGATGGATAATGACTGTGTTTCTTGTCTTGTCTCTTTCCA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCGCGATGGATAATGACTGTG
59.81
CTCTATGCTACCAGCTGGCC
59.97
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCGCGATGGATAATGACTGTG
59.81
CCTCTATGCTACCAGCTGGC
59.97
141
PCR template sequence:
GCTTAACCCTGGGCTTTAATGACATGCCCAGAAGTGGCCGGGGGCGGGTTTGCCCATGCGCGATGGATAATGACTGTGTTTCTTGTCTTGTCTCTTTCCAGTAAGTCTCCTGCCAGCTTCTCTCTGGGTGACTCGGGGCTGCACTAGTGGGAGGCAACAGTTGCTGGCAGGCACAGTGGCCAGCTGGTAGCATAGAGGGA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
31
Interacting miRNAs (#binding sites)
mmu-miR-106a-5p(2), mmu-miR-93-5p(2), mmu-miR-574-5p(2), mmu-miR-210-3p(1), mmu-miR-27b-3p(1), mmu-miR-27a-3p(1), mmu-miR-34c-5p(1), mmu-miR-34a-5p(1), mmu-miR-328-3p(1), mmu-miR-138-5p(1), mmu-miR-185-5p(1), mmu-miR-139-5p(1), mmu-miR-149-5p(1), mmu-miR-127-5p(1), mmu-miR-96-5p(1), mmu-miR-218-5p(1), mmu-miR-382-5p(1), mmu-miR-541-5p(1), mmu-miR-34b-5p(1), mmu-miR-342-5p(1), mmu-miR-705(1), mmu-miR-680(1), mmu-miR-377-3p(1), mmu-miR-207(1), mmu-miR-5101(1), mmu-miR-188-3p(1), mmu-miR-3470b(1), mmu-miR-670-5p(1), mmu-miR-1904(1), mmu-miR-296-3p(1), mmu-miR-344-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TTGTCTCTTTCCAGTAAGTCTCCTGC
siRNA sets
AGACTTACTGGAAAGAGAC
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
0.585744289
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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