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mmu_circTfrc_613
Basic information of circular RNA
PanCircBase ID:
mmu_circTfrc_613
mm39_Chr. Position ID:
chr16|32431985|32435716|+
Gene name:
Tfrc
Transcript:
ENSMUST00000023486.15
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
2,3,4,5
Exon/intron offsets:
0,1398,2025,3581
Genomic length:
3731
Exon/intron sizes in nt:
59,20,22,02,150
Flanking exon/introns:
chr16:32427854-32431985|chr16:32435716-32435914
Splice length:
613
Other database IDs:
circAtlas: mmu-Tfrc_0004
circBase: hsa_circ_0068628, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_45014
Human Ortholog IDs:
Mature spliced Sequence:
GTACTCCCTTGTAGCAGCTGAGAATGATGGATCAAGCCAGATCAGCATTCTCTAACTTGTTTGGTGGGGAACCATTGTCATACACCCGGTTTAGCCTTGCTCGGCAAGTAGATGGAGATAACAGTCATGTGGAGATGAAACTGGCTGCAGATGAAGAAGAAAATGCCGACAATAACATGAAGGCTAGTGTCAGAAAACCCAAGAGGTTTAATGGAAGACTCTGCTTTGCAGCTATTGCACTAGTCATTTTCTTCTTGATTGGATTCATGAGTGGCTACCTGGGCTATTGTAAGCGTGTAGAACAAAAAGAGGAGTGTGTGAAACTGGCTGAAACGGAGGAGACAGACAAGTCAGAAACCATGGAAACAGAGGATGTTCCTACATCATCTCGCTTATATTGGGCAGACCTCAAAACACTGTTGTCAGAGAAGTTGAACTCCATAGAGTTTGCTGACACCATCAAGCAGCTGAGCCAGAATACATACACTCCTCGTGAGGCTGGATCTCAAAAAGATGAAAGTCTTGCCTATTATATTGAAAATCAGTTCCATGAATTTAAATTCAGCAAAGTCTGGCGAGATGAACACTATGTGAAGATTCAAGTGAAAAGCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TTCAGCAAAGTCTGGCGAGA
59.61
GCAAGGCTAAACCGGGTGTA
60.32
153
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGCAAAGTCTGGCGAGATGA
59.39
GCAAGGCTAAACCGGGTGTA
60.32
150
PCR template sequence:
ATGAAAGTCTTGCCTATTATATTGAAAATCAGTTCCATGAATTTAAATTCAGCAAAGTCTGGCGAGATGAACACTATGTGAAGATTCAAGTGAAAAGCAGGTACTCCCTTGTAGCAGCTGAGAATGATGGATCAAGCCAGATCAGCATTCTCTAACTTGTTTGGTGGGGAACCATTGTCATACACCCGGTTTAGCCTTGC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
10
Interacting miRNAs (#binding sites)
mmu-miR-130a-3p(1), mmu-miR-149-5p(1), mmu-miR-130b-3p(1), mmu-miR-301b-3p(1), mmu-miR-297a-5p(1), mmu-miR-301a-3p(1), mmu-miR-29b-2-5p(1), mmu-miR-1198-5p(1), mmu-miR-697(1), mmu-miR-7a-2-3p(1)
siRNAs for circular RNA silencing
Junction sequence
AAGTGAAAAGCAGGTACTCCCTTGTA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCTFRC_613_ORF_1
0.9872
0.202825874
0.885731791
645
ORF sequence:
ATGATGGATCAAGCCAGATCAGCATTCTCTAACTTGTTTGGTGGGGAACCATTGTCATACACCCGGTTTAGCCTTGCTCGGCAAGTAGATGGAGATAACAGTCATGTGGAGATGAAACTGGCTGCAGATGAAGAAGAAAATGCCGACAATAACATGAAGGCTAGTGTCAGAAAACCCAAGAGGTTTAATGGAAGACTCTGCTTTGCAGCTATTGCACTAGTCATTTTCTTCTTGATTGGATTCATGAGTGGCTACCTGGGCTATTGTAAGCGTGTAGAACAAAAAGAGGAGTGTGTGAAACTGGCTGAAACGGAGGAGACAGACAAGTCAGAAACCATGGAAACAGAGGATGTTCCTACATCATCTCGCTTATATTGGGCAGACCTCAAAACACTGTTGTCAGAGAAGTTGAACTCCATAGAGTTTGCTGACACCATCAAGCAGCTGAGCCAGAATACATACACTCCTCGTGAGGCTGGATCTCAAAAAGATGAAAGTCTTGCCTATTATATTGAAAATCAGTTCCATGAATTTAAATTCAGCAAAGTCTGGCGAGATGAACACTATGTGAAGATTCAAGTGAAAAGCAGGTACTCCCTTGTAGCAGCTGAGAATGATGGATCAAGCCAGATCAGCATTCTCTAA
Peptide sequence:
MMDQARSAFSNLFGGEPLSYTRFSLARQVDGDNSHVEMKLAADEEENADNNMKASVRKPKRFNGRLCFAAIALVIFFLIGFMSGYLGYCKRVEQKEECVKLAETEETDKSETMETEDVPTSSRLYWADLKTLLSEKLNSIEFADTIKQLSQNTYTPREAGSQKDESLAYYIENQFHEFKFSKVWRDEHYVKIQVKSRYSLVAAENDGSSQISIL
IRESfinder result
IRESfinder score
0.584627457
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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