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mmu_circZzef1_1086
Basic information of circular RNA
PanCircBase ID:
mmu_circZzef1_1086
mm39_Chr. Position ID:
chr11|72755561|72760753|+
Gene name:
Zzef1
Transcript:
ENSMUST00000069395.7
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
20,21,22,23,24,25,26
Exon/intron offsets:
0,221,1089,1336,1868,3186,4951
Genomic length:
5192
Exon/intron sizes in nt:
1,22,12,31,67,82,20,21,00,000
Flanking exon/introns:
chr11:72754860-72755561|chr11:72760753-72763429
Splice length:
1086
Other database IDs:
circAtlas: mmu-Zzef1_0050
Human Ortholog IDs:
Mature spliced Sequence:
ATGTGGGGCAGTTTCTGGCAAGCATGAGAGTGATTTTGGAGTCCCTTTTGTCACAGTATAGTGGAAAGACCATAGTAGAAAAATTATGCAATTCGGTGTTTTCCATGGCAGCTCGTCAACTGGTCATCTTCCTGCTAGACTTCTGCACTTTAGACGTGTCCCACTGCACACTCCTAAGAGAGTTCAGCACCCTCACAGAGCTGTTGAAGAAGCTGTGCAGTGACCCTGAAGGAGGCCTGAGCAAGTTGGATGTGGAGACCTGGCAGCAGGAGCAGCCTGTGGTATTGCATACCTGGACCAAGGAATCCACCCACAACTATGAAAATAACTGCCATGAAGTGTCTGTCTTTATTAGCCCAGGAGCAACTTATTTTGAGGTGGAATTTGATGAGAGGTGTGAGACTGAGAAAAGGTACGATTATTTGGAATTTACTGACTCTAGAGGTGGGAAGACACGCTATGACACCAAAGTTGGGACTTATAAATGGCCCAAGAAAGTGACCTTTAAGGATGGCCCTCGGCTGCAGTTCCTCTTTCATTCTGACAGCAGTAACAATGAGTGGGGCTACAAGTTCACTGTCACTGCCTATGGTCTGCCTGATGTTGCTGTGTCTTGGGGTTTGGACTTGCAACTCCTTGTCTCCCGACTGATGGGGCGCCTTGCTTCCCAGTGCATGGCACTCAAGTCAGTGCATCAGTTAGGCAGTAACATGGCAGTATCCCAGGCAAAACTGACTTCAGTCCTGAACTCTCCATTGTGGAAACCTGTCTTCAGGCATCAGATTTGTCCAGAGTTGGAATTGGAAGCAAGCTGGCCCACTCACCCACACAAGGATGGGAAGGAGGTCAAGAACATCCCTGATGATCCCTGCCGCCATTTTCTCCTTGATTTTGCCCAGTCAGAGCCTGCTCAGAACTTCTGTGGGCCATATTCAGAACTTTTCAAAGGATTCATACAGGCATGTAGAAAACAGGCCCCAAAGACAGATATAGTTGCTGGTTCCACTATTGATCAAGCTGTGAACGCCACCTTTGCCGCTCTGGTGTATCGCACTCCAGACTTATATGAGAAGCTGCAAAAATATG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCTGGTTCCACTATTGATCAAGC
59.93
ACTGTGACAAAAGGGACTCCA
59.16
148
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GATCAAGCTGTGAACGCCAC
59.83
TGGTCTTTCCACTATACTGTGACA
59.16
148
PCR template sequence:
GATATAGTTGCTGGTTCCACTATTGATCAAGCTGTGAACGCCACCTTTGCCGCTCTGGTGTATCGCACTCCAGACTTATATGAGAAGCTGCAAAAATATGATGTGGGGCAGTTTCTGGCAAGCATGAGAGTGATTTTGGAGTCCCTTTTGTCACAGTATAGTGGAAAGACCATAGTAGAAAAATTATGCAATTCGGTGTT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
16
Interacting miRNAs (#binding sites)
mmu-miR-9-5p(1), mmu-miR-20b-5p(1), mmu-miR-106a-5p(1), mmu-miR-93-5p(1), mmu-miR-20a-5p(1), mmu-miR-17-5p(1), mmu-miR-429-3p(1), mmu-miR-34c-5p(1), mmu-miR-34a-5p(1), mmu-miR-122-5p(1), mmu-miR-106b-5p(1), mmu-miR-22-3p(1), mmu-miR-541-5p(1), mmu-miR-34b-5p(1), mmu-miR-673-5p(1), mmu-miR-574-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CTGCAAAAATATGATGTGGGGCAGTT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCZZEF1_1086_ORF_1
0.857
0.17356328
0.999996311
2148
ORF sequence:
ATGAGAGTGATTTTGGAGTCCCTTTTGTCACAGTATAGTGGAAAGACCATAGTAGAAAAATTATGCAATTCGGTGTTTTCCATGGCAGCTCGTCAACTGGTCATCTTCCTGCTAGACTTCTGCACTTTAGACGTGTCCCACTGCACACTCCTAAGAGAGTTCAGCACCCTCACAGAGCTGTTGAAGAAGCTGTGCAGTGACCCTGAAGGAGGCCTGAGCAAGTTGGATGTGGAGACCTGGCAGCAGGAGCAGCCTGTGGTATTGCATACCTGGACCAAGGAATCCACCCACAACTATGAAAATAACTGCCATGAAGTGTCTGTCTTTATTAGCCCAGGAGCAACTTATTTTGAGGTGGAATTTGATGAGAGGTGTGAGACTGAGAAAAGGTACGATTATTTGGAATTTACTGACTCTAGAGGTGGGAAGACACGCTATGACACCAAAGTTGGGACTTATAAATGGCCCAAGAAAGTGACCTTTAAGGATGGCCCTCGGCTGCAGTTCCTCTTTCATTCTGACAGCAGTAACAATGAGTGGGGCTACAAGTTCACTGTCACTGCCTATGGTCTGCCTGATGTTGCTGTGTCTTGGGGTTTGGACTTGCAACTCCTTGTCTCCCGACTGATGGGGCGCCTTGCTTCCCAGTGCATGGCACTCAAGTCAGTGCATCAGTTAGGCAGTAACATGGCAGTATCCCAGGCAAAACTGACTTCAGTCCTGAACTCTCCATTGTGGAAACCTGTCTTCAGGCATCAGATTTGTCCAGAGTTGGAATTGGAAGCAAGCTGGCCCACTCACCCACACAAGGATGGGAAGGAGGTCAAGAACATCCCTGATGATCCCTGCCGCCATTTTCTCCTTGATTTTGCCCAGTCAGAGCCTGCTCAGAACTTCTGTGGGCCATATTCAGAACTTTTCAAAGGATTCATACAGGCATGTAGAAAACAGGCCCCAAAGACAGATATAGTTGCTGGTTCCACTATTGATCAAGCTGTGAACGCCACCTTTGCCGCTCTGGTGTATCGCACTCCAGACTTATATGAGAAGCTGCAAAAATATGATGTGGGGCAGTTTCTGGCAAGCATGAGAGTGATTTTGGAGTCCCTTTTGTCACAGTATAGTGGAAAGACCATAGTAGAAAAATTATGCAATTCGGTGTTTTCCATGGCAGCTCGTCAACTGGTCATCTTCCTGCTAGACTTCTGCACTTTAGACGTGTCCCACTGCACACTCCTAAGAGAGTTCAGCACCCTCACAGAGCTGTTGAAGAAGCTGTGCAGTGACCCTGAAGGAGGCCTGAGCAAGTTGGATGTGGAGACCTGGCAGCAGGAGCAGCCTGTGGTATTGCATACCTGGACCAAGGAATCCACCCACAACTATGAAAATAACTGCCATGAAGTGTCTGTCTTTATTAGCCCAGGAGCAACTTATTTTGAGGTGGAATTTGATGAGAGGTGTGAGACTGAGAAAAGGTACGATTATTTGGAATTTACTGACTCTAGAGGTGGGAAGACACGCTATGACACCAAAGTTGGGACTTATAAATGGCCCAAGAAAGTGACCTTTAAGGATGGCCCTCGGCTGCAGTTCCTCTTTCATTCTGACAGCAGTAACAATGAGTGGGGCTACAAGTTCACTGTCACTGCCTATGGTCTGCCTGATGTTGCTGTGTCTTGGGGTTTGGACTTGCAACTCCTTGTCTCCCGACTGATGGGGCGCCTTGCTTCCCAGTGCATGGCACTCAAGTCAGTGCATCAGTTAGGCAGTAACATGGCAGTATCCCAGGCAAAACTGACTTCAGTCCTGAACTCTCCATTGTGGAAACCTGTCTTCAGGCATCAGATTTGTCCAGAGTTGGAATTGGAAGCAAGCTGGCCCACTCACCCACACAAGGATGGGAAGGAGGTCAAGAACATCCCTGATGATCCCTGCCGCCATTTTCTCCTTGATTTTGCCCAGTCAGAGCCTGCTCAGAACTTCTGTGGGCCATATTCAGAACTTTTCAAAGGATTCATACAGGCATGTAGAAAACAGGCCCCAAAGACAGATATAGTTGCTGGTTCCACTATTGATCAAGCTGTGAACGCCACCTTTGCCGCTCTGGTGTATCGCACTCCAGACTTATATGAGAAGCTGCAAAAATAT
Peptide sequence:
MRVILESLLSQYSGKTIVEKLCNSVFSMAARQLVIFLLDFCTLDVSHCTLLREFSTLTELLKKLCSDPEGGLSKLDVETWQQEQPVVLHTWTKESTHNYENNCHEVSVFISPGATYFEVEFDERCETEKRYDYLEFTDSRGGKTRYDTKVGTYKWPKKVTFKDGPRLQFLFHSDSSNNEWGYKFTVTAYGLPDVAVSWGLDLQLLVSRLMGRLASQCMALKSVHQLGSNMAVSQAKLTSVLNSPLWKPVFRHQICPELELEASWPTHPHKDGKEVKNIPDDPCRHFLLDFAQSEPAQNFCGPYSELFKGFIQACRKQAPKTDIVAGSTIDQAVNATFAALVYRTPDLYEKLQKYDVGQFLASMRVILESLLSQYSGKTIVEKLCNSVFSMAARQLVIFLLDFCTLDVSHCTLLREFSTLTELLKKLCSDPEGGLSKLDVETWQQEQPVVLHTWTKESTHNYENNCHEVSVFISPGATYFEVEFDERCETEKRYDYLEFTDSRGGKTRYDTKVGTYKWPKKVTFKDGPRLQFLFHSDSSNNEWGYKFTVTAYGLPDVAVSWGLDLQLLVSRLMGRLASQCMALKSVHQLGSNMAVSQAKLTSVLNSPLWKPVFRHQICPELELEASWPTHPHKDGKEVKNIPDDPCRHFLLDFAQSEPAQNFCGPYSELFKGFIQACRKQAPKTDIVAGSTIDQAVNATFAALVYRTPDLYEKLQKY
IRESfinder result
IRESfinder score
0.580962125
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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