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mmu_circPclo_2182
Basic information of circular RNA
PanCircBase ID:
mmu_circPclo_2182
mm39_Chr. Position ID:
chr5|14762430|14764612|+
Gene name:
Pclo
Transcript:
ENSMUST00000182407.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
1
Exon/intron indexes:
7
Exon/intron offsets:
0
Genomic length:
2182
Exon/intron sizes in nt:
2182
Flanking exon/introns:
chr5:14732401-14762430|chr5:14764612-14768870
Splice length:
2182
Other database IDs:
CIRCpedia: MMU_CIRCpedia_9751, circAtlas: mmu-Pclo_0017
Human Ortholog IDs:
Mature spliced Sequence:
GCTAAAGGTTCCCAAACAACCTCTGGTACTCAGAAAAAAGTGAAGAGAACACTGCCAAATCCCCCTCCTGAGGAGGCGTCCACGGGAACACAGTCAACTTACAGCACCATGGGCACTGCTTCTAGGAGAAGAATGTGCAGAACCAATACCATGGCTCGAGCCAAAATTCTCCAGGACATAGACCGAGAGCTTGACCTCGTGGAAAGAGAGTCTGCCAAGCTTAGAAAGAAGCAAGCAGAACTTGATGAAGAAGAAAAGGAGATTGATGCCAAGCTACGGTATCTGGAAATGGGAATTAACAGGAGAAAGGAAGCACTATTGAAGGAGAGAGAAAAAAGAGAGCGTGCCTACCTGCAAGGGGTAGCCGAGGACCGTGATTATATGTCTGACAGTGAGGTCAGCAGTACCAGACCCAGCCGAGTAGAAAGCCAGCACGGCATTGAGCGGCCAAGAACAGCTCCTCAGACTGAATTCAGCCAGTTCATACCACCACAAACACAAACAGAAGCTCAGCTAGTTCCTCCGACAAGTCCTTACACACAATACCAGTACTCATCACCCGCTCTTCCCACCCAAGCCCCGACCCCATACACGCAACAGTCTCATTTTCAACAGCAGACATTGTACCATCAGCAAGTGTCACCTTATCAGACTCAACCAACCTTCCAAGCTGTGGCCACCATGTCCTTCACACCCCAGGCTCAACCTACCCCAACTCCACAGCCATCCTATCAATTACCATCACAGATGATGGTGATACAACAAAAGCCTCGGCAAACCACATTGTATTTGGAGCCTAAGATAACTTCTACCTATGAAGTGATTCGCAACCAACCCCTGATGATTGCTCCAGTTTCTACTGATAATACGTATGCTGTTTCCCATCTCGGGAGTAAGTACAATAGTTTAGACTTGAGAATAGGTTTGGAGGAAAGAAGCAGTATGGCAAGCAGTCCAATATCAAGCATATCTGCAGACTCCTTCTATGCAGACATTGACCACCATACTTCAAGGAATTATGTCCTAATAGATGACATTGGAGACATTACCAAAGGGACAGCAGCTTTGAGCTCTGCATTTAGTCTCCATGAAAAGGATCTGTCCAAAACAGATCGTCTCCTTAGAACCACTGAGACACGGAGGTCTCAAGAAGTGACAGACTTCCTAGCGCCTTTGCAGACTTCCTCCAGACTGCATAGCTATGTGAAGGCAGAGGAGGATTCGATGGAGGATCCTTATGAGTTAAAGCTTCTGAAACATCAGATTAAGCAAGAATTCCGTAGGGGCACAGAGAGCTTAGATCACCTTGCTGGTCTCTCACATTATTACCATGCTGATACTAGCTATAGACACTTCCCCAAGTCTGAAAAGTATAGCATCAGTAGACTCACCCTGGAAAAACAAGCTGCCAAACAATTGCCTGCAGCCATACTTTACCAAAAGCAATCAAAGCATAAGAAAGCATTAATTGACCCTAAAATGTCTAAGTTTTCACCTATTCAAGAAAGTAGAGACCTTGAACCTGACTATCCCACTTACTTGAGTTCTAGCACTTCGTCCATTGGTGGTATTTCTTCTAGGGCAAGGCTTCTTCAAGATGATATCACATTTGGCCTCAGAAAAAATATTACAGATCAACAAAAATTCATGGGTTCATCACTTGGGTCAGGACTGGGCACGTTAGGAAATACCATCCGGTCGGCTCTACAGGATGAAGCAGATAAGCCATACAGCAGTGGGAGCAGGTCCAGGCCTTCCTCTAGGCCTTCCTCTGTCTATGGGCTTGATTTATCAATTAAGAGGGATTCTTCCAGCTCATCACTAAGATTGAAAGCTCAAGAGGCTGAAGCTCTGGATGTCTCTTTTGGCCATTCTTCATCTTCTGCCAGAACTAAGCCCACCAGCTTACCAATCAGCCAGAGTAGAGGAAGAATACCAATTGTGGCCCAGAATTCAGAAGAAGAAAGTCCACTAAGTCCTGTTGGCCAGCCAATGGGAATGGCCAGGGCTGCAGCTGGACCTTTGCCGCCCATATCTGCAGATACAAGGGATCAATTTGGATCAAGTCACTCATTGCCTGAAGTTCAGCAACACATGAGAGAAGAGTCACGGACAAGGGGTTATGACCGTGATATAGCATTCATCATGGATGACTTCCAACATGCTATGTCTGACAGTGAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GAAGAGTCACGGACAAGGGG
60.04
TTGACTGTGTTCCCGTGGAC
60.18
179
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GAAGAGTCACGGACAAGGGG
60.04
GTTGACTGTGTTCCCGTGGA
60.18
180
PCR template sequence:
GTTCAGCAACACATGAGAGAAGAGTCACGGACAAGGGGTTATGACCGTGATATAGCATTCATCATGGATGACTTCCAACATGCTATGTCTGACAGTGAAGGCTAAAGGTTCCCAAACAACCTCTGGTACTCAGAAAAAAGTGAAGAGAACACTGCCAAATCCCCCTCCTGAGGAGGCGTCCACGGGAACACAGTCAACTT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
12
Interacting miRNAs (#binding sites)
mmu-miR-9-5p(1), mmu-miR-140-5p(1), mmu-miR-135a-5p(1), mmu-miR-34a-5p(1), mmu-miR-26a-5p(1), mmu-miR-26b-5p(1), mmu-miR-98-5p(1), mmu-miR-27a-5p(1), mmu-miR-1198-5p(1), mmu-miR-190b-5p(1), mmu-miR-207(1), mmu-miR-669d-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TCTGACAGTGAAGGCTAAAGGTTCCC
siRNA sets
GAACCTTTAGCCTTCACTG, CTTTAGCCTTCACTGTCAG, ACCTTTAGCCTTCACTGTC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCPCLO_2182_ORF_1
0.7917
0.104425734
0.999996387
2214
ORF sequence:
ATGACTTCCAACATGCTATGTCTGACAGTGAAGGCTAAAGGTTCCCAAACAACCTCTGGTACTCAGAAAAAAGTGAAGAGAACACTGCCAAATCCCCCTCCTGAGGAGGCGTCCACGGGAACACAGTCAACTTACAGCACCATGGGCACTGCTTCTAGGAGAAGAATGTGCAGAACCAATACCATGGCTCGAGCCAAAATTCTCCAGGACATAGACCGAGAGCTTGACCTCGTGGAAAGAGAGTCTGCCAAGCTTAGAAAGAAGCAAGCAGAACTTGATGAAGAAGAAAAGGAGATTGATGCCAAGCTACGGTATCTGGAAATGGGAATTAACAGGAGAAAGGAAGCACTATTGAAGGAGAGAGAAAAAAGAGAGCGTGCCTACCTGCAAGGGGTAGCCGAGGACCGTGATTATATGTCTGACAGTGAGGTCAGCAGTACCAGACCCAGCCGAGTAGAAAGCCAGCACGGCATTGAGCGGCCAAGAACAGCTCCTCAGACTGAATTCAGCCAGTTCATACCACCACAAACACAAACAGAAGCTCAGCTAGTTCCTCCGACAAGTCCTTACACACAATACCAGTACTCATCACCCGCTCTTCCCACCCAAGCCCCGACCCCATACACGCAACAGTCTCATTTTCAACAGCAGACATTGTACCATCAGCAAGTGTCACCTTATCAGACTCAACCAACCTTCCAAGCTGTGGCCACCATGTCCTTCACACCCCAGGCTCAACCTACCCCAACTCCACAGCCATCCTATCAATTACCATCACAGATGATGGTGATACAACAAAAGCCTCGGCAAACCACATTGTATTTGGAGCCTAAGATAACTTCTACCTATGAAGTGATTCGCAACCAACCCCTGATGATTGCTCCAGTTTCTACTGATAATACGTATGCTGTTTCCCATCTCGGGAGTAAGTACAATAGTTTAGACTTGAGAATAGGTTTGGAGGAAAGAAGCAGTATGGCAAGCAGTCCAATATCAAGCATATCTGCAGACTCCTTCTATGCAGACATTGACCACCATACTTCAAGGAATTATGTCCTAATAGATGACATTGGAGACATTACCAAAGGGACAGCAGCTTTGAGCTCTGCATTTAGTCTCCATGAAAAGGATCTGTCCAAAACAGATCGTCTCCTTAGAACCACTGAGACACGGAGGTCTCAAGAAGTGACAGACTTCCTAGCGCCTTTGCAGACTTCCTCCAGACTGCATAGCTATGTGAAGGCAGAGGAGGATTCGATGGAGGATCCTTATGAGTTAAAGCTTCTGAAACATCAGATTAAGCAAGAATTCCGTAGGGGCACAGAGAGCTTAGATCACCTTGCTGGTCTCTCACATTATTACCATGCTGATACTAGCTATAGACACTTCCCCAAGTCTGAAAAGTATAGCATCAGTAGACTCACCCTGGAAAAACAAGCTGCCAAACAATTGCCTGCAGCCATACTTTACCAAAAGCAATCAAAGCATAAGAAAGCATTAATTGACCCTAAAATGTCTAAGTTTTCACCTATTCAAGAAAGTAGAGACCTTGAACCTGACTATCCCACTTACTTGAGTTCTAGCACTTCGTCCATTGGTGGTATTTCTTCTAGGGCAAGGCTTCTTCAAGATGATATCACATTTGGCCTCAGAAAAAATATTACAGATCAACAAAAATTCATGGGTTCATCACTTGGGTCAGGACTGGGCACGTTAGGAAATACCATCCGGTCGGCTCTACAGGATGAAGCAGATAAGCCATACAGCAGTGGGAGCAGGTCCAGGCCTTCCTCTAGGCCTTCCTCTGTCTATGGGCTTGATTTATCAATTAAGAGGGATTCTTCCAGCTCATCACTAAGATTGAAAGCTCAAGAGGCTGAAGCTCTGGATGTCTCTTTTGGCCATTCTTCATCTTCTGCCAGAACTAAGCCCACCAGCTTACCAATCAGCCAGAGTAGAGGAAGAATACCAATTGTGGCCCAGAATTCAGAAGAAGAAAGTCCACTAAGTCCTGTTGGCCAGCCAATGGGAATGGCCAGGGCTGCAGCTGGACCTTTGCCGCCCATATCTGCAGATACAAGGGATCAATTTGGATCAAGTCACTCATTGCCTGAAGTTCAGCAACACATGAGAGAAGAGTCACGGACAAGGGGTTATGACCGTGATATAGCATTCATCATGGATGACTTCCAACATGCTATGTCTGACAGTGAA
Peptide sequence:
MTSNMLCLTVKAKGSQTTSGTQKKVKRTLPNPPPEEASTGTQSTYSTMGTASRRRMCRTNTMARAKILQDIDRELDLVERESAKLRKKQAELDEEEKEIDAKLRYLEMGINRRKEALLKEREKRERAYLQGVAEDRDYMSDSEVSSTRPSRVESQHGIERPRTAPQTEFSQFIPPQTQTEAQLVPPTSPYTQYQYSSPALPTQAPTPYTQQSHFQQQTLYHQQVSPYQTQPTFQAVATMSFTPQAQPTPTPQPSYQLPSQMMVIQQKPRQTTLYLEPKITSTYEVIRNQPLMIAPVSTDNTYAVSHLGSKYNSLDLRIGLEERSSMASSPISSISADSFYADIDHHTSRNYVLIDDIGDITKGTAALSSAFSLHEKDLSKTDRLLRTTETRRSQEVTDFLAPLQTSSRLHSYVKAEEDSMEDPYELKLLKHQIKQEFRRGTESLDHLAGLSHYYHADTSYRHFPKSEKYSISRLTLEKQAAKQLPAAILYQKQSKHKKALIDPKMSKFSPIQESRDLEPDYPTYLSSSTSSIGGISSRARLLQDDITFGLRKNITDQQKFMGSSLGSGLGTLGNTIRSALQDEADKPYSSGSRSRPSSRPSSVYGLDLSIKRDSSSSSLRLKAQEAEALDVSFGHSSSSARTKPTSLPISQSRGRIPIVAQNSEEESPLSPVGQPMGMARAAAGPLPPISADTRDQFGSSHSLPEVQQHMREESRTRGYDRDIAFIMDDFQHAMSDSE
IRESfinder result
IRESfinder score
0.600844472
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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