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mmu_circTnrc18_1495
Basic information of circular RNA
PanCircBase ID:
mmu_circTnrc18_1495
mm39_Chr. Position ID:
chr5|142729157|142748916|-
Gene name:
Tnrc18
Transcript:
ENSMUST00000152247.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
14,13,12,11,10
Exon/intron offsets:
0,6977,11978,16308,19587
Genomic length:
19759
Exon/intron sizes in nt:
42,82,55,27,93,61,172
Flanking exon/introns:
chr5:142726019-142729157|chr5:142748916-142750805
Splice length:
1495
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GCTGAGCAGCAAGTCCTTGCTGACATCAGACGACTATGATCTGGGAGCGGGGATAAGGAAGAGACACAAGGGGCCCGAGGAGGAGCAAGAGGCCCTCATGGGCATGGGGAAAGCCCGCAGCAGGAACCAGAGCTGGGACGATCACGACTCCTCATCTGATTTTATGAGTCAGCTAAAGATTAAGAAAAAAAAGATGGCAAGCGACCAGGAGCAGTTGGCAAGCAAGCTAGACAGAGCCCTCTCCCTCACAAAACAAGACAAGCTGAAGTCACCCTTCAAGTTTTCCGACGGCCCCGGGGGAAAACCGAAAACCGGTGGGGGCTGTGGCAGGTTCTTGACACAGTATGACAGCCTGCTGGGCAAGGACAGGAAAGCACTGGCCAAAGGACTCGGCTTGTCTCTGAAACCCTCCAGAGAAGGTAAACACAAAAGAGCTTCCAAAGCCAGGAAGATGGAGGGGGGCTTCCAGGCCAGAGGCCAGCCCAAGTCTGTCCATTCTCCATTTGCCTCGGAAGTCAGCAGTCAGTCTTACAATACGGACTCTGACGAAGACGAAGACTTCCTGAAGAATGAGTGGTCTGCCCAGGGCCCCTCCAGCTCCAAACTGACCTCGTCCCTCCTGTGTGGCATGGTGCCCAAGAACAGCAAGCCAGCCACAGGCCCTAAGCTGACCAAGAGGGGCCTGGCAGGCCCCCGGACTTTGAAACCCAAGGTGGTCACCAGCAGGAAGCAGTCCTTCTGTTTGCTGCTCCGAGAGGCTGAGGCCCGCTCCTCCTTCAGCGACTCTTCCGAGGAGGACTCCTTTGACCAAGATGACAGCTCAGAAGAGGAGGAGGAAGAGCTAGAGGAAGAGGAGGAAGACGAGGAAGAGGAAGGCATTGGTAGCTATAGGCTGGGTGCTGGGGAACAGGCCCTGTCGCCAAGCCTGGAGGAGAGTGGACTGGGGCTGCTGGCCCGCTTTGCGGCCAGCGCTCTCCCCAGCCCTGTCGTGGGGCCGCCCTTGTCTGTGGTACAGCTGGAAGCTGAGCAGAAGGCCCGGAAGAAGGAAGAGCGACAGAGCTTGCTGGGCACAGAGTTCGAGTACACAGACTCAGAGAGTGAAGTGAAGGTTCCCAAGCAGTCAGCTGCTGGGCTGCTGCGGACCAAGAAAGGGGTGGGGGAGCCCGGACAGTCTCTGGCTGCACCCGGACCTGGCAGCCGGGCCTCTGGTCCCTCCAGCCCAGACAAGGCCAAGCTGGTCTCAGAGAAGGGACGCAAAGCCCGGAAGATTCGAGGCCCCAAGGAACCTGGCTTTGAGGCGGGGCCAGAGGCCAGTGATGATGACCTGTGGACGCGACGCAGAAGCGAGCGCATCTTCTTACACGATGCCTCCGCTGCAGTCCAGGCAACCAGCAACACGGCGCCAGCAACCAAGCCTAGCCGCTGTGGCAGGGGTGGTGCCCCAAGCCCACGGAAGGACACCGGGCGAGCCAAGGACAGGAAGGACCCCAGGAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AACCAAGCCTAGCCGCTG
60.05
TTATCCCCGCTCCCAGATCA
60.11
144
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CAACCAAGCCTAGCCGCT
60.05
TTATCCCCGCTCCCAGATCA
60.11
145
PCR template sequence:
CACGGCGCCAGCAACCAAGCCTAGCCGCTGTGGCAGGGGTGGTGCCCCAAGCCCACGGAAGGACACCGGGCGAGCCAAGGACAGGAAGGACCCCAGGAAGGCTGAGCAGCAAGTCCTTGCTGACATCAGACGACTATGATCTGGGAGCGGGGATAAGGAAGAGACACAAGGGGCCCGAGGAGGAGCAAGAGGCCCTCATG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
9
Interacting miRNAs (#binding sites)
mmu-miR-16-5p(1), mmu-miR-15a-5p(1), mmu-miR-223-3p(1), mmu-miR-205-5p(1), mmu-miR-370-3p(1), mmu-miR-499-5p(1), mmu-miR-673-5p(1), mmu-miR-669d-5p(1), mmu-miR-296-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GGACCCCAGGAAGGCTGAGCAGCAAG
siRNA sets
TTGCTGCTCAGCCTTCCTG, TGCTGCTCAGCCTTCCTGG, CTTGCTGCTCAGCCTTCCT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCTNRC18_1495_ORF_1
0.958
0.394701111
0.999961408
1674
ORF sequence:
ATGATGACCTGTGGACGCGACGCAGAAGCGAGCGCATCTTCTTACACGATGCCTCCGCTGCAGTCCAGGCAACCAGCAACACGGCGCCAGCAACCAAGCCTAGCCGCTGTGGCAGGGGTGGTGCCCCAAGCCCACGGAAGGACACCGGGCGAGCCAAGGACAGGAAGGACCCCAGGAAGGCTGAGCAGCAAGTCCTTGCTGACATCAGACGACTATGATCTGGGAGCGGGGATAAGGAAGAGACACAAGGGGCCCGAGGAGGAGCAAGAGGCCCTCATGGGCATGGGGAAAGCCCGCAGCAGGAACCAGAGCTGGGACGATCACGACTCCTCATCTGATTTTATGAGTCAGCTAAAGATTAAGAAAAAAAAGATGGCAAGCGACCAGGAGCAGTTGGCAAGCAAGCTAGACAGAGCCCTCTCCCTCACAAAACAAGACAAGCTGAAGTCACCCTTCAAGTTTTCCGACGGCCCCGGGGGAAAACCGAAAACCGGTGGGGGCTGTGGCAGGTTCTTGACACAGTATGACAGCCTGCTGGGCAAGGACAGGAAAGCACTGGCCAAAGGACTCGGCTTGTCTCTGAAACCCTCCAGAGAAGGTAAACACAAAAGAGCTTCCAAAGCCAGGAAGATGGAGGGGGGCTTCCAGGCCAGAGGCCAGCCCAAGTCTGTCCATTCTCCATTTGCCTCGGAAGTCAGCAGTCAGTCTTACAATACGGACTCTGACGAAGACGAAGACTTCCTGAAGAATGAGTGGTCTGCCCAGGGCCCCTCCAGCTCCAAACTGACCTCGTCCCTCCTGTGTGGCATGGTGCCCAAGAACAGCAAGCCAGCCACAGGCCCTAAGCTGACCAAGAGGGGCCTGGCAGGCCCCCGGACTTTGAAACCCAAGGTGGTCACCAGCAGGAAGCAGTCCTTCTGTTTGCTGCTCCGAGAGGCTGAGGCCCGCTCCTCCTTCAGCGACTCTTCCGAGGAGGACTCCTTTGACCAAGATGACAGCTCAGAAGAGGAGGAGGAAGAGCTAGAGGAAGAGGAGGAAGACGAGGAAGAGGAAGGCATTGGTAGCTATAGGCTGGGTGCTGGGGAACAGGCCCTGTCGCCAAGCCTGGAGGAGAGTGGACTGGGGCTGCTGGCCCGCTTTGCGGCCAGCGCTCTCCCCAGCCCTGTCGTGGGGCCGCCCTTGTCTGTGGTACAGCTGGAAGCTGAGCAGAAGGCCCGGAAGAAGGAAGAGCGACAGAGCTTGCTGGGCACAGAGTTCGAGTACACAGACTCAGAGAGTGAAGTGAAGGTTCCCAAGCAGTCAGCTGCTGGGCTGCTGCGGACCAAGAAAGGGGTGGGGGAGCCCGGACAGTCTCTGGCTGCACCCGGACCTGGCAGCCGGGCCTCTGGTCCCTCCAGCCCAGACAAGGCCAAGCTGGTCTCAGAGAAGGGACGCAAAGCCCGGAAGATTCGAGGCCCCAAGGAACCTGGCTTTGAGGCGGGGCCAGAGGCCAGTGATGATGACCTGTGGACGCGACGCAGAAGCGAGCGCATCTTCTTACACGATGCCTCCGCTGCAGTCCAGGCAACCAGCAACACGGCGCCAGCAACCAAGCCTAGCCGCTGTGGCAGGGGTGGTGCCCCAAGCCCACGGAAGGACACCGGGCGAGCCAAGGACAGGAAGGACCCCAGGAAG
Peptide sequence:
MMTCGRDAEASASSYTMPPLQSRQPATRRQQPSLAAVAGVVPQAHGRTPGEPRTGRTPGRLSSKSLLTSDDYDLGAGIRKRHKGPEEEQEALMGMGKARSRNQSWDDHDSSSDFMSQLKIKKKKMASDQEQLASKLDRALSLTKQDKLKSPFKFSDGPGGKPKTGGGCGRFLTQYDSLLGKDRKALAKGLGLSLKPSREGKHKRASKARKMEGGFQARGQPKSVHSPFASEVSSQSYNTDSDEDEDFLKNEWSAQGPSSSKLTSSLLCGMVPKNSKPATGPKLTKRGLAGPRTLKPKVVTSRKQSFCLLLREAEARSSFSDSSEEDSFDQDDSSEEEEEELEEEEEDEEEEGIGSYRLGAGEQALSPSLEESGLGLLARFAASALPSPVVGPPLSVVQLEAEQKARKKEERQSLLGTEFEYTDSESEVKVPKQSAAGLLRTKKGVGEPGQSLAAPGPGSRASGPSSPDKAKLVSEKGRKARKIRGPKEPGFEAGPEASDDDLWTRRRSERIFLHDASAAVQATSNTAPATKPSRCGRGGAPSPRKDTGRAKDRKDPRK
IRESfinder result
IRESfinder score
0.24469902
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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