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mmu_circZup1_920
Basic information of circular RNA
PanCircBase ID:
mmu_circZup1_920
mm39_Chr. Position ID:
chr10|33816153|33825860|-
Gene name:
Zup1
Transcript:
ENSMUST00000218055.2
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
5,4,3,2
Exon/intron offsets:
0,3492,8771,9590
Genomic length:
9707
Exon/intron sizes in nt:
1,22,11,15,70,117
Flanking exon/introns:
chr10:33811253-33816153|chr10:33825860-33827126
Splice length:
920
Other database IDs:
CIRCpedia: MMU_CIRCpedia_17043, circAtlas: mmu-Zufsp_0003
Human Ortholog IDs:
Mature spliced Sequence:
TGTGCCAGTGTTTTGACTGTCCTACATCGTGTGATCAGGCATAGATCCACTTGGGACCTGTCTGCTCAGAAGGTTTGAGATCAGGCATAGATCCACTGGGACATGTCAGCTCAGAAGGCCCATGCTCTGCCATGCTTTCCTGCAACATATGTGGTGAAACTGTAAACTCAGAACCAGATATGAAAGCTCACCTAATTGTTCACATGGAAAATGAAATTATCTGTCCATTTTGCAAGTTGTCAGGTATAAATTACAACGAAATATGTTTTCATATCGAAACTGTTCATTTTGAACAAAATGCACCAGAAAAAAACTCTGAGAAGCTAGCTGCAGTGCAATATGGACATTCAGACCGAAAGAACACCAACCTGCAGAGTACAGCGGAAGTTACTTCAGGCATTCATTCAGCTTGTGCATCTAGCTTTCCAAAAGAGTCATCTGAAAGCCTTCCTAAAGATAGGACTGTAAAGCATGAAGCTTTTTATACAGAGAACATAACTGAATCTAGAAAGTACCAAAAGAGCAGAGAAAAGAAGCCTGGATTGTCTGAGGCCCAAGGATCAATTTATGAAACAACATACAGTCCTCCCGAATGTCCATTTTGTGGAAAAATTGAGGGGTGTAGTCAAGATATGGAAATTCATGTGAAAACAAAGCATGCCAGTCTTTTAGAAAGTCCATTAAAAGACTGTCATCAACCACTCTATGACTGTCCCATGTGTGGGCTTGTCTGTACAAATTACCATATTCTCCAGGAACATGTGGACTTGCATTTAGAAGAAAGCAGCTTTCAGCAAGGCATGGACAGAGTCCAGTGTTCTAGTGATAGAGAATTAGCTCACCGGCTTCAGCAAGAAGAAGACAGAAAGAGGAAATCTGAAGAATCAAGACAAGAAAGGGAAGAGTTTCAGAAGTTGCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ATTAGCTCACCGGCTTCAGC
60.46
CTGAGCAGACAGGTCCCAAG
60.04
157
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CTCACCGGCTTCAGCAAGAA
60.6
CTGAGCAGACAGGTCCCAAG
60.04
152
PCR template sequence:
TAGTGATAGAGAATTAGCTCACCGGCTTCAGCAAGAAGAAGACAGAAAGAGGAAATCTGAAGAATCAAGACAAGAAAGGGAAGAGTTTCAGAAGTTGCAGTGTGCCAGTGTTTTGACTGTCCTACATCGTGTGATCAGGCATAGATCCACTTGGGACCTGTCTGCTCAGAAGGTTTGAGATCAGGCATAGATCCACTGGG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
7
Interacting miRNAs (#binding sites)
mmu-miR-32-5p(1), mmu-miR-204-5p(1), mmu-miR-25-3p(1), mmu-miR-363-3p(1), mmu-miR-362-5p(1), mmu-miR-690(1), mmu-miR-532-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TCAGAAGTTGCAGTGTGCCAGTGTTT
siRNA sets
AAACACTGGCACACTGCAA, ACACTGGCACACTGCAACT, AACACTGGCACACTGCAAC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCZUP1_920_ORF_1
0.7905
-0.03058454
0.910147317
867
ORF sequence:
ATGCTTTCCTGCAACATATGTGGTGAAACTGTAAACTCAGAACCAGATATGAAAGCTCACCTAATTGTTCACATGGAAAATGAAATTATCTGTCCATTTTGCAAGTTGTCAGGTATAAATTACAACGAAATATGTTTTCATATCGAAACTGTTCATTTTGAACAAAATGCACCAGAAAAAAACTCTGAGAAGCTAGCTGCAGTGCAATATGGACATTCAGACCGAAAGAACACCAACCTGCAGAGTACAGCGGAAGTTACTTCAGGCATTCATTCAGCTTGTGCATCTAGCTTTCCAAAAGAGTCATCTGAAAGCCTTCCTAAAGATAGGACTGTAAAGCATGAAGCTTTTTATACAGAGAACATAACTGAATCTAGAAAGTACCAAAAGAGCAGAGAAAAGAAGCCTGGATTGTCTGAGGCCCAAGGATCAATTTATGAAACAACATACAGTCCTCCCGAATGTCCATTTTGTGGAAAAATTGAGGGGTGTAGTCAAGATATGGAAATTCATGTGAAAACAAAGCATGCCAGTCTTTTAGAAAGTCCATTAAAAGACTGTCATCAACCACTCTATGACTGTCCCATGTGTGGGCTTGTCTGTACAAATTACCATATTCTCCAGGAACATGTGGACTTGCATTTAGAAGAAAGCAGCTTTCAGCAAGGCATGGACAGAGTCCAGTGTTCTAGTGATAGAGAATTAGCTCACCGGCTTCAGCAAGAAGAAGACAGAAAGAGGAAATCTGAAGAATCAAGACAAGAAAGGGAAGAGTTTCAGAAGTTGCAGTGTGCCAGTGTTTTGACTGTCCTACATCGTGTGATCAGGCATAGATCCACTTGGGACCTGTCTGCTCAGAAGGTTTGA
Peptide sequence:
MLSCNICGETVNSEPDMKAHLIVHMENEIICPFCKLSGINYNEICFHIETVHFEQNAPEKNSEKLAAVQYGHSDRKNTNLQSTAEVTSGIHSACASSFPKESSESLPKDRTVKHEAFYTENITESRKYQKSREKKPGLSEAQGSIYETTYSPPECPFCGKIEGCSQDMEIHVKTKHASLLESPLKDCHQPLYDCPMCGLVCTNYHILQEHVDLHLEESSFQQGMDRVQCSSDRELAHRLQQEEDRKRKSEESRQEREEFQKLQCASVLTVLHRVIRHRSTWDLSAQKV
IRESfinder result
IRESfinder score
0.681208652
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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