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mmu_circAcbd3_1089
Basic information of circular RNA
PanCircBase ID:
mmu_circAcbd3_1089
mm39_Chr. Position ID:
chr1|180560730|180574643|+
Gene name:
Acbd3
Transcript:
ENSMUST00000027780.6
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
2,3,4,5,6,7
Exon/intron offsets:
0,1211,3526,5297,11905,13628
Genomic length:
13913
Exon/intron sizes in nt:
142,141,159,175,187,285
Flanking exon/introns:
chr1:180553943-180560730|chr1:180574643-180579723
Splice length:
1089
Other database IDs:
CIRCpedia: MMU_CIRCpedia_12309, circAtlas: mmu-Acbd3_0004
circAtlas: hsa-ACBD3_0003, CIRCpedia: HSA_CIRCpedia_117833
Human Ortholog IDs:
Mature spliced Sequence:
TAAAAGATGGCAAAGCCTTTCATCCAACTTATGAAGAAAAACTGAAGTTCGTGGCACTGCATAAGCAAGTTCTTTTGGGCCCATATAACCCAGACACGTCCCCTGAGGTTGGATTCTTTGATGTGTTGGGGAATGATAGGAGGAGAGAATGGGCAGCTCTGGGAAACATGTCCAAGGAGGATGCCATGGTAGAGTTTGTGAAGCTTCTAAATAAGTGTTGTCCTCTCCTCTCGGCATATGTTGCGTCCCACAGAATAGAGAAGGAAGAAGAAGAGAAAAGAAGAAAGGCGGAGGAGGAGCGAAGGCAGCGTGAAGAGGAAGAACGAGAGCGGCTGCAAAAGGAAGAAGAGAAGCGGAAGCGAGAGGAGGAAGACCGGCTGAGACGGGAGGAGGAAGAGAGGCGGCGGATAGAGGAAGAGAGGCTTCGGCTGGAACAGCAAAAGCAGCAGATAATGGCAGCTTTAAACTCGCAGACTGCCGTGCAATTCCAGCAGTATGCAGCCCAGCAGTATCCAGGGAACTACGAACAACAGCAGATTCTCATCCGCCAGCTGCAGGAGCAGCACTATCAGCAGTATATGCAGCAGTTATATCAAGTCCAGCTTGCACAACAACAGGCAGCATTACAGAAACAGCAAGAAGTAGTGATGGCTGGGGCATCATTGCCTGCATCATCAAAGGTGAACACAGCTGGAGCAAGTGATACACTGTCAGTTAATGGACAGGCCAAAACCCACACTGAAAATTCCGAAAAAGTCCTTGAGCCAGAAGCTGCAGAAGAAGCCTTGGAAAATGGACCAAAAGACTCTCTTCCAGTGATTGCAGCTCCATCCATGTGGACAAGACCACAAATCAAAGACTTTAAAGAGAAGATTCGGCAGGATGCAGATTCTGTGATTACAGTACGTCGAGGAGAAGTCGTCACCGTCCGAGTCCCGACTCATGAGGAAGGATCATACCTATTTTGGGAATTTGCCACAGACAGTTATGACATTGGGTTTGGGGTTTATTTTGAATGGACAGACTCTCCAAATGCTGCTGTCAGTGTGCATGTCAGTGAGTCCAGTGACGAGGAGGAGGAGGAGGAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AAATGCTGCTGTCAGTGTGC
59.69
TGGGCCCAAAAGAACTTGCT
60.4
142
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AAATGCTGCTGTCAGTGTGC
59.69
ATGGGCCCAAAAGAACTTGC
59.31
143
PCR template sequence:
GACATTGGGTTTGGGGTTTATTTTGAATGGACAGACTCTCCAAATGCTGCTGTCAGTGTGCATGTCAGTGAGTCCAGTGACGAGGAGGAGGAGGAGGAAGTAAAAGATGGCAAAGCCTTTCATCCAACTTATGAAGAAAAACTGAAGTTCGTGGCACTGCATAAGCAAGTTCTTTTGGGCCCATATAACCCAGACACGTC
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-155-5p(1), mmu-miR-15a-5p(1), mmu-miR-93-5p(1), mmu-miR-103-3p(1), mmu-miR-322-5p(1), mmu-miR-149-5p(1), mmu-miR-363-3p(1), mmu-miR-107-3p(1), mmu-miR-344d-3p(1), mmu-miR-207(1), mmu-miR-3087-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GAGGAGGAGGAAGTAAAAGATGGCAA
siRNA sets
ATCTTTTACTTCCTCCTCC, CTTTTACTTCCTCCTCCTC, CATCTTTTACTTCCTCCTC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCACBD3_1089_ORF_1
1.1764
0.341708858
0.999997227
2010
ORF sequence:
ATGTCCAAGGAGGATGCCATGGTAGAGTTTGTGAAGCTTCTAAATAAGTGTTGTCCTCTCCTCTCGGCATATGTTGCGTCCCACAGAATAGAGAAGGAAGAAGAAGAGAAAAGAAGAAAGGCGGAGGAGGAGCGAAGGCAGCGTGAAGAGGAAGAACGAGAGCGGCTGCAAAAGGAAGAAGAGAAGCGGAAGCGAGAGGAGGAAGACCGGCTGAGACGGGAGGAGGAAGAGAGGCGGCGGATAGAGGAAGAGAGGCTTCGGCTGGAACAGCAAAAGCAGCAGATAATGGCAGCTTTAAACTCGCAGACTGCCGTGCAATTCCAGCAGTATGCAGCCCAGCAGTATCCAGGGAACTACGAACAACAGCAGATTCTCATCCGCCAGCTGCAGGAGCAGCACTATCAGCAGTATATGCAGCAGTTATATCAAGTCCAGCTTGCACAACAACAGGCAGCATTACAGAAACAGCAAGAAGTAGTGATGGCTGGGGCATCATTGCCTGCATCATCAAAGGTGAACACAGCTGGAGCAAGTGATACACTGTCAGTTAATGGACAGGCCAAAACCCACACTGAAAATTCCGAAAAAGTCCTTGAGCCAGAAGCTGCAGAAGAAGCCTTGGAAAATGGACCAAAAGACTCTCTTCCAGTGATTGCAGCTCCATCCATGTGGACAAGACCACAAATCAAAGACTTTAAAGAGAAGATTCGGCAGGATGCAGATTCTGTGATTACAGTACGTCGAGGAGAAGTCGTCACCGTCCGAGTCCCGACTCATGAGGAAGGATCATACCTATTTTGGGAATTTGCCACAGACAGTTATGACATTGGGTTTGGGGTTTATTTTGAATGGACAGACTCTCCAAATGCTGCTGTCAGTGTGCATGTCAGTGAGTCCAGTGACGAGGAGGAGGAGGAGGAAGTAAAAGATGGCAAAGCCTTTCATCCAACTTATGAAGAAAAACTGAAGTTCGTGGCACTGCATAAGCAAGTTCTTTTGGGCCCATATAACCCAGACACGTCCCCTGAGGTTGGATTCTTTGATGTGTTGGGGAATGATAGGAGGAGAGAATGGGCAGCTCTGGGAAACATGTCCAAGGAGGATGCCATGGTAGAGTTTGTGAAGCTTCTAAATAAGTGTTGTCCTCTCCTCTCGGCATATGTTGCGTCCCACAGAATAGAGAAGGAAGAAGAAGAGAAAAGAAGAAAGGCGGAGGAGGAGCGAAGGCAGCGTGAAGAGGAAGAACGAGAGCGGCTGCAAAAGGAAGAAGAGAAGCGGAAGCGAGAGGAGGAAGACCGGCTGAGACGGGAGGAGGAAGAGAGGCGGCGGATAGAGGAAGAGAGGCTTCGGCTGGAACAGCAAAAGCAGCAGATAATGGCAGCTTTAAACTCGCAGACTGCCGTGCAATTCCAGCAGTATGCAGCCCAGCAGTATCCAGGGAACTACGAACAACAGCAGATTCTCATCCGCCAGCTGCAGGAGCAGCACTATCAGCAGTATATGCAGCAGTTATATCAAGTCCAGCTTGCACAACAACAGGCAGCATTACAGAAACAGCAAGAAGTAGTGATGGCTGGGGCATCATTGCCTGCATCATCAAAGGTGAACACAGCTGGAGCAAGTGATACACTGTCAGTTAATGGACAGGCCAAAACCCACACTGAAAATTCCGAAAAAGTCCTTGAGCCAGAAGCTGCAGAAGAAGCCTTGGAAAATGGACCAAAAGACTCTCTTCCAGTGATTGCAGCTCCATCCATGTGGACAAGACCACAAATCAAAGACTTTAAAGAGAAGATTCGGCAGGATGCAGATTCTGTGATTACAGTACGTCGAGGAGAAGTCGTCACCGTCCGAGTCCCGACTCATGAGGAAGGATCATACCTATTTTGGGAATTTGCCACAGACAGTTATGACATTGGGTTTGGGGTTTATTTTGAATGGACAGACTCTCCAAATGCTGCTGTCAGTGTGCATGTCAGTGAGTCCAGTGACGAGGAGGAGGAGGAGGAA
Peptide sequence:
MSKEDAMVEFVKLLNKCCPLLSAYVASHRIEKEEEEKRRKAEEERRQREEEERERLQKEEEKRKREEEDRLRREEEERRRIEEERLRLEQQKQQIMAALNSQTAVQFQQYAAQQYPGNYEQQQILIRQLQEQHYQQYMQQLYQVQLAQQQAALQKQQEVVMAGASLPASSKVNTAGASDTLSVNGQAKTHTENSEKVLEPEAAEEALENGPKDSLPVIAAPSMWTRPQIKDFKEKIRQDADSVITVRRGEVVTVRVPTHEEGSYLFWEFATDSYDIGFGVYFEWTDSPNAAVSVHVSESSDEEEEEEVKDGKAFHPTYEEKLKFVALHKQVLLGPYNPDTSPEVGFFDVLGNDRRREWAALGNMSKEDAMVEFVKLLNKCCPLLSAYVASHRIEKEEEEKRRKAEEERRQREEEERERLQKEEEKRKREEEDRLRREEEERRRIEEERLRLEQQKQQIMAALNSQTAVQFQQYAAQQYPGNYEQQQILIRQLQEQHYQQYMQQLYQVQLAQQQAALQKQQEVVMAGASLPASSKVNTAGASDTLSVNGQAKTHTENSEKVLEPEAAEEALENGPKDSLPVIAAPSMWTRPQIKDFKEKIRQDADSVITVRRGEVVTVRVPTHEEGSYLFWEFATDSYDIGFGVYFEWTDSPNAAVSVHVSESSDEEEEEE
IRESfinder result
IRESfinder score
0.341142739
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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