top of page
mmu_circTrappc8_505
Basic information of circular RNA
PanCircBase ID:
mmu_circTrappc8_505
mm39_Chr. Position ID:
chr18|20999006|21003809|-
Gene name:
Trappc8
Transcript:
ENSMUST00000225661.3
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
7,6,5
Exon/intron offsets:
0,1810,4649
Genomic length:
4803
Exon/intron sizes in nt:
2,57,94,154
Flanking exon/introns:
chr18:20998199-20999006|chr18:21003809-21006939
Splice length:
505
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GGCTGAATCAATTTATGAAGAAATGAAACAGAAATATGGAACTCAGGGTTGCTATTTACTTAAAATCAATTCTCGAGCACCAAATCGAGCATCAGATGAACAGATACCAGATCCGTGGAGTCAGTATCTCCAGAAAAATAGTATTCAAAACCAGGAATCATATGAAGATGGCCCTTGTACTATGACCTCCAGTAAGAATTCTGATAGTAACTTGCTTTCATTGGATGGACTAGATAACGAAGTCAAAGTAGATGGCCTACCAAATAACTTCAGAATTCATCCACTTCAAATAGACCAATGCGGTGACCCTCCTAACAATACTGACGGCTCAGAGTCAAAGTCTGCTTCTTCAGTTCACGAGACAAAGAAAGCAAGTACTGCAGTGATTCGTGGTGCTTGCTTAACACTCACTGACCATGATAGAATCCGACAGTTTATACAAGAGTTTACATTCCGTGGCCTTTTGCCACACATAGAGAAAACAATTCGTCAGTTAAATGATCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TACATTCCGTGGCCTTTTGC
59.11
ATGCTCGATTTGGTGCTCGA
60.11
150
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TACATTCCGTGGCCTTTTGC
59.11
GATGCTCGATTTGGTGCTCG
59.7
151
PCR template sequence:
ACTCACTGACCATGATAGAATCCGACAGTTTATACAAGAGTTTACATTCCGTGGCCTTTTGCCACACATAGAGAAAACAATTCGTCAGTTAAATGATCAGGGCTGAATCAATTTATGAAGAAATGAAACAGAAATATGGAACTCAGGGTTGCTATTTACTTAAAATCAATTCTCGAGCACCAAATCGAGCATCAGATGAA
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-1a-3p(1), mmu-miR-206-3p(1), mmu-miR-29b-3p(1), mmu-miR-125b-5p(1), mmu-miR-125a-5p(1), mmu-miR-29b-1-5p(1), mmu-miR-466a-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GTTAAATGATCAGGGCTGAATCAATT
siRNA sets
AATTGATTCAGCCCTGATC, ATTCAGCCCTGATCATTTA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCTRAPPC8_505_ORF_1
0.9208
0.040260209
0.577426878
513
ORF sequence:
ATGATCAGGGCTGAATCAATTTATGAAGAAATGAAACAGAAATATGGAACTCAGGGTTGCTATTTACTTAAAATCAATTCTCGAGCACCAAATCGAGCATCAGATGAACAGATACCAGATCCGTGGAGTCAGTATCTCCAGAAAAATAGTATTCAAAACCAGGAATCATATGAAGATGGCCCTTGTACTATGACCTCCAGTAAGAATTCTGATAGTAACTTGCTTTCATTGGATGGACTAGATAACGAAGTCAAAGTAGATGGCCTACCAAATAACTTCAGAATTCATCCACTTCAAATAGACCAATGCGGTGACCCTCCTAACAATACTGACGGCTCAGAGTCAAAGTCTGCTTCTTCAGTTCACGAGACAAAGAAAGCAAGTACTGCAGTGATTCGTGGTGCTTGCTTAACACTCACTGACCATGATAGAATCCGACAGTTTATACAAGAGTTTACATTCCGTGGCCTTTTGCCACACATAGAGAAAACAATTCGTCAGTTAAATGATCAG
Peptide sequence:
MIRAESIYEEMKQKYGTQGCYLLKINSRAPNRASDEQIPDPWSQYLQKNSIQNQESYEDGPCTMTSSKNSDSNLLSLDGLDNEVKVDGLPNNFRIHPLQIDQCGDPPNNTDGSESKSASSVHETKKASTAVIRGACLTLTDHDRIRQFIQEFTFRGLLPHIEKTIRQLNDQ
IRESfinder result
IRESfinder score
0.700808458
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page