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mmu_circTenm3_477
Basic information of circular RNA
PanCircBase ID:
mmu_circTenm3_477
mm39_Chr. Position ID:
chr8|48848470|48870280|-
Gene name:
Tenm3
Transcript:
ENSMUST00000033965.14
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
4,3
Exon/intron offsets:
0,21572
Genomic length:
21810
Exon/intron sizes in nt:
239,238
Flanking exon/introns:
chr8:48820468-48848470|chr8:48870280-49099292
Splice length:
477
Other database IDs:
circBase: mmu_circ_0014854, CIRCpedia: MMU_CIRCpedia_21325, circAtlas: mmu-Tenm3_0007
circBase: hsa_circ_0071480, circAtlas: hsa-TENM3_0003, CIRCpedia: HSA_CIRCpedia_48013
Human Ortholog IDs:
Mature spliced Sequence:
AGCAACCTTCAAACAACCCAGGGCAACCCACCCTGCAGCCTTTGCCGCCATCCCACAAGCAGCACCCGGCGCAGCATCACCCGTCCATCACTTCCCTCAATAGAAACTCCCTGACCAATAGAAGGAACCAGAGTCCGGCCCCGCCGGCTGCTTTGCCCGCCGAGCTGCAAACCACACCCGAGTCCGTCCAGCTGCAGGACAGCTGGGTCCTTGGCAGTAATGTACCACTGGAAAGCAGGCATTTCCTATTCAAAACAGGGACAGGGACGACGCCACTGTTCAGTACGGCAACCCCGGGATACACAATGGCATCTGGCTCTGTTTATTCTCCGCCTACCCGGCCACTTCCTAGAAACACCCTATCAAGAAGTGCTTTTAAATTCAAGAAGTCTTCAAAGTACTGCAGCTGGAGGTGCACCGCACTGTGTGCTGTAGGGGTCTCAGTGCTCCTGGCCATTCTCCTCTCCTATTTTATAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGTGCTGTAGGGGTCTCAGT
60.18
AAGTGATGGACGGGTGATGC
60.39
145
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GTGCTGTAGGGGTCTCAGTG
59.75
AAGTGATGGACGGGTGATGC
60.39
144
PCR template sequence:
AAATTCAAGAAGTCTTCAAAGTACTGCAGCTGGAGGTGCACCGCACTGTGTGCTGTAGGGGTCTCAGTGCTCCTGGCCATTCTCCTCTCCTATTTTATAGAGCAACCTTCAAACAACCCAGGGCAACCCACCCTGCAGCCTTTGCCGCCATCCCACAAGCAGCACCCGGCGCAGCATCACCCGTCCATCACTTCCCTCAA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
2
Interacting miRNAs (#binding sites)
mmu-miR-29b-1-5p(1), mmu-miR-666-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TCCTATTTTATAGAGCAACCTTCAAA
siRNA sets
TTTGAAGGTTGCTCTATAA, GTTGCTCTATAAAATAGGA, GGTTGCTCTATAAAATAGG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCTENM3_477_ORF_1
0.6853
0.020022253
0.682876364
648
ORF sequence:
ATGGCATCTGGCTCTGTTTATTCTCCGCCTACCCGGCCACTTCCTAGAAACACCCTATCAAGAAGTGCTTTTAAATTCAAGAAGTCTTCAAAGTACTGCAGCTGGAGGTGCACCGCACTGTGTGCTGTAGGGGTCTCAGTGCTCCTGGCCATTCTCCTCTCCTATTTTATAGAGCAACCTTCAAACAACCCAGGGCAACCCACCCTGCAGCCTTTGCCGCCATCCCACAAGCAGCACCCGGCGCAGCATCACCCGTCCATCACTTCCCTCAATAGAAACTCCCTGACCAATAGAAGGAACCAGAGTCCGGCCCCGCCGGCTGCTTTGCCCGCCGAGCTGCAAACCACACCCGAGTCCGTCCAGCTGCAGGACAGCTGGGTCCTTGGCAGTAATGTACCACTGGAAAGCAGGCATTTCCTATTCAAAACAGGGACAGGGACGACGCCACTGTTCAGTACGGCAACCCCGGGATACACAATGGCATCTGGCTCTGTTTATTCTCCGCCTACCCGGCCACTTCCTAGAAACACCCTATCAAGAAGTGCTTTTAAATTCAAGAAGTCTTCAAAGTACTGCAGCTGGAGGTGCACCGCACTGTGTGCTGTAGGGGTCTCAGTGCTCCTGGCCATTCTCCTCTCCTATTTTATA
Peptide sequence:
MASGSVYSPPTRPLPRNTLSRSAFKFKKSSKYCSWRCTALCAVGVSVLLAILLSYFIEQPSNNPGQPTLQPLPPSHKQHPAQHHPSITSLNRNSLTNRRNQSPAPPAALPAELQTTPESVQLQDSWVLGSNVPLESRHFLFKTGTGTTPLFSTATPGYTMASGSVYSPPTRPLPRNTLSRSAFKFKKSSKYCSWRCTALCAVGVSVLLAILLSYFI
IRESfinder result
IRESfinder score
0.487088604
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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