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mmu_circTfrc_1168
Basic information of circular RNA
PanCircBase ID:
mmu_circTfrc_1168
mm39_Chr. Position ID:
chr16|32433383|32439341|+
Gene name:
Tfrc
Transcript:
ENSMUST00000023486.15
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
8
Exon/intron indexes:
3,4,5,6,7,8,9,10
Exon/intron offsets:
0,627,2183,2531,3652,4067,4471,5800
Genomic length:
5958
Exon/intron sizes in nt:
20,22,02,15,01,03,11,40,00,00,000
Flanking exon/introns:
chr16:32432044-32433383|chr16:32439341-32439992
Splice length:
1168
Other database IDs:
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_159592
Human Ortholog IDs:
Mature spliced Sequence:
TTTGGTGGGGAACCATTGTCATACACCCGGTTTAGCCTTGCTCGGCAAGTAGATGGAGATAACAGTCATGTGGAGATGAAACTGGCTGCAGATGAAGAAGAAAATGCCGACAATAACATGAAGGCTAGTGTCAGAAAACCCAAGAGGTTTAATGGAAGACTCTGCTTTGCAGCTATTGCACTAGTCATTTTCTTCTTGATTGGATTCATGAGTGGCTACCTGGGCTATTGTAAGCGTGTAGAACAAAAAGAGGAGTGTGTGAAACTGGCTGAAACGGAGGAGACAGACAAGTCAGAAACCATGGAAACAGAGGATGTTCCTACATCATCTCGCTTATATTGGGCAGACCTCAAAACACTGTTGTCAGAGAAGTTGAACTCCATAGAGTTTGCTGACACCATCAAGCAGCTGAGCCAGAATACATACACTCCTCGTGAGGCTGGATCTCAAAAAGATGAAAGTCTTGCCTATTATATTGAAAATCAGTTCCATGAATTTAAATTCAGCAAAGTCTGGCGAGATGAACACTATGTGAAGATTCAAGTGAAAAGCAGCATTGGTCAAAACATGGTGACCATAGTGCAGTCAAATGGTAACTTAGACCCAGTGGAGTCTCCCGAGGGTTATGTGGCATTCAGTAAACCTACAGAAGTTTCTGGTAAACTGGTCCATGCTAATTTTGGCACTAAAAAGGACTTTGAAGAACTAAGTTATTCTGTGAATGGATCTTTAGTGATTGTTAGAGCAGGGGAAATTACTTTTGCAGAAAAGGTTGCAAATGCCCAAAGCTTTAATGCAATTGGTGTCCTCATATACATGGACAAGAATAAATTCCCCGTTGTTGAGGCAGACCTTGCACTCTTTGGACATGCTCATCTAGGAACTGGTGATCCATACACACCTGGCTTTCCTTCTTTCAATCATACTCAGTTTCCGCCATCTCAGTCATCAGGGTTGCCTAATATACCTGTGCAAACAATCTCAAGAGCTGCTGCAGAAAAGCTATTTGGAAAAATGGAAGGAAGCTGTCCTGCTAGATGGAACATAGATTCTTCATGTAAGCTGGAACTTTCACAGAATCAAAATGTGAAGCTCATTGTGAAAAACGTACTGAAAGAAAGAAGAATACTTAACATCTTTGGAGTTATTAAAGGTTATGAGGAACCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGTGAAGCTCATTGTGAAAAACGT
60.14
TGCAGCCAGTTTCATCTCCA
59.6
173
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGTGAAGCTCATTGTGAAAAACGT
60.14
CTCCATCTACTTGCCGAGCA
59.54
141
PCR template sequence:
CTTTCACAGAATCAAAATGTGAAGCTCATTGTGAAAAACGTACTGAAAGAAAGAAGAATACTTAACATCTTTGGAGTTATTAAAGGTTATGAGGAACCAGTTTGGTGGGGAACCATTGTCATACACCCGGTTTAGCCTTGCTCGGCAAGTAGATGGAGATAACAGTCATGTGGAGATGAAACTGGCTGCAGATGAAGAAG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
11
Interacting miRNAs (#binding sites)
mmu-miR-301b-3p(2), mmu-miR-130a-3p(1), mmu-miR-149-5p(1), mmu-miR-382-3p(1), mmu-miR-130b-3p(1), mmu-miR-297a-5p(1), mmu-miR-301a-3p(1), mmu-miR-384-3p(1), mmu-miR-29b-2-5p(1), mmu-miR-1198-5p(1), mmu-miR-697(1)
siRNAs for circular RNA silencing
Junction sequence
TATGAGGAACCAGTTTGGTGGGGAAC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCTFRC_1168_ORF_1
1.0149
0.122574164
0.99631156
1179
ORF sequence:
ATGAGGAACCAGTTTGGTGGGGAACCATTGTCATACACCCGGTTTAGCCTTGCTCGGCAAGTAGATGGAGATAACAGTCATGTGGAGATGAAACTGGCTGCAGATGAAGAAGAAAATGCCGACAATAACATGAAGGCTAGTGTCAGAAAACCCAAGAGGTTTAATGGAAGACTCTGCTTTGCAGCTATTGCACTAGTCATTTTCTTCTTGATTGGATTCATGAGTGGCTACCTGGGCTATTGTAAGCGTGTAGAACAAAAAGAGGAGTGTGTGAAACTGGCTGAAACGGAGGAGACAGACAAGTCAGAAACCATGGAAACAGAGGATGTTCCTACATCATCTCGCTTATATTGGGCAGACCTCAAAACACTGTTGTCAGAGAAGTTGAACTCCATAGAGTTTGCTGACACCATCAAGCAGCTGAGCCAGAATACATACACTCCTCGTGAGGCTGGATCTCAAAAAGATGAAAGTCTTGCCTATTATATTGAAAATCAGTTCCATGAATTTAAATTCAGCAAAGTCTGGCGAGATGAACACTATGTGAAGATTCAAGTGAAAAGCAGCATTGGTCAAAACATGGTGACCATAGTGCAGTCAAATGGTAACTTAGACCCAGTGGAGTCTCCCGAGGGTTATGTGGCATTCAGTAAACCTACAGAAGTTTCTGGTAAACTGGTCCATGCTAATTTTGGCACTAAAAAGGACTTTGAAGAACTAAGTTATTCTGTGAATGGATCTTTAGTGATTGTTAGAGCAGGGGAAATTACTTTTGCAGAAAAGGTTGCAAATGCCCAAAGCTTTAATGCAATTGGTGTCCTCATATACATGGACAAGAATAAATTCCCCGTTGTTGAGGCAGACCTTGCACTCTTTGGACATGCTCATCTAGGAACTGGTGATCCATACACACCTGGCTTTCCTTCTTTCAATCATACTCAGTTTCCGCCATCTCAGTCATCAGGGTTGCCTAATATACCTGTGCAAACAATCTCAAGAGCTGCTGCAGAAAAGCTATTTGGAAAAATGGAAGGAAGCTGTCCTGCTAGATGGAACATAGATTCTTCATGTAAGCTGGAACTTTCACAGAATCAAAATGTGAAGCTCATTGTGAAAAACGTACTGAAAGAAAGAAGAATACTTAACATCTTTGGAGTTATTAAAGGTTATGAGGAACCA
Peptide sequence:
MRNQFGGEPLSYTRFSLARQVDGDNSHVEMKLAADEEENADNNMKASVRKPKRFNGRLCFAAIALVIFFLIGFMSGYLGYCKRVEQKEECVKLAETEETDKSETMETEDVPTSSRLYWADLKTLLSEKLNSIEFADTIKQLSQNTYTPREAGSQKDESLAYYIENQFHEFKFSKVWRDEHYVKIQVKSSIGQNMVTIVQSNGNLDPVESPEGYVAFSKPTEVSGKLVHANFGTKKDFEELSYSVNGSLVIVRAGEITFAEKVANAQSFNAIGVLIYMDKNKFPVVEADLALFGHAHLGTGDPYTPGFPSFNHTQFPPSQSSGLPNIPVQTISRAAAEKLFGKMEGSCPARWNIDSSCKLELSQNQNVKLIVKNVLKERRILNIFGVIKGYEEP
IRESfinder result
IRESfinder score
0.66708826
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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