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mmu_circCpd_1926
Basic information of circular RNA
PanCircBase ID:
mmu_circCpd_1926
mm39_Chr. Position ID:
chr11|76686266|76704478|-
Gene name:
Cpd
Transcript:
ENSMUST00000021201.6
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
10
Exon/intron indexes:
13,12,11,10,9,8,7,6,5,4
Exon/intron offsets:
0,2140,4348,6199,6791,10535,13269,16254,16941,18042
Genomic length:
18212
Exon/intron sizes in nt:
1,96,32,41,70,14,31,03,00,00,00,00,00,00,000
Flanking exon/introns:
chr11:76683697-76686266|chr11:76704478-76705596
Splice length:
1926
Other database IDs:
circAtlas: mmu-Cpd_0008
Human Ortholog IDs:
Mature spliced Sequence:
GTCCACATTGGAATTAAAGGATTTGTTAAAGATTCCGTAACAGGCTCTGGGTTAGAGAACGCAACCATTTCAGTGGCTGGTATTAATCATAACATCACAACGGGAAGATTTGGTGATTTCCACAGATTACTTGTTCCTGGAACTTACAATCTTACGGCGCTTTCAACTGGGTATATGCCATTGACCATTAATAATATAATGGTGAAAGAAGGGCCAGCTACAGAGATGGATTTCTCCCTTCGGCCAACTGTGATGTCAGTAATGCCTGGTTCAACTGAGGCTGTAACAACTCCTGGCACAGTTGCTGTTCCTAATATCCCTCCTGGAACACCATCCTCCCATCAGCCAATTCAGCCTAAAGACTTTCACCACCACCATTTTCCCGACATGGAAATCTTCTTGAGAAGATTTGCCAATGAATATCCTAATATCACCCGTCTTTATTCTCTGGGGAAATCCGTAGAGTCAAGAGAACTGTATGTGATGGAGATATCTGATAACCCAGGTGTCCATGAACCAGGTGAACCAGAATTTAAGTATATTGGAAATATGCATGGAAATGAAGTGGTTGGAAGAGAGCTGCTATTGAATCTCATTGAATACCTCTGCAAGAATTTTGGAACAGACCCTGAAGTAACAGATTTGGTTCGCAGCACAAGAATTCACCTTATGCCATCCATGAATCCTGATGGATATGAAAAGTCCCAGGAAGGAGATTCGATCAGTGTAGTTGGCAGAAACAACAGCAACAACTTTGACCTAAACCGGAATTTCCCAGACCAGTTTGTTCCAATCACAGAACCTACCCAACCAGAAACTATCGCTGTGATGAGCTGGGTGAAGGCCTACCCGTTTGTGCTGTCAGCCAATCTGCACGGGGGTTCCCTGGTGGTTAACTACCCTTATGATGATAATGAGCAAGGAGTTGCCACGTACAGCAAGTCACCAGATGATGCTGTATTTCAGCAAATAGCACTTTCTTATTCCAAGGAAAATTCGCAGATGTTCCAAGGTAGACCTTGCAAGGACATGTATCTCAATGAGTATTTTCCTCATGGGATAACAAACGGAGCTAGTTGGTATAACGTCCCAGGTGGTATGCAGGACTGGAACTATTTACAGACAAATTGCTTTGAAGTAACTATCGAACTCGGTTGTGTGAAATATCCATTTGAGAATGAACTGCCAAAGTACTGGGAGCAAAATCGAAGATCTCTAATCCAGTTTATGAAACAGGTTCATCAGGGTGTCAAAGGATTTGTCCTTGATGCCACAGATGGTAGGGGCATATTAAATGCCACCCTCAGTGTTGCTGAAATTAATCACCCAGTGACCACTTACAAAGCTGGAGATTACTGGCGCCTCTTGGTCCCAGGGACATACAAAATCACAGCATCTGCCCGAGGGTATAACCCTGTCACCAAGAACGTGACCGTCAGGAGTGAAGGTGCTGTTCAGGTCAACTTCACCCTTGTTCGATCTTCAGCAGATGCAAACAATGAGTCAAAGAAAGGCAGGGGGCATAGCACCAGCACTGACGACACCAGCGACCCAACTTCTAAGGAGTTTGAAGCATTAATCAAACACCTTTCGGCTGAGAATGGCTTGGAAGGCTTCATGTTAAGCTCGTCCTCAGACCTGGCTCTGTATCGATACCATTCATACAAAGACTTATCCGAGTTCCTGAGAGGACTTGTAATGAACTACCCGCACATTACAAACCTTACCACTTTGGGACAGAGTGTTGAGTATCGTCACATTTGGTCCCTGGAGATCTCCAATAAGCCCAACATATCAGAACCTGAAGAACCGAAGATTCGTTTTGTTGCTGGTATCCATGGAAACGCTCCAGTTGGAACTGAACTGCTCTTGGCTCTGGCAGAATTTCTTTGCCTGAATTACAAAAGGAACCCAGTTGTTACCCAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGAACTGCTCTTGGCTCTGG
59.96
GCCACTGAAATGGTTGCGTT
59.97
144
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGAACTGCTCTTGGCTCTGG
59.96
CCAGCCACTGAAATGGTTGC
60.04
147
PCR template sequence:
TGCTGGTATCCATGGAAACGCTCCAGTTGGAACTGAACTGCTCTTGGCTCTGGCAGAATTTCTTTGCCTGAATTACAAAAGGAACCCAGTTGTTACCCAAGTCCACATTGGAATTAAAGGATTTGTTAAAGATTCCGTAACAGGCTCTGGGTTAGAGAACGCAACCATTTCAGTGGCTGGTATTAATCATAACATCACAA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
25
Interacting miRNAs (#binding sites)
mmu-miR-138-5p(2), mmu-miR-20b-5p(1), mmu-miR-27b-3p(1), mmu-miR-27a-3p(1), mmu-miR-106a-5p(1), mmu-miR-93-5p(1), mmu-miR-20a-5p(1), mmu-miR-204-5p(1), mmu-miR-328-3p(1), mmu-miR-203-3p(1), mmu-miR-495-3p(1), mmu-miR-149-5p(1), mmu-miR-199b-3p(1), mmu-miR-483-5p(1), mmu-miR-125b-1-3p(1), mmu-miR-199a-3p(1), mmu-miR-382-5p(1), mmu-miR-802-5p(1), mmu-miR-190b-5p(1), mmu-miR-673-5p(1), mmu-miR-5101(1), mmu-miR-539-5p(1), mmu-miR-335-3p(1), mmu-miR-3065-5p(1), mmu-miR-202-3p(1)
siRNAs for circular RNA silencing
Junction sequence
AGTTGTTACCCAAGTCCACATTGGAA
siRNA sets
ATGTGGACTTGGGTAACAA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCCPD_1926_ORF_1
0.9129
0.136603176
1
3678
ORF sequence:
ATGCCATTGACCATTAATAATATAATGGTGAAAGAAGGGCCAGCTACAGAGATGGATTTCTCCCTTCGGCCAACTGTGATGTCAGTAATGCCTGGTTCAACTGAGGCTGTAACAACTCCTGGCACAGTTGCTGTTCCTAATATCCCTCCTGGAACACCATCCTCCCATCAGCCAATTCAGCCTAAAGACTTTCACCACCACCATTTTCCCGACATGGAAATCTTCTTGAGAAGATTTGCCAATGAATATCCTAATATCACCCGTCTTTATTCTCTGGGGAAATCCGTAGAGTCAAGAGAACTGTATGTGATGGAGATATCTGATAACCCAGGTGTCCATGAACCAGGTGAACCAGAATTTAAGTATATTGGAAATATGCATGGAAATGAAGTGGTTGGAAGAGAGCTGCTATTGAATCTCATTGAATACCTCTGCAAGAATTTTGGAACAGACCCTGAAGTAACAGATTTGGTTCGCAGCACAAGAATTCACCTTATGCCATCCATGAATCCTGATGGATATGAAAAGTCCCAGGAAGGAGATTCGATCAGTGTAGTTGGCAGAAACAACAGCAACAACTTTGACCTAAACCGGAATTTCCCAGACCAGTTTGTTCCAATCACAGAACCTACCCAACCAGAAACTATCGCTGTGATGAGCTGGGTGAAGGCCTACCCGTTTGTGCTGTCAGCCAATCTGCACGGGGGTTCCCTGGTGGTTAACTACCCTTATGATGATAATGAGCAAGGAGTTGCCACGTACAGCAAGTCACCAGATGATGCTGTATTTCAGCAAATAGCACTTTCTTATTCCAAGGAAAATTCGCAGATGTTCCAAGGTAGACCTTGCAAGGACATGTATCTCAATGAGTATTTTCCTCATGGGATAACAAACGGAGCTAGTTGGTATAACGTCCCAGGTGGTATGCAGGACTGGAACTATTTACAGACAAATTGCTTTGAAGTAACTATCGAACTCGGTTGTGTGAAATATCCATTTGAGAATGAACTGCCAAAGTACTGGGAGCAAAATCGAAGATCTCTAATCCAGTTTATGAAACAGGTTCATCAGGGTGTCAAAGGATTTGTCCTTGATGCCACAGATGGTAGGGGCATATTAAATGCCACCCTCAGTGTTGCTGAAATTAATCACCCAGTGACCACTTACAAAGCTGGAGATTACTGGCGCCTCTTGGTCCCAGGGACATACAAAATCACAGCATCTGCCCGAGGGTATAACCCTGTCACCAAGAACGTGACCGTCAGGAGTGAAGGTGCTGTTCAGGTCAACTTCACCCTTGTTCGATCTTCAGCAGATGCAAACAATGAGTCAAAGAAAGGCAGGGGGCATAGCACCAGCACTGACGACACCAGCGACCCAACTTCTAAGGAGTTTGAAGCATTAATCAAACACCTTTCGGCTGAGAATGGCTTGGAAGGCTTCATGTTAAGCTCGTCCTCAGACCTGGCTCTGTATCGATACCATTCATACAAAGACTTATCCGAGTTCCTGAGAGGACTTGTAATGAACTACCCGCACATTACAAACCTTACCACTTTGGGACAGAGTGTTGAGTATCGTCACATTTGGTCCCTGGAGATCTCCAATAAGCCCAACATATCAGAACCTGAAGAACCGAAGATTCGTTTTGTTGCTGGTATCCATGGAAACGCTCCAGTTGGAACTGAACTGCTCTTGGCTCTGGCAGAATTTCTTTGCCTGAATTACAAAAGGAACCCAGTTGTTACCCAAGTCCACATTGGAATTAAAGGATTTGTTAAAGATTCCGTAACAGGCTCTGGGTTAGAGAACGCAACCATTTCAGTGGCTGGTATTAATCATAACATCACAACGGGAAGATTTGGTGATTTCCACAGATTACTTGTTCCTGGAACTTACAATCTTACGGCGCTTTCAACTGGGTATATGCCATTGACCATTAATAATATAATGGTGAAAGAAGGGCCAGCTACAGAGATGGATTTCTCCCTTCGGCCAACTGTGATGTCAGTAATGCCTGGTTCAACTGAGGCTGTAACAACTCCTGGCACAGTTGCTGTTCCTAATATCCCTCCTGGAACACCATCCTCCCATCAGCCAATTCAGCCTAAAGACTTTCACCACCACCATTTTCCCGACATGGAAATCTTCTTGAGAAGATTTGCCAATGAATATCCTAATATCACCCGTCTTTATTCTCTGGGGAAATCCGTAGAGTCAAGAGAACTGTATGTGATGGAGATATCTGATAACCCAGGTGTCCATGAACCAGGTGAACCAGAATTTAAGTATATTGGAAATATGCATGGAAATGAAGTGGTTGGAAGAGAGCTGCTATTGAATCTCATTGAATACCTCTGCAAGAATTTTGGAACAGACCCTGAAGTAACAGATTTGGTTCGCAGCACAAGAATTCACCTTATGCCATCCATGAATCCTGATGGATATGAAAAGTCCCAGGAAGGAGATTCGATCAGTGTAGTTGGCAGAAACAACAGCAACAACTTTGACCTAAACCGGAATTTCCCAGACCAGTTTGTTCCAATCACAGAACCTACCCAACCAGAAACTATCGCTGTGATGAGCTGGGTGAAGGCCTACCCGTTTGTGCTGTCAGCCAATCTGCACGGGGGTTCCCTGGTGGTTAACTACCCTTATGATGATAATGAGCAAGGAGTTGCCACGTACAGCAAGTCACCAGATGATGCTGTATTTCAGCAAATAGCACTTTCTTATTCCAAGGAAAATTCGCAGATGTTCCAAGGTAGACCTTGCAAGGACATGTATCTCAATGAGTATTTTCCTCATGGGATAACAAACGGAGCTAGTTGGTATAACGTCCCAGGTGGTATGCAGGACTGGAACTATTTACAGACAAATTGCTTTGAAGTAACTATCGAACTCGGTTGTGTGAAATATCCATTTGAGAATGAACTGCCAAAGTACTGGGAGCAAAATCGAAGATCTCTAATCCAGTTTATGAAACAGGTTCATCAGGGTGTCAAAGGATTTGTCCTTGATGCCACAGATGGTAGGGGCATATTAAATGCCACCCTCAGTGTTGCTGAAATTAATCACCCAGTGACCACTTACAAAGCTGGAGATTACTGGCGCCTCTTGGTCCCAGGGACATACAAAATCACAGCATCTGCCCGAGGGTATAACCCTGTCACCAAGAACGTGACCGTCAGGAGTGAAGGTGCTGTTCAGGTCAACTTCACCCTTGTTCGATCTTCAGCAGATGCAAACAATGAGTCAAAGAAAGGCAGGGGGCATAGCACCAGCACTGACGACACCAGCGACCCAACTTCTAAGGAGTTTGAAGCATTAATCAAACACCTTTCGGCTGAGAATGGCTTGGAAGGCTTCATGTTAAGCTCGTCCTCAGACCTGGCTCTGTATCGATACCATTCATACAAAGACTTATCCGAGTTCCTGAGAGGACTTGTAATGAACTACCCGCACATTACAAACCTTACCACTTTGGGACAGAGTGTTGAGTATCGTCACATTTGGTCCCTGGAGATCTCCAATAAGCCCAACATATCAGAACCTGAAGAACCGAAGATTCGTTTTGTTGCTGGTATCCATGGAAACGCTCCAGTTGGAACTGAACTGCTCTTGGCTCTGGCAGAATTTCTTTGCCTGAATTACAAAAGGAACCCAGTTGTTACCCAA
Peptide sequence:
MPLTINNIMVKEGPATEMDFSLRPTVMSVMPGSTEAVTTPGTVAVPNIPPGTPSSHQPIQPKDFHHHHFPDMEIFLRRFANEYPNITRLYSLGKSVESRELYVMEISDNPGVHEPGEPEFKYIGNMHGNEVVGRELLLNLIEYLCKNFGTDPEVTDLVRSTRIHLMPSMNPDGYEKSQEGDSISVVGRNNSNNFDLNRNFPDQFVPITEPTQPETIAVMSWVKAYPFVLSANLHGGSLVVNYPYDDNEQGVATYSKSPDDAVFQQIALSYSKENSQMFQGRPCKDMYLNEYFPHGITNGASWYNVPGGMQDWNYLQTNCFEVTIELGCVKYPFENELPKYWEQNRRSLIQFMKQVHQGVKGFVLDATDGRGILNATLSVAEINHPVTTYKAGDYWRLLVPGTYKITASARGYNPVTKNVTVRSEGAVQVNFTLVRSSADANNESKKGRGHSTSTDDTSDPTSKEFEALIKHLSAENGLEGFMLSSSSDLALYRYHSYKDLSEFLRGLVMNYPHITNLTTLGQSVEYRHIWSLEISNKPNISEPEEPKIRFVAGIHGNAPVGTELLLALAEFLCLNYKRNPVVTQVHIGIKGFVKDSVTGSGLENATISVAGINHNITTGRFGDFHRLLVPGTYNLTALSTGYMPLTINNIMVKEGPATEMDFSLRPTVMSVMPGSTEAVTTPGTVAVPNIPPGTPSSHQPIQPKDFHHHHFPDMEIFLRRFANEYPNITRLYSLGKSVESRELYVMEISDNPGVHEPGEPEFKYIGNMHGNEVVGRELLLNLIEYLCKNFGTDPEVTDLVRSTRIHLMPSMNPDGYEKSQEGDSISVVGRNNSNNFDLNRNFPDQFVPITEPTQPETIAVMSWVKAYPFVLSANLHGGSLVVNYPYDDNEQGVATYSKSPDDAVFQQIALSYSKENSQMFQGRPCKDMYLNEYFPHGITNGASWYNVPGGMQDWNYLQTNCFEVTIELGCVKYPFENELPKYWEQNRRSLIQFMKQVHQGVKGFVLDATDGRGILNATLSVAEINHPVTTYKAGDYWRLLVPGTYKITASARGYNPVTKNVTVRSEGAVQVNFTLVRSSADANNESKKGRGHSTSTDDTSDPTSKEFEALIKHLSAENGLEGFMLSSSSDLALYRYHSYKDLSEFLRGLVMNYPHITNLTTLGQSVEYRHIWSLEISNKPNISEPEEPKIRFVAGIHGNAPVGTELLLALAEFLCLNYKRNPVVTQ
IRESfinder result
IRESfinder score
0.633161908
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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