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mmu_circTrappc11_1936
Basic information of circular RNA
PanCircBase ID:
mmu_circTrappc11_1936
mm39_Chr. Position ID:
chr8|47946273|47966463|-
Gene name:
Trappc11
Transcript:
ENSMUST00000039061.15
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
15
Exon/intron indexes:
29,28,27,26,25,24,23,22,21,20,19,18,17,16,15
Exon/intron offsets:
0,1764,3680,5415,8314,8569,10073,10643,12095,12347,14342,17632,19097,19322,20044
Genomic length:
20190
Exon/intron sizes in nt:
1,68,13,49,21,12,15,76,00,00,00,00,00,00,00,00,00,00,00,00,000
Flanking exon/introns:
chr8:47943953-47946273|chr8:47966463-47966788
Splice length:
1936
Other database IDs:
circAtlas: mmu-Trappc11_0010
circAtlas: hsa-TRAPPC11_0080
Human Ortholog IDs:
Mature spliced Sequence:
GCTGCTGGACTATGTGATGTGTGACTACCGGAGCGAAGCGTGGTGGACTCTGCTCACGTCGATACTGACGACAGCCCTGAAGTGTTCCTACCTCATGGCCCAGTTAAAAGATTATATTACTTATTCTCTGGAACTCCTTGGACGAGCTTCAACTCTGAAAGATGAGCAGAAGTCTCGGATAGAGAAGAACCTCATGAATGTTTTAATGAATGAAAGCCCTGACCCTGAACCTGACTGTGATGTCTTAGCGGTGAAGACTGCGCAGAAGCTGTGGGCGGACCGGGTCTCTCTGGCTGGCAGCAATGTCTTCCAGATAGGCGTACAGGACTTCGTGCCATTTGTACAATGCAAAGCCAAGTTCCACGCTCCAAGTTTTCACGTGGATGTTCCTGTTGAGTTTGATGTTTTTCTGAAGGCTGACTGTCCACACCCCATTAGGTTTTCCAAGCTCTGCGTCAGCTTTAATAACCAGGTTTACAACCAATTCTGTGTATTGGAAGAAGCATCCAAAGCAAGTGAGGTCTTAGAAAATCTGACTCAGGGAAAGATGTGCTTAGTTCCCGGCAAAACAAGGAAATTGTCATTTAAATTTGTTGCAAAAACAGAAGATGTGGGAAAGAAAATCGAGATCACCTCTGTGGATCTGTTTCTGGGCAGCGAGTCAGGCCGGTGTGTGGTTTTGAGCTGGCAGGGAGGAGGAGGAGATGCTGCGTCCTCCCAGGAAGCCCTGCAGGCTGCAAGGTCTTTCAAAAGGCGGCCAAAGCTTGCTGAGGACGAGATCCACTGGGACAGCGTCATAATCCAGGCAAGCACAATGATCATTTCCAGAGTCCCAAACATCTCTGTCCACCTGCGACACGAGCCCCCTGCTCTAATGAATGAGATGTACTGTTTGGTTGTCACTGTTCAGTCCCACGAGAAGTCCCCAATCAGGGATGTGAAGCTCACTGCGGGCCTGAAGCCAGGGCAGGATGCCAATCTAACCCAGAAAACTCATGTGACACTTCACGGGGCAGAGCTGTGTGATGAGTCCTACCCAGCCCTCCTCACTGACATTCCTGTGGGAGACCTACACCCAGGGGAGCAGCTAGAAAAAACAGTATATGTTCGCTGTGGAACAGTGGGTTCCAGAATGTTCCTTGTGTACGTTTCTTACCTGATCAATACAACTGTTGAAGGAAAAGAAATTATTTGCAAGTGTCACAAGGATGATACTGTCACAATAGAAACTGTCTTTCCATTTGATGTCGCAGTCAGATTTGTTTCCACAAAGTTTGAGCACCTGGAAAGAGTCTATGCAGACATCCCCTTCCTGTTGATGACAGATGTTTTAAGTGCCTCTCCTTGGGCCCTCACAATTGTGTCCAGTGAGCTACAGCTTGCTCCATCAATGACTGCAATGGATCATCTGGAGTCCCAGATAGACAAAGTTGTCTTACAGACAGGAGAGAGCGCTAGCGAGTGCTTCTGTCTTCGCTGCCCGTCTGCTGGGAACATTGAAGGTGGAGTGGCAACGGGACATTACATTATCTCCTGGAAGAGGGCCTCGGTTGTGGAAAGCATCCCCGCCGTCAGCACCGTCATCACACTGCCTCACGTGATTGCTGAAAACATCCCTCTCCACGTGAACGCAGACCTGCCCTCGTTTGGACGTGTCAGAGAGTCGTTGCCCGTCAGGTACCACCTGCAGAATAAGACCGACTTGGTTCAAGATGTGGAGATTTCTGTGGAGCCCAGTGACGCCTTCATGTTCTCAGGCCTCAAACAGATCCGATTGCGTATTCTCCCTGGCACCAAACAGGAAATGCTGTATAATTTCTATCCTCTGATGGCTGGGTACCAGCAGCTGCCGTCGCTCAACATCAACTTGCTTAGGTTTCCCAACTTCACCAACCAGCTGCTCAGACGTTTCATCCCGACCAGCATTTTTGTGAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CAACTTCACCAACCAGCTGC
59.97
AACACTTCAGGGCTGTCGTC
60.25
141
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CAACTTCACCAACCAGCTGC
59.97
GAACACTTCAGGGCTGTCGT
60.25
142
PCR template sequence:
GTACCAGCAGCTGCCGTCGCTCAACATCAACTTGCTTAGGTTTCCCAACTTCACCAACCAGCTGCTCAGACGTTTCATCCCGACCAGCATTTTTGTGAAGGCTGCTGGACTATGTGATGTGTGACTACCGGAGCGAAGCGTGGTGGACTCTGCTCACGTCGATACTGACGACAGCCCTGAAGTGTTCCTACCTCATGGCC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
17
Interacting miRNAs (#binding sites)
mmu-miR-206-3p(1), mmu-let-7e-5p(1), mmu-miR-34c-5p(1), mmu-miR-34a-5p(1), mmu-let-7c-5p(1), mmu-miR-33-5p(1), mmu-miR-320-3p(1), mmu-miR-483-5p(1), mmu-miR-34b-5p(1), mmu-miR-342-5p(1), mmu-miR-673-5p(1), mmu-miR-188-3p(1), mmu-miR-3065-5p(1), mmu-miR-670-5p(1), mmu-miR-1904(1), mmu-miR-296-3p(1), mmu-miR-7a-1-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CATTTTTGTGAAGGCTGCTGGACTAT
siRNA sets
ATAGTCCAGCAGCCTTCAC,TAGTCCAGCAGCCTTCACA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCTRAPPC11_1936_ORF_1
1.1275
0.210434633
0.999991299
1944
ORF sequence:
ATGTGTGACTACCGGAGCGAAGCGTGGTGGACTCTGCTCACGTCGATACTGACGACAGCCCTGAAGTGTTCCTACCTCATGGCCCAGTTAAAAGATTATATTACTTATTCTCTGGAACTCCTTGGACGAGCTTCAACTCTGAAAGATGAGCAGAAGTCTCGGATAGAGAAGAACCTCATGAATGTTTTAATGAATGAAAGCCCTGACCCTGAACCTGACTGTGATGTCTTAGCGGTGAAGACTGCGCAGAAGCTGTGGGCGGACCGGGTCTCTCTGGCTGGCAGCAATGTCTTCCAGATAGGCGTACAGGACTTCGTGCCATTTGTACAATGCAAAGCCAAGTTCCACGCTCCAAGTTTTCACGTGGATGTTCCTGTTGAGTTTGATGTTTTTCTGAAGGCTGACTGTCCACACCCCATTAGGTTTTCCAAGCTCTGCGTCAGCTTTAATAACCAGGTTTACAACCAATTCTGTGTATTGGAAGAAGCATCCAAAGCAAGTGAGGTCTTAGAAAATCTGACTCAGGGAAAGATGTGCTTAGTTCCCGGCAAAACAAGGAAATTGTCATTTAAATTTGTTGCAAAAACAGAAGATGTGGGAAAGAAAATCGAGATCACCTCTGTGGATCTGTTTCTGGGCAGCGAGTCAGGCCGGTGTGTGGTTTTGAGCTGGCAGGGAGGAGGAGGAGATGCTGCGTCCTCCCAGGAAGCCCTGCAGGCTGCAAGGTCTTTCAAAAGGCGGCCAAAGCTTGCTGAGGACGAGATCCACTGGGACAGCGTCATAATCCAGGCAAGCACAATGATCATTTCCAGAGTCCCAAACATCTCTGTCCACCTGCGACACGAGCCCCCTGCTCTAATGAATGAGATGTACTGTTTGGTTGTCACTGTTCAGTCCCACGAGAAGTCCCCAATCAGGGATGTGAAGCTCACTGCGGGCCTGAAGCCAGGGCAGGATGCCAATCTAACCCAGAAAACTCATGTGACACTTCACGGGGCAGAGCTGTGTGATGAGTCCTACCCAGCCCTCCTCACTGACATTCCTGTGGGAGACCTACACCCAGGGGAGCAGCTAGAAAAAACAGTATATGTTCGCTGTGGAACAGTGGGTTCCAGAATGTTCCTTGTGTACGTTTCTTACCTGATCAATACAACTGTTGAAGGAAAAGAAATTATTTGCAAGTGTCACAAGGATGATACTGTCACAATAGAAACTGTCTTTCCATTTGATGTCGCAGTCAGATTTGTTTCCACAAAGTTTGAGCACCTGGAAAGAGTCTATGCAGACATCCCCTTCCTGTTGATGACAGATGTTTTAAGTGCCTCTCCTTGGGCCCTCACAATTGTGTCCAGTGAGCTACAGCTTGCTCCATCAATGACTGCAATGGATCATCTGGAGTCCCAGATAGACAAAGTTGTCTTACAGACAGGAGAGAGCGCTAGCGAGTGCTTCTGTCTTCGCTGCCCGTCTGCTGGGAACATTGAAGGTGGAGTGGCAACGGGACATTACATTATCTCCTGGAAGAGGGCCTCGGTTGTGGAAAGCATCCCCGCCGTCAGCACCGTCATCACACTGCCTCACGTGATTGCTGAAAACATCCCTCTCCACGTGAACGCAGACCTGCCCTCGTTTGGACGTGTCAGAGAGTCGTTGCCCGTCAGGTACCACCTGCAGAATAAGACCGACTTGGTTCAAGATGTGGAGATTTCTGTGGAGCCCAGTGACGCCTTCATGTTCTCAGGCCTCAAACAGATCCGATTGCGTATTCTCCCTGGCACCAAACAGGAAATGCTGTATAATTTCTATCCTCTGATGGCTGGGTACCAGCAGCTGCCGTCGCTCAACATCAACTTGCTTAGGTTTCCCAACTTCACCAACCAGCTGCTCAGACGTTTCATCCCGACCAGCATTTTTGTGAAGGCTGCTGGACTATGTGATGTGTGA
Peptide sequence:
MCDYRSEAWWTLLTSILTTALKCSYLMAQLKDYITYSLELLGRASTLKDEQKSRIEKNLMNVLMNESPDPEPDCDVLAVKTAQKLWADRVSLAGSNVFQIGVQDFVPFVQCKAKFHAPSFHVDVPVEFDVFLKADCPHPIRFSKLCVSFNNQVYNQFCVLEEASKASEVLENLTQGKMCLVPGKTRKLSFKFVAKTEDVGKKIEITSVDLFLGSESGRCVVLSWQGGGGDAASSQEALQAARSFKRRPKLAEDEIHWDSVIIQASTMIISRVPNISVHLRHEPPALMNEMYCLVVTVQSHEKSPIRDVKLTAGLKPGQDANLTQKTHVTLHGAELCDESYPALLTDIPVGDLHPGEQLEKTVYVRCGTVGSRMFLVYVSYLINTTVEGKEIICKCHKDDTVTIETVFPFDVAVRFVSTKFEHLERVYADIPFLLMTDVLSASPWALTIVSSELQLAPSMTAMDHLESQIDKVVLQTGESASECFCLRCPSAGNIEGGVATGHYIISWKRASVVESIPAVSTVITLPHVIAENIPLHVNADLPSFGRVRESLPVRYHLQNKTDLVQDVEISVEPSDAFMFSGLKQIRLRILPGTKQEMLYNFYPLMAGYQQLPSLNINLLRFPNFTNQLLRRFIPTSIFVKAAGLCDV
IRESfinder result
IRESfinder score
0.585941531
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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