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mmu_circTrmt5_766
Basic information of circular RNA
PanCircBase ID:
mmu_circTrmt5_766
mm39_Chr. Position ID:
chr12|73329385|73332049|-
Gene name:
Trmt5
Transcript:
ENSMUST00000116420.4
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
3,2
Exon/intron offsets:
0,2023
Genomic length:
2664
Exon/intron sizes in nt:
125,641
Flanking exon/introns:
chr12:73328430-73329385|chr12:73332049-73333457
Splice length:
766
Other database IDs:
circAtlas: mmu-Trmt5_0001
circAtlas: hsa-TRMT5_0002, CIRCpedia: HSA_CIRCpedia_84733
Human Ortholog IDs:
Mature spliced Sequence:
AATCGTATGGAAGCTATTTGGATTCTCAAGAAGACTTTTGCAAGTGGAATGGTGTCACCCCAGTGAATCAATATTGTTGTTTACCCTGGTGCCGAGACTTAGGAAAGCGCCTTCTGTTTTCTTGTTGGGTCAAAGACAAGGACTCTCAACCATGCCAGAAATAGAAGCAAGTGTGAGAGATAGTGAATTATTTTCACCACCCTCTGACGTTCGAGGAATGAGAGAACTTGATAGAACAGCTTTTAAGAAGACAGTGTCCATCCCTGTGCTTAAAGCGAGGAAAGAAGTAGTCAACAGATTGATGCGAGCCCTCAGGAGAGTAGCCCTGCAGCGCCCGGGCATAAAGCGAGTGATTGAGGATCCCAAGGATGAAGACAGTAGGCTGATCATGTTGGACCCCTACAGGATGCTTACTGCTGATTCCTTTGACAAAGCAGAACTCGGAGTTTTAAAAGAACTTGATGTCAGCCCACAGTTATCCCAGTACAACTTGGAACTAACATATGAAAATTTTAAGTCAGAAGAAATTTTGAAAGCTGTGCTTCCTGAAGGTCAAGATGTAACCTCTGGATTCAGCAGGGTTGGGCATATTGCACACCTGAATCTCCGAGATCACCAGCTGCCCTTCAAGCATTTAATTGGCCAAGTTATGGTTGACAAAAACCCAGGAATCACCTCAGCAGTAAATAAAACCAGCAACATTGACAATACGTACCGAAATTTCCAAATGGAAGTGCTGTGTGGAGAGGAAAATATGCTGACCAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCAAATGGAAGTGCTGTGTGG
60
GTCTCGGCACCAGGGTAAAC
60.67
141
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCAAATGGAAGTGCTGTGTGG
60
AGTCTCGGCACCAGGGTAAA
60.83
142
PCR template sequence:
AGGAATCACCTCAGCAGTAAATAAAACCAGCAACATTGACAATACGTACCGAAATTTCCAAATGGAAGTGCTGTGTGGAGAGGAAAATATGCTGACCAAGAATCGTATGGAAGCTATTTGGATTCTCAAGAAGACTTTTGCAAGTGGAATGGTGTCACCCCAGTGAATCAATATTGTTGTTTACCCTGGTGCCGAGACTT
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-138-5p(1), mmu-miR-29b-1-5p(1), mmu-miR-382-5p(1), mmu-miR-370-3p(1), mmu-miR-362-5p(1), mmu-miR-335-3p(1), mmu-miR-1904(1)
siRNAs for circular RNA silencing
Junction sequence
TATGCTGACCAAGAATCGTATGGAAG
siRNA sets
ATACGATTCTTGGTCAGCA, CATACGATTCTTGGTCAGC, TACGATTCTTGGTCAGCAT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCTRMT5_766_ORF_1
1.0127
0.163802139
0.89920102
681
ORF sequence:
ATGCCAGAAATAGAAGCAAGTGTGAGAGATAGTGAATTATTTTCACCACCCTCTGACGTTCGAGGAATGAGAGAACTTGATAGAACAGCTTTTAAGAAGACAGTGTCCATCCCTGTGCTTAAAGCGAGGAAAGAAGTAGTCAACAGATTGATGCGAGCCCTCAGGAGAGTAGCCCTGCAGCGCCCGGGCATAAAGCGAGTGATTGAGGATCCCAAGGATGAAGACAGTAGGCTGATCATGTTGGACCCCTACAGGATGCTTACTGCTGATTCCTTTGACAAAGCAGAACTCGGAGTTTTAAAAGAACTTGATGTCAGCCCACAGTTATCCCAGTACAACTTGGAACTAACATATGAAAATTTTAAGTCAGAAGAAATTTTGAAAGCTGTGCTTCCTGAAGGTCAAGATGTAACCTCTGGATTCAGCAGGGTTGGGCATATTGCACACCTGAATCTCCGAGATCACCAGCTGCCCTTCAAGCATTTAATTGGCCAAGTTATGGTTGACAAAAACCCAGGAATCACCTCAGCAGTAAATAAAACCAGCAACATTGACAATACGTACCGAAATTTCCAAATGGAAGTGCTGTGTGGAGAGGAAAATATGCTGACCAAGAATCGTATGGAAGCTATTTGGATTCTCAAGAAGACTTTTGCAAGTGGAATGGTGTCACCCCAGTGA
Peptide sequence:
MPEIEASVRDSELFSPPSDVRGMRELDRTAFKKTVSIPVLKARKEVVNRLMRALRRVALQRPGIKRVIEDPKDEDSRLIMLDPYRMLTADSFDKAELGVLKELDVSPQLSQYNLELTYENFKSEEILKAVLPEGQDVTSGFSRVGHIAHLNLRDHQLPFKHLIGQVMVDKNPGITSAVNKTSNIDNTYRNFQMEVLCGEENMLTKNRMEAIWILKKTFASGMVSPQ
IRESfinder result
IRESfinder score
0.654430416
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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