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mmu_circCep43_817
Basic information of circular RNA
PanCircBase ID:
mmu_circCep43_817
mm39_Chr. Position ID:
chr17|8388359|8410269|+
Gene name:
Cep43
Transcript:
ENSMUST00000097419.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
8
Exon/intron indexes:
4,5,6,7,8,9,10,11
Exon/intron offsets:
0,478,3400,5991,12700,14873,16985,21870
Genomic length:
21910
Exon/intron sizes in nt:
89,138,81,60,227,113,69,40
Flanking exon/introns:
chr17:8387921-8388359|chr17:8410269-8411016
Splice length:
817
Other database IDs:
CIRCpedia: HSA_CIRCpedia_100541
Human Ortholog IDs:
Mature spliced Sequence:
GTCGTTTAGTGGCTAGTCTCGTCGCAGAATTTCTTCAGTTTTTTAATCTTGACTTCACCTTGGCTGTTTTCCATCCTGAAACTAGCACAATTCAAGGTCTTGAAGGTCGAGAGAACTTGGCCCAGGATTTAGGCATCATTGAAGCAGAAGGTACTGTGGGTGGACCCTTATTATTAGAAGTGATTAGACGCTGTCAACAGAAAGAAAAAGGACCGGCCAGTGTGGAAGGTGCACTGGATCTATCCGATGGACATCCTCCATCAAAGTCACCTGAAGGAAAATCAAGTGCAAACTCCACCCCAAGTAAGATACCAAGGTATAAAGGACAAGGTAAGAAGAAGACAATCGGTCAGAAGCCTGGTGACAAGAAGACTAGCAGTGAGACCAGTCAGAGTGAGCCAAGTGTCTCCTTGTCAGAGTCCAAGAGTAAAAGCAGCCTGCACTCACTGGCCCATGAGACAAGAATTGCATCTTTCTTAAGCAGCAGCGCTGTAGATGCCAGAGACAGCAGTGCCCTTTGTCCAGATGGGGATGATGTGGAAGGAGATTCTTTCTTTGATGATCCCATTCCTAAACCAGAAAAAACCTATGGTTGGAGAGCTGAACCTCGGAAGCAAGTGGGAGGTCTGGCCTCACTGTCTGACAAGCCCCACTTAAGGAGCGGTCTCAGCTCCCTGGCCGGAGCCCCATCGCTAACAGATCCAGAGAGTAAAAGGGGAAGCACCGTCCTGAAGGATCTGAAATTGGTTGGTGAGAAGATTGGATCACTTGGGCTAGGCACTGGAGAAGATGAGGACTATGCTGATGATTTTAATAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GAAGCACCGTCCTGAAGGA
59.33
ACAGCCAAGGTGAAGTCAAGA
59.51
167
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GAAGCACCGTCCTGAAGGA
59.33
ACAGCCAAGGTGAAGTCAAG
58.03
167
PCR template sequence:
GAAGCACCGTCCTGAAGGATCTGAAATTGGTTGGTGAGAAGATTGGATCACTTGGGCTAGGCACTGGAGAAGATGAGGACTATGCTGATGATTTTAATAGGTCGTTTAGTGGCTAGTCTCGTCGCAGAATTTCTTCAGTTTTTTAATCTTGACTTCACCTTGGCTGTTTTCCATCCTGAAACTAGCACAATTCAAGGTCT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
4
Interacting miRNAs (#binding sites)
mmu-miR-148a-3p(1), mmu-miR-29b-1-5p(1), mmu-miR-207(1), mmu-miR-3105-3p(1)
siRNAs for circular RNA silencing
Junction sequence
ATGATTTTAATAGGTCGTTTAGTGGC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCCEP43_817_ORF_1
0.9319
0.149510078
0.958764308
843
ORF sequence:
ATGAGGACTATGCTGATGATTTTAATAGGTCGTTTAGTGGCTAGTCTCGTCGCAGAATTTCTTCAGTTTTTTAATCTTGACTTCACCTTGGCTGTTTTCCATCCTGAAACTAGCACAATTCAAGGTCTTGAAGGTCGAGAGAACTTGGCCCAGGATTTAGGCATCATTGAAGCAGAAGGTACTGTGGGTGGACCCTTATTATTAGAAGTGATTAGACGCTGTCAACAGAAAGAAAAAGGACCGGCCAGTGTGGAAGGTGCACTGGATCTATCCGATGGACATCCTCCATCAAAGTCACCTGAAGGAAAATCAAGTGCAAACTCCACCCCAAGTAAGATACCAAGGTATAAAGGACAAGGTAAGAAGAAGACAATCGGTCAGAAGCCTGGTGACAAGAAGACTAGCAGTGAGACCAGTCAGAGTGAGCCAAGTGTCTCCTTGTCAGAGTCCAAGAGTAAAAGCAGCCTGCACTCACTGGCCCATGAGACAAGAATTGCATCTTTCTTAAGCAGCAGCGCTGTAGATGCCAGAGACAGCAGTGCCCTTTGTCCAGATGGGGATGATGTGGAAGGAGATTCTTTCTTTGATGATCCCATTCCTAAACCAGAAAAAACCTATGGTTGGAGAGCTGAACCTCGGAAGCAAGTGGGAGGTCTGGCCTCACTGTCTGACAAGCCCCACTTAAGGAGCGGTCTCAGCTCCCTGGCCGGAGCCCCATCGCTAACAGATCCAGAGAGTAAAAGGGGAAGCACCGTCCTGAAGGATCTGAAATTGGTTGGTGAGAAGATTGGATCACTTGGGCTAGGCACTGGAGAAGATGAGGACTATGCTGATGATTTTAAT
Peptide sequence:
MRTMLMILIGRLVASLVAEFLQFFNLDFTLAVFHPETSTIQGLEGRENLAQDLGIIEAEGTVGGPLLLEVIRRCQQKEKGPASVEGALDLSDGHPPSKSPEGKSSANSTPSKIPRYKGQGKKKTIGQKPGDKKTSSETSQSEPSVSLSESKSKSSLHSLAHETRIASFLSSSAVDARDSSALCPDGDDVEGDSFFDDPIPKPEKTYGWRAEPRKQVGGLASLSDKPHLRSGLSSLAGAPSLTDPESKRGSTVLKDLKLVGEKIGSLGLGTGEDEDYADDFN
IRESfinder result
IRESfinder score
0.595257256
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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