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mmu_circCdan1_717
Basic information of circular RNA
PanCircBase ID:
mmu_circCdan1_717
mm39_Chr. Position ID:
chr2|120556075|120557853|-
Gene name:
Cdan1
Transcript:
ENSMUST00000110701.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
14,13,12,11,10
Exon/intron offsets:
0,326,582,995,1702
Genomic length:
1778
Exon/intron sizes in nt:
167,147,121,206,76
Flanking exon/introns:
chr2:120555744-120556075|chr2:120557853-120558338
Splice length:
717
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
AGCCATGATGGGTCAACTTTCAGCAGCCTGCAGCCACAGCCACTTTGTCCGCCTTTTCCAAAAACAGCTTCTCCAGATGTGTCAGAGCCCTGGCGGTGCTGGGGGATCTGTTCTGGGTGAAGCTCCAGATGTATTGAATATGCTAGGAGCTGACAAACTAGGACGGTTGCGGCAGCTCCAAGAACGGCTGATAGCCCCTCAGAGCAGTGGAGGGCCCTGCCCACCCCCCACATTCCCAGGCTGTCAAGGCTTCTTCAGGGATTTCATCATGAGTGCCAGCAGCTTCCATTTTAATCAGCACCTCATGGATAGTTTAAGTTTAAAGATTCGGGAGCTCAATGGCCTTCGCCTGCCTCAGCACGAGCCTGGTGATGAAGATGGGGAGTCAGACATGGACTGGCAGGGTGAACGGAGGCAATTTGCTGTAGTGCTTCTTAGTCTTAGACTTTTGGCTAAATTTCTGGGCTTTGTGGCTTTCCTGCCATACCGGGGACATGAACCACCCCCGACCCGTGAGCTTCAGGACTCTATTCTGGCCCTCAGGAGCCAGGTCCCTCCTGTTCTGGATATACGGGCTTTGCTGCAGCAGGGATTGTGGGCCCGTCGGGCAGTGCTCACTGTGCCCTGGCTGGTAGAATTCCTCTCTTTTGCTGACCACATTGTCCCCTTGCTGGACTATTACCGGAGTGTCTTTACTCTCCTGCTGCGCTTACATCG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GTGCCCTGGCTGGTAGAATT
60.03
GGAAAAGGCGGACAAAGTGG
59.69
157
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GTGCCCTGGCTGGTAGAATT
60.03
GAAAAGGCGGACAAAGTGGC
60.32
156
PCR template sequence:
CTGTGCCCTGGCTGGTAGAATTCCTCTCTTTTGCTGACCACATTGTCCCCTTGCTGGACTATTACCGGAGTGTCTTTACTCTCCTGCTGCGCTTACATCGAGCCATGATGGGTCAACTTTCAGCAGCCTGCAGCCACAGCCACTTTGTCCGCCTTTTCCAAAAACAGCTTCTCCAGATGTGTCAGAGCCCTGGCGGTGCT
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-206-3p(1), mmu-miR-709(1), mmu-miR-214-3p(1), mmu-miR-128-3p(1), mmu-miR-149-5p(1), mmu-miR-433-3p(1), mmu-miR-351-5p(1), mmu-miR-127-5p(1), mmu-miR-370-3p(1), mmu-miR-324-3p(1), mmu-miR-350-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TGCGCTTACATCGAGCCATGATGGGT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCCDAN1_717_ORF_1
0.9272
0.177419335
0.999434895
1428
ORF sequence:
ATGATGGGTCAACTTTCAGCAGCCTGCAGCCACAGCCACTTTGTCCGCCTTTTCCAAAAACAGCTTCTCCAGATGTGTCAGAGCCCTGGCGGTGCTGGGGGATCTGTTCTGGGTGAAGCTCCAGATGTATTGAATATGCTAGGAGCTGACAAACTAGGACGGTTGCGGCAGCTCCAAGAACGGCTGATAGCCCCTCAGAGCAGTGGAGGGCCCTGCCCACCCCCCACATTCCCAGGCTGTCAAGGCTTCTTCAGGGATTTCATCATGAGTGCCAGCAGCTTCCATTTTAATCAGCACCTCATGGATAGTTTAAGTTTAAAGATTCGGGAGCTCAATGGCCTTCGCCTGCCTCAGCACGAGCCTGGTGATGAAGATGGGGAGTCAGACATGGACTGGCAGGGTGAACGGAGGCAATTTGCTGTAGTGCTTCTTAGTCTTAGACTTTTGGCTAAATTTCTGGGCTTTGTGGCTTTCCTGCCATACCGGGGACATGAACCACCCCCGACCCGTGAGCTTCAGGACTCTATTCTGGCCCTCAGGAGCCAGGTCCCTCCTGTTCTGGATATACGGGCTTTGCTGCAGCAGGGATTGTGGGCCCGTCGGGCAGTGCTCACTGTGCCCTGGCTGGTAGAATTCCTCTCTTTTGCTGACCACATTGTCCCCTTGCTGGACTATTACCGGAGTGTCTTTACTCTCCTGCTGCGCTTACATCGAGCCATGATGGGTCAACTTTCAGCAGCCTGCAGCCACAGCCACTTTGTCCGCCTTTTCCAAAAACAGCTTCTCCAGATGTGTCAGAGCCCTGGCGGTGCTGGGGGATCTGTTCTGGGTGAAGCTCCAGATGTATTGAATATGCTAGGAGCTGACAAACTAGGACGGTTGCGGCAGCTCCAAGAACGGCTGATAGCCCCTCAGAGCAGTGGAGGGCCCTGCCCACCCCCCACATTCCCAGGCTGTCAAGGCTTCTTCAGGGATTTCATCATGAGTGCCAGCAGCTTCCATTTTAATCAGCACCTCATGGATAGTTTAAGTTTAAAGATTCGGGAGCTCAATGGCCTTCGCCTGCCTCAGCACGAGCCTGGTGATGAAGATGGGGAGTCAGACATGGACTGGCAGGGTGAACGGAGGCAATTTGCTGTAGTGCTTCTTAGTCTTAGACTTTTGGCTAAATTTCTGGGCTTTGTGGCTTTCCTGCCATACCGGGGACATGAACCACCCCCGACCCGTGAGCTTCAGGACTCTATTCTGGCCCTCAGGAGCCAGGTCCCTCCTGTTCTGGATATACGGGCTTTGCTGCAGCAGGGATTGTGGGCCCGTCGGGCAGTGCTCACTGTGCCCTGGCTGGTAGAATTCCTCTCTTTTGCTGACCACATTGTCCCCTTGCTGGACTATTACCGGAGTGTCTTTACTCTCCTGCTGCGCTTACAT
Peptide sequence:
MMGQLSAACSHSHFVRLFQKQLLQMCQSPGGAGGSVLGEAPDVLNMLGADKLGRLRQLQERLIAPQSSGGPCPPPTFPGCQGFFRDFIMSASSFHFNQHLMDSLSLKIRELNGLRLPQHEPGDEDGESDMDWQGERRQFAVVLLSLRLLAKFLGFVAFLPYRGHEPPPTRELQDSILALRSQVPPVLDIRALLQQGLWARRAVLTVPWLVEFLSFADHIVPLLDYYRSVFTLLLRLHRAMMGQLSAACSHSHFVRLFQKQLLQMCQSPGGAGGSVLGEAPDVLNMLGADKLGRLRQLQERLIAPQSSGGPCPPPTFPGCQGFFRDFIMSASSFHFNQHLMDSLSLKIRELNGLRLPQHEPGDEDGESDMDWQGERRQFAVVLLSLRLLAKFLGFVAFLPYRGHEPPPTRELQDSILALRSQVPPVLDIRALLQQGLWARRAVLTVPWLVEFLSFADHIVPLLDYYRSVFTLLLRLH
IRESfinder result
IRESfinder score
0.617068304
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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