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mmu_circTrmt1l_437
Basic information of circular RNA
PanCircBase ID:
mmu_circTrmt1l_437
mm39_Chr. Position ID:
chr1|151327798|151329802|+
Gene name:
Trmt1l
Transcript:
ENSMUST00000065625.12
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
10,11,12
Exon/intron offsets:
0,1029,1837
Genomic length:
2004
Exon/intron sizes in nt:
1,91,79,167
Flanking exon/introns:
chr1:151325863-151327798|chr1:151329802-151330728
Splice length:
437
Other database IDs:
circAtlas: mmu-Trmt1l_0010
circBase: hsa_circ_0015663, circAtlas: hsa-TRMT1L_0013, CIRCpedia: HSA_CIRCpedia_29180
Human Ortholog IDs:
Mature spliced Sequence:
AGCTGCAGCACGGTGCAACAAAGGTATAGAAGTGCTGTTTGCGGTGGCCCTGGAACACTTCGTGTTGGTAGTTGTGAGGGTCTTAAGAGGCCCTACTTCAGCGGACGAGACTGCCAAGAAAATCCAGTACCTGATCCACTGCCAGTGGTGTGAAGAGAGGATTTTTCAGAAGGATGGAAACATGGTGGAAGAAAACCCATACAGACAGCTGCCCTGTAATTGTCATGGGAGCATGCCTGGCAAGACAGCGATAGAACTCGGGCCTCTGTGGTCAAGTTCCCTTTTCAATACTGGATTCCTCAAAAGGATGCTATTTGAATCTATTCACCATGGTTTGGATGACATTCAACCCCTAATAAAGACATTAATCTTTGAATCAGAGTGTACCCCCCAAAGCCAGTGTTCAACTCATGCACCTTCAAATACCAACAAGCAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCCCAAAGCCAGTGTTCAAC
59.61
GGGCCTCTTAAGACCCTCAC
59.46
142
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCCCCAAAGCCAGTGTTCAA
60.76
GGGCCTCTTAAGACCCTCAC
59.46
143
PCR template sequence:
GATGACATTCAACCCCTAATAAAGACATTAATCTTTGAATCAGAGTGTACCCCCCAAAGCCAGTGTTCAACTCATGCACCTTCAAATACCAACAAGCAAGAGCTGCAGCACGGTGCAACAAAGGTATAGAAGTGCTGTTTGCGGTGGCCCTGGAACACTTCGTGTTGGTAGTTGTGAGGGTCTTAAGAGGCCCTACTTCA
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-34c-5p(1), mmu-miR-34a-5p(1), mmu-miR-322-5p(1), mmu-miR-18a-5p(1), mmu-miR-431-5p(1), mmu-miR-34b-5p(1), mmu-miR-452-3p(1)
siRNAs for circular RNA silencing
Junction sequence
ACCAACAAGCAAGAGCTGCAGCACGG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCTRMT1L_437_ORF_1
0.5523
-0.049098326
0.084665493
285
ORF sequence:
ATGGTGGAAGAAAACCCATACAGACAGCTGCCCTGTAATTGTCATGGGAGCATGCCTGGCAAGACAGCGATAGAACTCGGGCCTCTGTGGTCAAGTTCCCTTTTCAATACTGGATTCCTCAAAAGGATGCTATTTGAATCTATTCACCATGGTTTGGATGACATTCAACCCCTAATAAAGACATTAATCTTTGAATCAGAGTGTACCCCCCAAAGCCAGTGTTCAACTCATGCACCTTCAAATACCAACAAGCAAGAGCTGCAGCACGGTGCAACAAAGGTATAG
Peptide sequence:
MVEENPYRQLPCNCHGSMPGKTAIELGPLWSSSLFNTGFLKRMLFESIHHGLDDIQPLIKTLIFESECTPQSQCSTHAPSNTNKQELQHGATKV
IRESfinder result
IRESfinder score
0.572943813
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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