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mmu_circCert1_879
Basic information of circular RNA
PanCircBase ID:
mmu_circCert1_879
mm39_Chr. Position ID:
chr13|96708418|96753057|+
Gene name:
Cert1
Transcript:
ENSMUST00000179226.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
8
Exon/intron indexes:
4,5,6,7,8,9,10,11
Exon/intron offsets:
0,26294,27479,31162,37863,40350,42863,44546
Genomic length:
44639
Exon/intron sizes in nt:
117,108,139,84,158,93,87,93
Flanking exon/introns:
chr13:96685839-96708418|chr13:96753057-96761202
Splice length:
879
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
CCTCACGATTTTGATGAATGCCGGTTTGATATCAGTGTAAATGATAGTGTTTGGTACCTTCGAGCTCAGGACCCGGAGCACAGACAGCAATGGGTAGACGCCATTGAACAGCACAAGACTGAATCGGGATATGGATCTGAGTCCAGCTTGCGTAGACATGGCTCAATGGTGTCACTGGTGTCTGGAGCGAGTGGCTATTCTGCTACGTCCACCTCTTCTTTCAAGAAAGGCCACAGTTTACGTGAGAAACTGGCTGAAATGGAGACATTTCGGGACATCCTGTGCCGGCAGGTTGATACTCTCCAGAAGTACTTTGATGTCTGTGCTGACGCTGTCTCCAAGGATGAGCTTCAGAGGGATAAAGTCGTAGAAGATGATGAAGATGACTTCCCTACAACTCGTTCTGATGGAGACTTTTTGCACAATACCAATGGTAATAAAGAAAAATTATTTCCACATGTAACACCAAAAGGAATTAATGGCATAGACTTTAAAGGGGAAGCAATAACTTTTAAAGCAACTACTGCTGGAATCCTTGCTACACTTTCTCATTGTATTGAATTAATGGTAAAACGGGAAGAGAGCTGGCAAAAAAGACACGATAGGGAAGTGGAAAAGAGGAGACGAGTGGAGGAAGCGTACAAGAATGTGATGGAAGAACTTAAGAAGAAACCCCGTTTCGGAGGGCCGGATTATGAAGAAGGTCCAAACAGTCTGATTAATGAGGAAGAGTTCTTTGATGCTGTTGAAGCTGCTCTTGACAGACAAGATAAAATAGAGGAACAGTCACAGAGTGAAAAGGTCAGGTTACACTGGCCCACATCATTGCCATCTGGAGACACCTTTTCTTCTGTCGGGACGCATAGATTTGTACAAAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGTTACACTGGCCCACATCA
59.96
TCCTGAGCTCGAAGGTACCA
59.96
145
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CAGGTTACACTGGCCCACAT
59.96
TCCTGAGCTCGAAGGTACCA
59.96
147
PCR template sequence:
GGAACAGTCACAGAGTGAAAAGGTCAGGTTACACTGGCCCACATCATTGCCATCTGGAGACACCTTTTCTTCTGTCGGGACGCATAGATTTGTACAAAAGCCTCACGATTTTGATGAATGCCGGTTTGATATCAGTGTAAATGATAGTGTTTGGTACCTTCGAGCTCAGGACCCGGAGCACAGACAGCAATGGGTAGACG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
8
Interacting miRNAs (#binding sites)
mmu-miR-19b-3p(2), mmu-miR-19a-3p(2), mmu-miR-199a-5p(1), mmu-miR-211-5p(1), mmu-miR-335-5p(1), mmu-miR-127-5p(1), mmu-miR-362-5p(1), mmu-miR-3470b(1)
siRNAs for circular RNA silencing
Junction sequence
ATTTGTACAAAAGCCTCACGATTTTG
siRNA sets
AAAATCGTGAGGCTTTTGT, AATCGTGAGGCTTTTGTAC, ATCGTGAGGCTTTTGTACA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCCERT1_879_ORF_1
1.1232
0.152108498
0.999866608
1593
ORF sequence:
ATGGTGTCACTGGTGTCTGGAGCGAGTGGCTATTCTGCTACGTCCACCTCTTCTTTCAAGAAAGGCCACAGTTTACGTGAGAAACTGGCTGAAATGGAGACATTTCGGGACATCCTGTGCCGGCAGGTTGATACTCTCCAGAAGTACTTTGATGTCTGTGCTGACGCTGTCTCCAAGGATGAGCTTCAGAGGGATAAAGTCGTAGAAGATGATGAAGATGACTTCCCTACAACTCGTTCTGATGGAGACTTTTTGCACAATACCAATGGTAATAAAGAAAAATTATTTCCACATGTAACACCAAAAGGAATTAATGGCATAGACTTTAAAGGGGAAGCAATAACTTTTAAAGCAACTACTGCTGGAATCCTTGCTACACTTTCTCATTGTATTGAATTAATGGTAAAACGGGAAGAGAGCTGGCAAAAAAGACACGATAGGGAAGTGGAAAAGAGGAGACGAGTGGAGGAAGCGTACAAGAATGTGATGGAAGAACTTAAGAAGAAACCCCGTTTCGGAGGGCCGGATTATGAAGAAGGTCCAAACAGTCTGATTAATGAGGAAGAGTTCTTTGATGCTGTTGAAGCTGCTCTTGACAGACAAGATAAAATAGAGGAACAGTCACAGAGTGAAAAGGTCAGGTTACACTGGCCCACATCATTGCCATCTGGAGACACCTTTTCTTCTGTCGGGACGCATAGATTTGTACAAAAGCCTCACGATTTTGATGAATGCCGGTTTGATATCAGTGTAAATGATAGTGTTTGGTACCTTCGAGCTCAGGACCCGGAGCACAGACAGCAATGGGTAGACGCCATTGAACAGCACAAGACTGAATCGGGATATGGATCTGAGTCCAGCTTGCGTAGACATGGCTCAATGGTGTCACTGGTGTCTGGAGCGAGTGGCTATTCTGCTACGTCCACCTCTTCTTTCAAGAAAGGCCACAGTTTACGTGAGAAACTGGCTGAAATGGAGACATTTCGGGACATCCTGTGCCGGCAGGTTGATACTCTCCAGAAGTACTTTGATGTCTGTGCTGACGCTGTCTCCAAGGATGAGCTTCAGAGGGATAAAGTCGTAGAAGATGATGAAGATGACTTCCCTACAACTCGTTCTGATGGAGACTTTTTGCACAATACCAATGGTAATAAAGAAAAATTATTTCCACATGTAACACCAAAAGGAATTAATGGCATAGACTTTAAAGGGGAAGCAATAACTTTTAAAGCAACTACTGCTGGAATCCTTGCTACACTTTCTCATTGTATTGAATTAATGGTAAAACGGGAAGAGAGCTGGCAAAAAAGACACGATAGGGAAGTGGAAAAGAGGAGACGAGTGGAGGAAGCGTACAAGAATGTGATGGAAGAACTTAAGAAGAAACCCCGTTTCGGAGGGCCGGATTATGAAGAAGGTCCAAACAGTCTGATTAATGAGGAAGAGTTCTTTGATGCTGTTGAAGCTGCTCTTGACAGACAAGATAAAATAGAGGAACAGTCACAGAGTGAAAAGGTCAGGTTACACTGGCCCACATCATTGCCATCTGGAGACACCTTTTCTTCTGTCGGGACGCATAGATTTGTACAAAAG
Peptide sequence:
MVSLVSGASGYSATSTSSFKKGHSLREKLAEMETFRDILCRQVDTLQKYFDVCADAVSKDELQRDKVVEDDEDDFPTTRSDGDFLHNTNGNKEKLFPHVTPKGINGIDFKGEAITFKATTAGILATLSHCIELMVKREESWQKRHDREVEKRRRVEEAYKNVMEELKKKPRFGGPDYEEGPNSLINEEEFFDAVEAALDRQDKIEEQSQSEKVRLHWPTSLPSGDTFSSVGTHRFVQKPHDFDECRFDISVNDSVWYLRAQDPEHRQQWVDAIEQHKTESGYGSESSLRRHGSMVSLVSGASGYSATSTSSFKKGHSLREKLAEMETFRDILCRQVDTLQKYFDVCADAVSKDELQRDKVVEDDEDDFPTTRSDGDFLHNTNGNKEKLFPHVTPKGINGIDFKGEAITFKATTAGILATLSHCIELMVKREESWQKRHDREVEKRRRVEEAYKNVMEELKKKPRFGGPDYEEGPNSLINEEEFFDAVEAALDRQDKIEEQSQSEKVRLHWPTSLPSGDTFSSVGTHRFVQK
IRESfinder result
IRESfinder score
0.519074512
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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