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mmu_ciCpa2_1073
Basic information of circular RNA
PanCircBase ID:
mmu_ciCpa2_1073
mm39_Chr. Position ID:
chr6|30550854|30551927|+
Gene name:
Cpa2
Transcript:
ENSMUST00000096066.5
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
7
Exon/intron offsets:
0
Genomic length:
1073
Exon/intron sizes in nt:
1073
Flanking exon/introns:
chr6:30550854-30551964
Splice length:
1073
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAAGCCGCTGAATTATTTTATTTGTTGCTTTGTGCTGTTTTTACATCCATAGGACTTAAGATATGCAGGGACATGGAAAACCAAACAAAAGCAATCTGTCTGTCCTTGATTGACTCTAAGCAGAATGCACACTTTCTCAGTAGTGGCACAGGGAAGTGTTTACAATCGTCTCTTATTCTGACATGCGATGCCTTTCCATGTCCACTCAGCCAGAGCCTATGTCAGCTGGTAGCTGGACTCTTCGAGTGCTGGGCTTGCAGTGAGTCACCTAGGAGACTTGTTCCAATTATCTCTGAGTGTGTGAGTGTCTGTGTGTGAGATAGAAAAGAAGAGGCAGATATTACCTTCTGACAGTTAGATTGCTACAGGGTTTAAGTAGGCAGCACAATGCATCCTAGCATTTTTACTTACAATTTGTCAAAGTACTCCTCTGTAATATCAGTAAAAGGAGCTCTATAGGCTCCCTCCCCCTAAGACACCATTACAAAAGCACCACTGTGGCATTGTGACCTCATGCATATTCAGAATGAATCAGACTCTCAGGTTTATTCTGGTAGAGAGCAGATGACAATGACAATGACAGAAGCTTTTTTTTTTTTTTTTTTACCCCCCAAAGAGACTGACATTCTCTGTTCATAGCCTGAGATACTGCATGAATGGATTTAGGGTCCACAGGCAAGCCAGAGGAATGCTGCCTATAATCTCTTAGAGGTTCATTAAAAACAAAAACAAAACAAAACAACCCCCCCCCCCAAAAAACACAATACATTAAACACCCGTGGCAGTTCTGTAGTAATTTAGCCCCATATTTTCCCAAACTATTCTCTCACAAATTCCATCTCTTTCCTTTGTTGTTGTTGTGGTGGTGGTAGTGGCTGGCATTTAACAGGTCCATGTTTTATGGAACATGGTTTGGCAGGCATTTACTTGAGAGAGGAAGAACATGAAGTCAGCCCCGCATGGTGACCATTTGACAGCTCTGGGCAAAAGAAATAGCGCACAGTTCTGAAGGGAGGGAACAGGGGAACACACGGGAAAGGGACCTGCTGATGACAAGGGATGACCATCTTTT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TAGCGCACAGTTCTGAAGGG
60.04
TGGTTTTCCATGTCCCTGCA
59.81
163
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GAGGGAACAGGGGAACACAC
60.25
TGGTTTTCCATGTCCCTGCA
59.81
144
PCR template sequence:
GACAGCTCTGGGCAAAAGAAATAGCGCACAGTTCTGAAGGGAGGGAACAGGGGAACACACGGGAAAGGGACCTGCTGATGACAAGGGATGACCATCTTTTGTAAGCCGCTGAATTATTTTATTTGTTGCTTTGTGCTGTTTTTACATCCATAGGACTTAAGATATGCAGGGACATGGAAAACCAAACAAAAGCAATCTGT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
13
Interacting miRNAs (#binding sites)
mmu-miR-103-3p(1), mmu-miR-30e-5p(1), mmu-miR-33-5p(1), mmu-miR-10b-5p(1), mmu-miR-10a-5p(1), mmu-miR-22-3p(1), mmu-miR-107-3p(1), mmu-miR-342-3p(1), mmu-miR-377-3p(1), mmu-miR-5101(1), mmu-miR-3065-5p(1), mmu-miR-3061-5p(1), mmu-miR-7a-2-3p(1)
siRNAs for circular RNA silencing
Junction sequence
ATGACCATCTTTTGTAAGCCGCTGAA
siRNA sets
TTCAGCGGCTTACAAAAGA, AGCGGCTTACAAAAGATGG
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
0.797415527
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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