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mmu_ciDennd5a_1427
Basic information of circular RNA
PanCircBase ID:
mmu_ciDennd5a_1427
mm39_Chr. Position ID:
chr7|109494022|109495449|-
Gene name:
Dennd5a
Transcript:
ENSMUST00000130354.2
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
1
Exon/intron offsets:
0
Genomic length:
1427
Exon/intron sizes in nt:
1427
Flanking exon/introns:
chr7:109494022-109495449
Splice length:
1427
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTACTACAGGGCCAGAGTGTGCAGCAGCCAATATTCAGATGCTGCAATAGGGTGGGCACTGTCCTGCAGGGTGGGCACTGGCCATGGCCCTGCCTTGGAGGGCCCCTTTATGCCATTGATTTTTCTTATGTATCTTGTGTGTTTGTGGGACCTGGGAAGTAGAATGTGTATGATTAAGGAAGATGGAGGCCACATCTTGATGGGAAGGTTCAAAACCACCCTGTTGGGGACATTGGAAGTAAATATGTATAGTTATTTTTTCAGTAAACAATTGAATTTCAGGGGCCTTATGGAAAGTGGTAGGAAAGAAAGCTGAGCTGGGAAGTTTGCTGGTCATGTTTAAAAGTAAAATGTGTCAAACATTATCAAACTACCCCTCATAGGATGTGCGAAAACCCTAGAGAGGAGAGAGCCCCGAGAAAGCTTCCGGGAAGAGGAGGTGTTTCAGTGAGGCTTTAGTGGAAGGAAATGGCATGCAGAATGATGGGTCAGTGATAGGGAGCACGTTTAGAAGGAAGCGGGGGCTACAAGACCTGGGATGGAGAAAATTCCTTCTGTATTAGGGCTGCATTGTTTAATGAGAAGGCTGAGATAATGTGGAGCTGACATCATGGGTAATATGCATCGGAGTGGACAGCACTGAGAGAGTGGGAAGGCCACATAGACTAGAGGCATGGTATTCAGGCCGTGTGCAGGAGAGTTGGTGTGACAGTTAATACAGACTCTGAGCTGAGTACTATGTGGCTGTGCCCCCAGCTACTGGGGAGCTAAGGCAGGAGGATTGCTTGAACCTAGAAATACAAGGCCCATCATGAGCAACACAGTAAGAACTCCATCTCAACAACACAAAAGTAAGTAAGATGCTGGAGAGAGATGGCTCAACGGTTAAGATGACCCTTTCCTCTTGCAGAGGACACAGGTTGGGTTTACAGCACCCACATGGCTACTAACAAAAGTTCCAGAGGGTCCAACATTTTGTGCCGTTTGGTGGCATTGCATATAGGTGGTGCTGTCATGAAAACTAAACCTCTTGCAACAGCTGGCAGATGGGAAGTGTCACATGTTTTAGTACTTCTGGTGATGTTAGTGTGTGATGTTAGCTGTGGAGAAAAGAAATGTTTTGGACCTCTGTTTGATGGCGGGAGGAGTGCTCACGTCTGCCTAGTAACTGGTGTGTGCTAGGTTGTCTAGGGAGATGAAGGAGGTGGAGAAAGAGAGGCAGGTGACAGGGATAATTGTGTTGGGTTATTCCCAGGGCTGAGTGGTGGAAAGCAAGCTCCTTTAGAGGGAATTGGGGCTATGGGGGAGGGGTACAGCTTCTTCATCCTCTCACTAAGTTCAAGGATCCCCCCACCCCCAACTTGGCCTTGGCCTGTGTCTTTCTTTTCCCTTGCTTTGACCTACCTGGATCACTCCCACCCTACCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CACCCCCAACTTGGCCTT
59.8
GGACAGTGCCCACCCTATTG
60.39
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CACCCCCAACTTGGCCTTG
61.21
GGACAGTGCCCACCCTATTG
60.39
140
PCR template sequence:
TCTCACTAAGTTCAAGGATCCCCCCACCCCCAACTTGGCCTTGGCCTGTGTCTTTCTTTTCCCTTGCTTTGACCTACCTGGATCACTCCCACCCTACCAGGTACTACAGGGCCAGAGTGTGCAGCAGCCAATATTCAGATGCTGCAATAGGGTGGGCACTGTCCTGCAGGGTGGGCACTGGCCATGGCCCTGCCTTGGAG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
14
Interacting miRNAs (#binding sites)
mmu-miR-335-3p(2), mmu-miR-16-5p(1), mmu-miR-103-3p(1), mmu-miR-205-5p(1), mmu-miR-29b-3p(1), mmu-miR-29a-3p(1), mmu-miR-29c-3p(1), mmu-miR-196a-5p(1), mmu-miR-136-5p(1), mmu-miR-434-3p(1), mmu-miR-433-3p(1), mmu-miR-362-5p(1), mmu-miR-107-3p(1), mmu-miR-338-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CCCACCCTACCAGGTACTACAGGGCC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIDENND5A_1427_ORF_1
0.7287
-0.134566877
0.214025526
444
ORF sequence:
ATGGGGGAGGGGTACAGCTTCTTCATCCTCTCACTAAGTTCAAGGATCCCCCCACCCCCAACTTGGCCTTGGCCTGTGTCTTTCTTTTCCCTTGCTTTGACCTACCTGGATCACTCCCACCCTACCAGGTACTACAGGGCCAGAGTGTGCAGCAGCCAATATTCAGATGCTGCAATAGGGTGGGCACTGTCCTGCAGGGTGGGCACTGGCCATGGCCCTGCCTTGGAGGGCCCCTTTATGCCATTGATTTTTCTTATGTATCTTGTGTGTTTGTGGGACCTGGGAAGTAGAATGTGTATGATTAAGGAAGATGGAGGCCACATCTTGATGGGAAGGTTCAAAACCACCCTGTTGGGGACATTGGAAGTAAATATGTATAGTTATTTTTTCAGTAAACAATTGAATTTCAGGGGCCTTATGGAAAGTGGTAGGAAAGAAAGCTGA
Peptide sequence:
MGEGYSFFILSLSSRIPPPPTWPWPVSFFSLALTYLDHSHPTRYYRARVCSSQYSDAAIGWALSCRVGTGHGPALEGPFMPLIFLMYLVCLWDLGSRMCMIKEDGGHILMGRFKTTLLGTLEVNMYSYFFSKQLNFRGLMESGRKES
IRESfinder result
IRESfinder score
0.557932481
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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