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mmu_circTrappc8_2066
Basic information of circular RNA
PanCircBase ID:
mmu_circTrappc8_2066
mm39_Chr. Position ID:
chr18|20969803|20998199|-
Gene name:
Trappc8
Transcript:
ENSMUST00000225661.3
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
13
Exon/intron indexes:
20,19,18,17,16,15,14,13,12,11,10,9,8
Exon/intron offsets:
0,4781,7377,8831,9702,10371,14151,15883,18198,23686,26148,26721,28280
Genomic length:
28396
Exon/intron sizes in nt:
4,43,15,51,27,75,13,11,00,00,00,00,00,00,00,00,00,00,000
Flanking exon/introns:
chr18:20968150-20969803|chr18:20998199-20999006
Splice length:
2066
Other database IDs:
circAtlas: mmu-Trappc8_0043
circBase: hsa_circ_0047363
Human Ortholog IDs:
Mature spliced Sequence:
CTAATATCAAGGAAAGGTTTGAGTCGATCTCTGTTTTCTGCCACTAAGAAATGGTTTAGTGGTAGTAAAGTTCCAGAAAAGAGCATTAATGAGCTGAAGAATACATCTGGGTTGTTGTATCCGCCAGAAGCGCCCGAGCTTCAGATCAGGAAGATGGCTGACTTGTGCTTCTTGGTGCAACATTATGATTTGGCTTACAGTTGTTATCACACTGCAAAGAAGGATTTTCTTAACGATCAAGCAATGCTTTATGCAGCAGGTGCCTTGGAAATGGCAGCAGTGTCAGCCTTTCTTCAGCCAGGAGCTCCTAGGCCATACCCTGCTCATTACATGGACACAGCAATTCAGACATACAGGGATATCTGCAAGAATATGGTGTTGGCTGAAAGATGTGTGTTGCTTAGTGCTGAAATTTTAAAAAGTCAAAGCAAGTACTCAGAGGCTGCAGCTCTTCTGATACGATTGACAAGTGAGGATTCTGATCTCCGAAGTGCCCTTCTTTTGGAACAGGCTGCACATTGCTTCATAAACATGAAGAGTCCCATGGTTAGAAAATACGCATTTCATATGATCCTGGCAGGCCACCGTTTTAGTAAAGCAGGGCAGAAAAAGCATGCTTTGCGCTGCTATTGTCAAGCCATGCAAGTTTACAAAGGAAAGGGCTGGTCTCTGGCAGAGGATCACATCAACTTCACCATTGGGCGCCAGTCCTATACTCTGAGGCAGCTGGACAATGCTGTTTCTGCTTTTAGACACATTTTAATCAATGAAAGCAAACAGTCTGCTGCTCAGCAAGGAGCCTTCCTCAGAGAATATCTTTATGTTTATAAGAATGTAAATCAGCTGTCACCAGATGGCCCTTTACCACAGCTTCCCTTACCATACATTAACAGTTCAGCAACACGGGTTTTCTTCGGCCATGACAGACGACCAGCAGATGGTGAAAAGCAAGCGGCTACTCATATAAGTCTTGATCAAGAATATGACTCTGAGTCATCCCAGCAGTGGCGGGAACTTGAGGAACATGTTGTGGCTGTGGCTAATAAAGGAGTAATTCCATCCAGTTTCTATCCTACACAGTATTGTCTGAACAGTTACTCCGATAACTCCAGGTTTCCACTTGCAGTTGTAGAAGAGCCAATTACTGTGGAAGTGGCTTTTAGAAACCCTTTAAAAGTTCCGCTTTTGCTGTCTGATTTGTCATTACTCTGGAAGTTTCAGCCTAAAGATGCCAGTGGGAAAGACATTGAAAAAGTGAAAGAACGAGTTACAGGTGAACCTGAAATGATTGGAACTGAAGTTATTTCAGAATTCTTAATTAACAGTGAAGAATCTAAAGTGGCAAGACTGAAGCTCTTTCCCCATCACATAGGGGAGCTGCACATTCTGGGAGTTGTGTATAATCTTGGCACTATTCAGGGCTCCGGGACAGTAGATGGCATTGGTGCTCTTCCTGGATGTCACACAGGAAAACATTCTCTGAGTATGTCAGTACGAGGGAGACAGGATTTAGAAATTCAAGGCCCTCGACTTAACAACACAAAGGAAGAGAAGACATCTGTAAAGTACGGTCCTGACCGACGTTTAGATCCTATAGTCACAGAGGAGATGCCGCTGCTGGAGGTGTTCTTTATACATTTTCCTACAGGGCTCCTCTGTGGAGAAATCCGAAAAGCATATGTAGAGTTTGTCAATGTCAGCAAATGTCCTCTGACTGGACTGAAAGTTGTGTCTAAACGTCCAGAGTTCTTCACTTTTGGTGGCAATACCGCTGCTCTAACACCACTGAGCCCCTCCACATCTGAGAACTGCAGTGCCTATAAGACGGTTGTAACAGCTTCCCCCTCCTTGGGAACAGCACTTGTGTCAACAGCATCATCTATGGACTTTGGAACTGGCACCGGACAGCAGCTGGAGGCCATTCCTGTCCCCCTTCCTGACTCCGTGCTGCTCCCCGGAGCTTCCATCCAGCTGCCAATGTGGCTTCGTGGGCCAGACGAAGAGGGTGTCCATGAAATTAACTTTTTATTTTACTATGAAAGTGTTAAAAAGCAGCCTAAAAAACG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GACGAAGAGGGTGTCCATGA
59.1
CAGCTCATTAATGCTCTTTTCTGGA
59.64
167
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GACGAAGAGGGTGTCCATGA
59.1
TCAGCTCATTAATGCTCTTTTCTGG
59.64
168
PCR template sequence:
TCCAGCTGCCAATGTGGCTTCGTGGGCCAGACGAAGAGGGTGTCCATGAAATTAACTTTTTATTTTACTATGAAAGTGTTAAAAAGCAGCCTAAAAAACGCTAATATCAAGGAAAGGTTTGAGTCGATCTCTGTTTTCTGCCACTAAGAAATGGTTTAGTGGTAGTAAAGTTCCAGAAAAGAGCATTAATGAGCTGAAGA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
22
Interacting miRNAs (#binding sites)
mmu-miR-15b-5p(2), mmu-miR-503-5p(2), mmu-miR-680(2), mmu-miR-124-3p(1), mmu-miR-16-5p(1), mmu-miR-15a-5p(1), mmu-miR-93-5p(1), mmu-miR-429-3p(1), mmu-miR-200b-3p(1), mmu-miR-103-3p(1), mmu-miR-221-3p(1), mmu-miR-322-5p(1), mmu-miR-29b-3p(1), mmu-miR-222-3p(1), mmu-miR-10a-5p(1), mmu-miR-22-3p(1), mmu-miR-127-5p(1), mmu-miR-297a-5p(1), mmu-miR-107-3p(1), mmu-miR-490-3p(1), mmu-miR-193b-3p(1), mmu-miR-542-5p(1)
siRNAs for circular RNA silencing
Junction sequence
AGCCTAAAAAACGCTAATATCAAGGA
siRNA sets
GATATTAGCGTTTTTTAGG, TATTAGCGTTTTTTAGGCT, ATATTAGCGTTTTTTAGGC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCTRAPPC8_2066_ORF_1
0.8808
0.07585201
0.999970824
1917
ORF sequence:
ATGGCTGACTTGTGCTTCTTGGTGCAACATTATGATTTGGCTTACAGTTGTTATCACACTGCAAAGAAGGATTTTCTTAACGATCAAGCAATGCTTTATGCAGCAGGTGCCTTGGAAATGGCAGCAGTGTCAGCCTTTCTTCAGCCAGGAGCTCCTAGGCCATACCCTGCTCATTACATGGACACAGCAATTCAGACATACAGGGATATCTGCAAGAATATGGTGTTGGCTGAAAGATGTGTGTTGCTTAGTGCTGAAATTTTAAAAAGTCAAAGCAAGTACTCAGAGGCTGCAGCTCTTCTGATACGATTGACAAGTGAGGATTCTGATCTCCGAAGTGCCCTTCTTTTGGAACAGGCTGCACATTGCTTCATAAACATGAAGAGTCCCATGGTTAGAAAATACGCATTTCATATGATCCTGGCAGGCCACCGTTTTAGTAAAGCAGGGCAGAAAAAGCATGCTTTGCGCTGCTATTGTCAAGCCATGCAAGTTTACAAAGGAAAGGGCTGGTCTCTGGCAGAGGATCACATCAACTTCACCATTGGGCGCCAGTCCTATACTCTGAGGCAGCTGGACAATGCTGTTTCTGCTTTTAGACACATTTTAATCAATGAAAGCAAACAGTCTGCTGCTCAGCAAGGAGCCTTCCTCAGAGAATATCTTTATGTTTATAAGAATGTAAATCAGCTGTCACCAGATGGCCCTTTACCACAGCTTCCCTTACCATACATTAACAGTTCAGCAACACGGGTTTTCTTCGGCCATGACAGACGACCAGCAGATGGTGAAAAGCAAGCGGCTACTCATATAAGTCTTGATCAAGAATATGACTCTGAGTCATCCCAGCAGTGGCGGGAACTTGAGGAACATGTTGTGGCTGTGGCTAATAAAGGAGTAATTCCATCCAGTTTCTATCCTACACAGTATTGTCTGAACAGTTACTCCGATAACTCCAGGTTTCCACTTGCAGTTGTAGAAGAGCCAATTACTGTGGAAGTGGCTTTTAGAAACCCTTTAAAAGTTCCGCTTTTGCTGTCTGATTTGTCATTACTCTGGAAGTTTCAGCCTAAAGATGCCAGTGGGAAAGACATTGAAAAAGTGAAAGAACGAGTTACAGGTGAACCTGAAATGATTGGAACTGAAGTTATTTCAGAATTCTTAATTAACAGTGAAGAATCTAAAGTGGCAAGACTGAAGCTCTTTCCCCATCACATAGGGGAGCTGCACATTCTGGGAGTTGTGTATAATCTTGGCACTATTCAGGGCTCCGGGACAGTAGATGGCATTGGTGCTCTTCCTGGATGTCACACAGGAAAACATTCTCTGAGTATGTCAGTACGAGGGAGACAGGATTTAGAAATTCAAGGCCCTCGACTTAACAACACAAAGGAAGAGAAGACATCTGTAAAGTACGGTCCTGACCGACGTTTAGATCCTATAGTCACAGAGGAGATGCCGCTGCTGGAGGTGTTCTTTATACATTTTCCTACAGGGCTCCTCTGTGGAGAAATCCGAAAAGCATATGTAGAGTTTGTCAATGTCAGCAAATGTCCTCTGACTGGACTGAAAGTTGTGTCTAAACGTCCAGAGTTCTTCACTTTTGGTGGCAATACCGCTGCTCTAACACCACTGAGCCCCTCCACATCTGAGAACTGCAGTGCCTATAAGACGGTTGTAACAGCTTCCCCCTCCTTGGGAACAGCACTTGTGTCAACAGCATCATCTATGGACTTTGGAACTGGCACCGGACAGCAGCTGGAGGCCATTCCTGTCCCCCTTCCTGACTCCGTGCTGCTCCCCGGAGCTTCCATCCAGCTGCCAATGTGGCTTCGTGGGCCAGACGAAGAGGGTGTCCATGAAATTAACTTTTTATTTTACTATGAAAGTGTTAAAAAGCAGCCTAAAAAACGCTAA
Peptide sequence:
MADLCFLVQHYDLAYSCYHTAKKDFLNDQAMLYAAGALEMAAVSAFLQPGAPRPYPAHYMDTAIQTYRDICKNMVLAERCVLLSAEILKSQSKYSEAAALLIRLTSEDSDLRSALLLEQAAHCFINMKSPMVRKYAFHMILAGHRFSKAGQKKHALRCYCQAMQVYKGKGWSLAEDHINFTIGRQSYTLRQLDNAVSAFRHILINESKQSAAQQGAFLREYLYVYKNVNQLSPDGPLPQLPLPYINSSATRVFFGHDRRPADGEKQAATHISLDQEYDSESSQQWRELEEHVVAVANKGVIPSSFYPTQYCLNSYSDNSRFPLAVVEEPITVEVAFRNPLKVPLLLSDLSLLWKFQPKDASGKDIEKVKERVTGEPEMIGTEVISEFLINSEESKVARLKLFPHHIGELHILGVVYNLGTIQGSGTVDGIGALPGCHTGKHSLSMSVRGRQDLEIQGPRLNNTKEEKTSVKYGPDRRLDPIVTEEMPLLEVFFIHFPTGLLCGEIRKAYVEFVNVSKCPLTGLKVVSKRPEFFTFGGNTAALTPLSPSTSENCSAYKTVVTASPSLGTALVSTASSMDFGTGTGQQLEAIPVPLPDSVLLPGASIQLPMWLRGPDEEGVHEINFLFYYESVKKQPKKR
IRESfinder result
IRESfinder score
0.614694697
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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