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mmu_circCcdc62_1247
Basic information of circular RNA
PanCircBase ID:
mmu_circCcdc62_1247
mm39_Chr. Position ID:
chr5|124089261|124104991|+
Gene name:
Ccdc62
Transcript:
ENSMUST00000094320.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
7,8,9,10,11,12
Exon/intron offsets:
0,553,2858,6195,10023,15637
Genomic length:
15730
Exon/intron sizes in nt:
89,116,723,109,117,93
Flanking exon/introns:
chr5:124084518-124089261|chr5:124104991-124106199
Splice length:
1247
Other database IDs:
CIRCpedia: MMU_CIRCpedia_225060, circAtlas: mmu-Ccdc62_0009
circBase: hsa_circ_0097669, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_127969
Human Ortholog IDs:
Mature spliced Sequence:
TTGAGAGGGAAAAGAGGAAAGATGAATTACTTGATATTGCAAAGTCAAAGCAAGATCGTACAAATTCCGAGCTCCAGAATCTGAGACAGATTTATGTAAAACAGCAGAGTGACCTGCAGTTTCTTAATTTCAATATAGAAAGTTCTCAGGAATTAATACAAATACATGGCTTAAAGATGGAGGAACCAAAGGCCCTGGAGTGCAGCAAGGACATGTGTTTATCAGACCTTGACAATAACTACCCAAAAATCGATATTAAAAGAGAGAGAAATCAGAAGTCATTGGTTAAAGATCAAACGTTTGAGGTCATGTTGGCTCAGCACAATGGGTCAGACAAGAGCTCTTGTGATGCTTGCAGAGAGAAGAAGCTACAGGTTAACACTGCACTCGGGGAAAAAAGTGTAATTGCTCTCTCATCTCTATTTACCAAAGACTTACTGGACAAACAAAAGTCTTGGTCTCTGGGTGGGAAAATCCAGACTGAACCGGAAAACAAAGTTACCCTATGCAAGGTCCATGCAAAGTCACCAAAATGCGATGGAGTGGGGCTTCCAACGGAAGAGAAGCAGCTCTCGGAAACCTCCGTCTCGCTGTCTGACGAGAAGCAGTGGCATGACATCAACGTCTACCTGGGCCTTTCCAGCTGCTCAAAACAGCCAGACAGGCTGGACGGGGATGGCCACGACCGCACAGGAACATCTGAGGTCTCCTGCTGCACCCCAAATGTAGTCTGTATAGGTGACAATGACCTGTCCGAGTCCAAGTGCTGCCACCCAAGTAACATCATCATCGAAGCCCCAGGACATATGACTGATACAGAGTGGATGAATATTTTCAAGCCTTCCAGAGCACAAAGGATTGTTCGCCACAAAACCATGTGCACTTGTTCAAGAAGTGTCAGCGCAATGAAATATAATTCCTCAGCAAGTGAGCTCATTGGCATGCAGCCTTCCCAGTGTGTGGGTTCCTTAAAGTCTGCTGAAAGAGAAGAGGAGTCAGCGGCCCTTCCTGACAGAAGAACCTCAGCCAATGAAAAGGATGACTTCTCTCCTACGAGTAAGCTCCAGCGGCTGCTGGCCGAGTCCCGGCAGATGGTCACGGATCTGGAGCTGAGCACGCTGCTACCCATCAGCTGCGAGAATCTCAACAGAAGCAAATTAGAAGTCTCAGAAGAGCCAGATGAAAAAACCACCCTTGTCAGTCATTGAAAGAGACAAAGTCAACTTGGACATTCACTGAGGCTATGC
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACCACCCTTGTCAGTCATTGA
59.23
TCTCAGATTCTGGAGCTCGGA
60.06
146
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACCACCCTTGTCAGTCATTGA
59.23
GTCTCAGATTCTGGAGCTCGG
59.93
147
PCR template sequence:
CAGAAGCAAATTAGAAGTCTCAGAAGAGCCAGATGAAAAAACCACCCTTGTCAGTCATTGAAAGAGACAAAGTCAACTTGGACATTCACTGAGGCTATGCTTGAGAGGGAAAAGAGGAAAGATGAATTACTTGATATTGCAAAGTCAAAGCAAGATCGTACAAATTCCGAGCTCCAGAATCTGAGACAGATTTATGTAAA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
13
Interacting miRNAs (#binding sites)
mmu-miR-9-5p(1), mmu-miR-135a-5p(1), mmu-miR-26a-5p(1), mmu-miR-185-5p(1), mmu-miR-503-5p(1), mmu-miR-136-5p(1), mmu-miR-26b-5p(1), mmu-miR-125a-5p(1), mmu-miR-5101(1), mmu-miR-335-3p(1), mmu-miR-3470b(1), mmu-miR-670-5p(1), mmu-miR-146b-5p(1)
siRNAs for circular RNA silencing
Junction sequence
ACTGAGGCTATGCTTGAGAGGGAAAA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCCCDC62_1247_ORF_1
0.768
0.189855088
0.996492067
1212
ORF sequence:
ATGCTTGAGAGGGAAAAGAGGAAAGATGAATTACTTGATATTGCAAAGTCAAAGCAAGATCGTACAAATTCCGAGCTCCAGAATCTGAGACAGATTTATGTAAAACAGCAGAGTGACCTGCAGTTTCTTAATTTCAATATAGAAAGTTCTCAGGAATTAATACAAATACATGGCTTAAAGATGGAGGAACCAAAGGCCCTGGAGTGCAGCAAGGACATGTGTTTATCAGACCTTGACAATAACTACCCAAAAATCGATATTAAAAGAGAGAGAAATCAGAAGTCATTGGTTAAAGATCAAACGTTTGAGGTCATGTTGGCTCAGCACAATGGGTCAGACAAGAGCTCTTGTGATGCTTGCAGAGAGAAGAAGCTACAGGTTAACACTGCACTCGGGGAAAAAAGTGTAATTGCTCTCTCATCTCTATTTACCAAAGACTTACTGGACAAACAAAAGTCTTGGTCTCTGGGTGGGAAAATCCAGACTGAACCGGAAAACAAAGTTACCCTATGCAAGGTCCATGCAAAGTCACCAAAATGCGATGGAGTGGGGCTTCCAACGGAAGAGAAGCAGCTCTCGGAAACCTCCGTCTCGCTGTCTGACGAGAAGCAGTGGCATGACATCAACGTCTACCTGGGCCTTTCCAGCTGCTCAAAACAGCCAGACAGGCTGGACGGGGATGGCCACGACCGCACAGGAACATCTGAGGTCTCCTGCTGCACCCCAAATGTAGTCTGTATAGGTGACAATGACCTGTCCGAGTCCAAGTGCTGCCACCCAAGTAACATCATCATCGAAGCCCCAGGACATATGACTGATACAGAGTGGATGAATATTTTCAAGCCTTCCAGAGCACAAAGGATTGTTCGCCACAAAACCATGTGCACTTGTTCAAGAAGTGTCAGCGCAATGAAATATAATTCCTCAGCAAGTGAGCTCATTGGCATGCAGCCTTCCCAGTGTGTGGGTTCCTTAAAGTCTGCTGAAAGAGAAGAGGAGTCAGCGGCCCTTCCTGACAGAAGAACCTCAGCCAATGAAAAGGATGACTTCTCTCCTACGAGTAAGCTCCAGCGGCTGCTGGCCGAGTCCCGGCAGATGGTCACGGATCTGGAGCTGAGCACGCTGCTACCCATCAGCTGCGAGAATCTCAACAGAAGCAAATTAGAAGTCTCAGAAGAGCCAGATGAAAAAACCACCCTTGTCAGTCATTGA
Peptide sequence:
MLEREKRKDELLDIAKSKQDRTNSELQNLRQIYVKQQSDLQFLNFNIESSQELIQIHGLKMEEPKALECSKDMCLSDLDNNYPKIDIKRERNQKSLVKDQTFEVMLAQHNGSDKSSCDACREKKLQVNTALGEKSVIALSSLFTKDLLDKQKSWSLGGKIQTEPENKVTLCKVHAKSPKCDGVGLPTEEKQLSETSVSLSDEKQWHDINVYLGLSSCSKQPDRLDGDGHDRTGTSEVSCCTPNVVCIGDNDLSESKCCHPSNIIIEAPGHMTDTEWMNIFKPSRAQRIVRHKTMCTCSRSVSAMKYNSSASELIGMQPSQCVGSLKSAEREEESAALPDRRTSANEKDDFSPTSKLQRLLAESRQMVTDLELSTLLPISCENLNRSKLEVSEEPDEKTTLVSH
IRESfinder result
IRESfinder score
0.523159222
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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