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mmu_circZzef1_596
Basic information of circular RNA
PanCircBase ID:
mmu_circZzef1_596
mm39_Chr. Position ID:
chr11|72739467|72744154|+
Gene name:
Zzef1
Transcript:
ENSMUST00000069395.7
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
12,13,14,15
Exon/intron offsets:
0,1917,3192,4517
Genomic length:
4687
Exon/intron sizes in nt:
1,12,21,31,01,170
Flanking exon/introns:
chr11:72735313-72739467|chr11:72744154-72746208
Splice length:
596
Other database IDs:
circAtlas: mmu-Zzef1_0069
Human Ortholog IDs:
Mature spliced Sequence:
GATTGGTTGCTCATCTGATGACCTTGGAGAGGATGATCCTATTGGCTGGTTTGAGCTAGAAGAAGAGTGGGATGAAGCAGATGTCAAGTTACAACAGTGCAGAGTTGCCAAATTCTTGATGGTGAAGTTCCTCTGCACCCGCCAGGAGTCAGCTGAACGGTTGGGCGTGCAAGGCTTAAGCATCAGTGGGTACCTCCGGCCTGCAAGGGCAGAAGCGGAACAAAGCATCCTCTATGCCCACTGTAGAAGGGACACAGAGAATATTCATGGGGCCACCCTGCTTCTTAGGACTCTGCAGTTCATCCAGCAGCTTTCCCATGACCTGATGCAGCAAAAGGAAAGTGGCTTAAAACATAAGTCTTTCCTGGACTTTGCGGGTCTTGATTTGCAGATCTTCTGGAAATTTTACAGTAAATTAAAGCAAAACCGAAGGGAAGAATGTATCTGTGCACAGACCCTTCTGCTGAAGCTCCTGCAGAGCTGCTTCTCAGTGCTGCAGGGTGACCCACAAGCTGCCTCAGAGGAGGAGAAGCCTACAGCGCAACGCTCTGAGGGAATACAGGCTGCCAAGGAGCTCTACACACACTTATGTAATG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CACAAGCTGCCTCAGAGGAG
60.39
AGCTCAAACCAGCCAATAGGA
59.36
147
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CGCAACGCTCTGAGGGAATA
60.18
TGACATCTGCTTCATCCCACT
59.09
143
PCR template sequence:
CAGGGTGACCCACAAGCTGCCTCAGAGGAGGAGAAGCCTACAGCGCAACGCTCTGAGGGAATACAGGCTGCCAAGGAGCTCTACACACACTTATGTAATGGATTGGTTGCTCATCTGATGACCTTGGAGAGGATGATCCTATTGGCTGGTTTGAGCTAGAAGAAGAGTGGGATGAAGCAGATGTCAAGTTACAACAGTGC
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-7b-5p(1), mmu-miR-320-3p(1), mmu-miR-139-5p(1), mmu-miR-207(1)
siRNAs for circular RNA silencing
Junction sequence
CACTTATGTAATGGATTGGTTGCTCA
siRNA sets
AACCAATCCATTACATAAG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCZZEF1_596_ORF_1
1.0442
0.18333176
0.785093437
537
ORF sequence:
ATGGTGAAGTTCCTCTGCACCCGCCAGGAGTCAGCTGAACGGTTGGGCGTGCAAGGCTTAAGCATCAGTGGGTACCTCCGGCCTGCAAGGGCAGAAGCGGAACAAAGCATCCTCTATGCCCACTGTAGAAGGGACACAGAGAATATTCATGGGGCCACCCTGCTTCTTAGGACTCTGCAGTTCATCCAGCAGCTTTCCCATGACCTGATGCAGCAAAAGGAAAGTGGCTTAAAACATAAGTCTTTCCTGGACTTTGCGGGTCTTGATTTGCAGATCTTCTGGAAATTTTACAGTAAATTAAAGCAAAACCGAAGGGAAGAATGTATCTGTGCACAGACCCTTCTGCTGAAGCTCCTGCAGAGCTGCTTCTCAGTGCTGCAGGGTGACCCACAAGCTGCCTCAGAGGAGGAGAAGCCTACAGCGCAACGCTCTGAGGGAATACAGGCTGCCAAGGAGCTCTACACACACTTATGTAATGGATTGGTTGCTCATCTGATGACCTTGGAGAGGATGATCCTATTGGCTGGTTTGAGCTAG
Peptide sequence:
MVKFLCTRQESAERLGVQGLSISGYLRPARAEAEQSILYAHCRRDTENIHGATLLLRTLQFIQQLSHDLMQQKESGLKHKSFLDFAGLDLQIFWKFYSKLKQNRREECICAQTLLLKLLQSCFSVLQGDPQAASEEEKPTAQRSEGIQAAKELYTHLCNGLVAHLMTLERMILLAGLS
IRESfinder result
IRESfinder score
0.357870924
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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