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mmu_circTenm3_600
Basic information of circular RNA
PanCircBase ID:
mmu_circTenm3_600
mm39_Chr. Position ID:
chr8|48820345|48870280|-
Gene name:
Tenm3
Transcript:
ENSMUST00000033965.14
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
5,4,3
Exon/intron offsets:
0,28125,49697
Genomic length:
49935
Exon/intron sizes in nt:
123,239,238
Flanking exon/introns:
chr8:48802448-48820345|chr8:48870280-49099292
Splice length:
600
Other database IDs:
circBase: mmu_circ_0014853, CIRCpedia: MMU_CIRCpedia_21315, circAtlas: mmu-Tenm3_0002
circBase: hsa_circ_0125881, circAtlas: hsa-TENM3_0002, CIRCpedia: HSA_CIRCpedia_48014
Human Ortholog IDs:
Mature spliced Sequence:
AGCAACCTTCAAACAACCCAGGGCAACCCACCCTGCAGCCTTTGCCGCCATCCCACAAGCAGCACCCGGCGCAGCATCACCCGTCCATCACTTCCCTCAATAGAAACTCCCTGACCAATAGAAGGAACCAGAGTCCGGCCCCGCCGGCTGCTTTGCCCGCCGAGCTGCAAACCACACCCGAGTCCGTCCAGCTGCAGGACAGCTGGGTCCTTGGCAGTAATGTACCACTGGAAAGCAGGCATTTCCTATTCAAAACAGGGACAGGGACGACGCCACTGTTCAGTACGGCAACCCCGGGATACACAATGGCATCTGGCTCTGTTTATTCTCCGCCTACCCGGCCACTTCCTAGAAACACCCTATCAAGAAGTGCTTTTAAATTCAAGAAGTCTTCAAAGTACTGCAGCTGGAGGTGCACCGCACTGTGTGCTGTAGGGGTCTCAGTGCTCCTGGCCATTCTCCTCTCCTATTTTATAGCAATGCATCTATTTGGCCTCAACTGGCACTTACAGCAGACGGAAAATGACACATTCGAGAATGGAAAAGTGAATTCTGACACCGTGCCAACAAACACTGTATCGTTACCTTCTGGCGACAATG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGAATTCTGACACCGTGCCA
59.89
AAGTGATGGACGGGTGATGC
60.39
147
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ATTCTGACACCGTGCCAACA
60.18
AAGTGATGGACGGGTGATGC
60.39
144
PCR template sequence:
TGGCACTTACAGCAGACGGAAAATGACACATTCGAGAATGGAAAAGTGAATTCTGACACCGTGCCAACAAACACTGTATCGTTACCTTCTGGCGACAATGAGCAACCTTCAAACAACCCAGGGCAACCCACCCTGCAGCCTTTGCCGCCATCCCACAAGCAGCACCCGGCGCAGCATCACCCGTCCATCACTTCCCTCAA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
4
Interacting miRNAs (#binding sites)
mmu-miR-33-5p(1), mmu-miR-29b-1-5p(1), mmu-miR-183-5p(1), mmu-miR-666-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TCTGGCGACAATGAGCAACCTTCAAA
siRNA sets
TTTGAAGGTTGCTCATTGT, TTGAAGGTTGCTCATTGTC, GAAGGTTGCTCATTGTCGC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCTENM3_600_ORF_1
0.6738
0.07164856
0.938553874
894
ORF sequence:
ATGGCATCTGGCTCTGTTTATTCTCCGCCTACCCGGCCACTTCCTAGAAACACCCTATCAAGAAGTGCTTTTAAATTCAAGAAGTCTTCAAAGTACTGCAGCTGGAGGTGCACCGCACTGTGTGCTGTAGGGGTCTCAGTGCTCCTGGCCATTCTCCTCTCCTATTTTATAGCAATGCATCTATTTGGCCTCAACTGGCACTTACAGCAGACGGAAAATGACACATTCGAGAATGGAAAAGTGAATTCTGACACCGTGCCAACAAACACTGTATCGTTACCTTCTGGCGACAATGAGCAACCTTCAAACAACCCAGGGCAACCCACCCTGCAGCCTTTGCCGCCATCCCACAAGCAGCACCCGGCGCAGCATCACCCGTCCATCACTTCCCTCAATAGAAACTCCCTGACCAATAGAAGGAACCAGAGTCCGGCCCCGCCGGCTGCTTTGCCCGCCGAGCTGCAAACCACACCCGAGTCCGTCCAGCTGCAGGACAGCTGGGTCCTTGGCAGTAATGTACCACTGGAAAGCAGGCATTTCCTATTCAAAACAGGGACAGGGACGACGCCACTGTTCAGTACGGCAACCCCGGGATACACAATGGCATCTGGCTCTGTTTATTCTCCGCCTACCCGGCCACTTCCTAGAAACACCCTATCAAGAAGTGCTTTTAAATTCAAGAAGTCTTCAAAGTACTGCAGCTGGAGGTGCACCGCACTGTGTGCTGTAGGGGTCTCAGTGCTCCTGGCCATTCTCCTCTCCTATTTTATAGCAATGCATCTATTTGGCCTCAACTGGCACTTACAGCAGACGGAAAATGACACATTCGAGAATGGAAAAGTGAATTCTGACACCGTGCCAACAAACACTGTATCGTTACCTTCTGGCGACAAT
Peptide sequence:
MASGSVYSPPTRPLPRNTLSRSAFKFKKSSKYCSWRCTALCAVGVSVLLAILLSYFIAMHLFGLNWHLQQTENDTFENGKVNSDTVPTNTVSLPSGDNEQPSNNPGQPTLQPLPPSHKQHPAQHHPSITSLNRNSLTNRRNQSPAPPAALPAELQTTPESVQLQDSWVLGSNVPLESRHFLFKTGTGTTPLFSTATPGYTMASGSVYSPPTRPLPRNTLSRSAFKFKKSSKYCSWRCTALCAVGVSVLLAILLSYFIAMHLFGLNWHLQQTENDTFENGKVNSDTVPTNTVSLPSGDN
IRESfinder result
IRESfinder score
0.495767121
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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