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mmu_ciDlg5_3692
Basic information of circular RNA
PanCircBase ID:
mmu_ciDlg5_3692
mm39_Chr. Position ID:
chr14|24210406|24214098|-
Gene name:
Dlg5
Transcript:
ENSMUST00000042009.13
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
8
Exon/intron offsets:
0
Genomic length:
3692
Exon/intron sizes in nt:
3692
Flanking exon/introns:
chr14:24210405-24214098
Splice length:
3692
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAAGTCTCCAGAACAGAGCAAGTCGTCTGCTGCATAGGCCGGGAGCCTTGAGTAAGAGGTCATGGGTAGTGCGCTGTATGAACATTAAAAATAAGCCCTTTCCCTAAGGAAGTGCTGAGTCACTGTGGCAGTGACTGTTGGAGAACATTAGGAAGAACAGAGCAGTCTAGGAAGAAGAGAAGCATTTCTTTTGCTGCTGCATCCTGAAGGCAGTCATGCCTTTCTTAAGCATTCCTTAGTGTGTGGATGCCGATAACGGACACTTTCCCAACAGAGAACATCTGGGATTTGTTTTTCAGTCGTATGTATGTATGTATGTATGTATGTATGATGTATGTATGTATGTTTGTTTGTTTGTTTTGAGAGGAGATAAGGCAATCCAATAATCCTCCTGCCTCAGAGTGATTGTGTCTGGTTTACATATATTTTTTTACTGAACAGTATGCCTACTCTATTAGCTTTTTTTTTTTTTTAATTACCAACATAAAATCTCTTTGCTATAAAATAGTCACATGGTTAAAAAAAAAACCACATAGAGCAAAAAGTAGTGTTTCCCCTTCTGTTTTGAATTCACTCCTAGAGATTTGTCCCCACATGGAAGGTGTTCCAGCCCAGACCTCGAGTGCTCAAGTAAGACTAGAAGACGTCTAGGGCTCTAGCTCTGTGTTTAAACACAACAGTGGGATCTGCAGTTTGCATTCTGTGTCACAGTGCTTTCTCAGTCTGTCCTTACTAATGGTACCTACCTCACCTCACGAGGCTGGGCTGCTTGGTTATGCATACGTAAAACTGCCTCCTTGCATGACATAGCCGTCATCACCATCTGCTGTGGTCCCAGGTCCCGCCGTGAGCCTTCCCTGTAGTACAGCCACTCCTGGATGCCCCAATCTCATCACGAGATGAGAATCTCGAGCATCTGCTAAGCACCAGAGCTTGCGCATGTCAGTCTTCACACCAACCTGCTGATGTGGGAAGCGCAGTGTGCCTTTTGGTGGCACTGTAAAATTCCAGTTCTGTACAAGATTGTAGTGACAGCATGTCCTCTGGTTCTGGAGCCACCTGTGGATTCCTGTGGCTGACAGTTCACTGTGTTAACTTCCAGCACTGCTTCACGCACACCCATCTCCTGTGTTACTGTATTTTATAGCTCATGTGGAACGGTGACATCCTCCTTGGTTCACCTTGCATTTTCTTTTTGACCTTATGACCTAGAGAGATTAGTGTCCTCAGAGCCTCCTGTGGGACTTTTTTTTTGTTTTGTTTTTTGTTTTGTTTTTCGAGACAGGAATTTTCTGTGTAGCTCTGGCTGTCCTGAAACTTGAAACTCACTCTGTAGACCAGGCTGGCCTCAAACTCAGAAATCTGCCTGCCTCTGCCTCCCAAGTGCTGGGATTAAAGGCATGTACCACCACTGTCTGGCCTGTGGTACCTTCTAAATTGATATAATTGATCAGTGTTGGGGATGGAACTGAGGGTGTAGACTGTCGTGTGTGCTAGGTAAGCTTCCACATGGAGCGCCTCCTCAGTCCCCACGTGGGGCCTCAGGGATGTCAGCTTATGTTACTGGCCAGTCAGTCCAGTGTGGGCATCTTTGCCTCCATAAGCAGTACTCAATGGCTACCAGTAACTCCTGCTGTCAGCCTCACCAGAACCTAATGGAGAGAACTCATTACTGTACATCCTTGCCAGGGTTCCTCAGATTTGAGGAGAGCCAGTGCTTAAAACCAGCATGGTCATATGGAAAGGTCTTGAAACTGGAGACAGGGTACCAGAAAATGCACATTAATTGCCCTTCCCAACATAATCACATTCTGTAGATATTTTCTTTTTATATCTTATGTGTGGAGGTGGCAGTGTGTGTATGGATACTTGTATGTGCAGATGTGTGTATGTATGTGTTCCAGAACCCGTGGAGACCAGAGAACACCCTTGAGAGTTACTCCTCAAGAGTCTTCTATCTTTTCTTGCTTTTGAATTGCCTTTGAAATGATATCATATGCAGCAGTATAAGGGCACAATGAAACTCTGTGATGTTATAGTGGAGCATTGTGATGTCATACAAACGTGACATGTCTTGGCCCAATTGAGCATTGTGATCTGATGACCCATGATGATAGCACAGCTGAGCAGTGTTGTACGACACTGTGCTAGCATACTGGGAAAGCACAGTAGAGCATTCTGATATCATGGCAGAGTTGTAATGTCATATGCAGTGTTGTGACAGCGTCACGGACCATCGTGATGCCACTTTGAAGCAATGTGATGTTCCAGTGGAGCAGTGCCAACACTATGAACCACTAGAAACACAGTAGAAAGTAAAATTATTTAAAAACAGTGATGTGAAGGGTACCATTTAGTATTTTATTGGCACATTGGAGCATTGTGATGTCACACACTAGAGCTATGATGCCATAACATGATGTCTTGGCACAGTTGAGCATTTTGACATGGTTTTGTATTCTGTGAGACTTTTAAAAATATCTTTTACTTATTCACTGACAGTTTGACACGTGTATACGATCTATCTTGATCCCCTCCTGCTTCCTCTGACAGCTCCCTCCCAGAACTACCGTGCCATGCTCAGATGACAGGACTTCACAGCACTGCTCCCCAGCCTCCACTTTTAAATTCTCTCTGTCTCCTCCTTTCTGTGTTCTCTGAGACTTGGGTAGTTGATATAGGTGATCAATTTAGGGCTGATCACTCAGCAGCTGTTCATTCTCTCCACTTTGGTCAGCTATGAGTCAATACATTAACCAGTGTCCACTGCAGAGAGAGGCTTCATCAGCTAAGTTTGAAAGTAGCATAAAACCACAGATGTAAACATAAGTAGTTAGAAGGTAGTTGGACAATGTGACCATTTAGCAAAACAACAGACTCCAAAGCCATGCGCTTTAGGCTTGAATTCCCTTCTCTGGAGCTGACCTCAGATTCAATCAGAAAGCCCTTAGTAACCCTTCAGACACATAGAACTATTTCTTTATCATACAGGTTCCCCTTCTGTCCCCTCTTTATCGTTCCCCTCCTGTACACACAGTCTGTCACCCTATGAATGACACCATACAGTGTGTGACTCCATCAAGGCTGTATTCACTTGACACCACCCTGTGACAGCCTCCAAGTGTTGTGTGTCCCAACAGTCAGTCTTTCCATCTCTAGGTGTCTCTGGGGCTTAGGTACACCAGGGCATGCACCAAAGCACGTGCTTTTTTTTTTTTTTTTTTTTTTTAAGAGAAAGTTTGACCATGTCTGTGAGAGATGAGGGCAGATTCCAGGAGAGGGTGTTGATTCTCTTTGATAATGGCAGAGCTTCATTTTATGTGGTACTTTCTGTGTCACAAAGGCCTCTCCTTTCCATTCTCCACCCAACTCTGGGATGTAGATGTATATCTTGGCCACTCACGCATGAAAGAATGGACTGGTAGCACACAGTAGGATGTCTCCCTGGGGTCCCCTGTGCTCTGATCCCATCCAGTGTGATGTTAGGATTGTGTTCCGCTTGCTTCAGAAGATACTTACCTAGGTCCAGGTGCTGCTGGGGAGGGTCTTGCTTTCCCTCACTAATCCCTGAGTTTTGCTCCTTACATAAAGAGTCCTAGGATTGGCAGGTGGGCCTAGCCTCTGGCCTTGCAGTCTGGGATCACTGAGGCCGCCCCATCAGTTGTCCTGACCAGTTCTCTCTTTGGCCCTA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CAGTCTGGGATCACTGAGGC
59.82
TACAGCGCACTACCCATGAC
59.83
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCAGTCTGGGATCACTGAGG
59.82
TACAGCGCACTACCCATGAC
59.83
141
PCR template sequence:
AGTCCTAGGATTGGCAGGTGGGCCTAGCCTCTGGCCTTGCAGTCTGGGATCACTGAGGCCGCCCCATCAGTTGTCCTGACCAGTTCTCTCTTTGGCCCTAGTAAGTCTCCAGAACAGAGCAAGTCGTCTGCTGCATAGGCCGGGAGCCTTGAGTAAGAGGTCATGGGTAGTGCGCTGTATGAACATTAAAAATAAGCCCT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
54
Interacting miRNAs (#binding sites)
mmu-miR-23b-3p(3), mmu-miR-466d-3p(3), mmu-miR-466b-3p(3), mmu-miR-155-5p(2), mmu-miR-200a-3p(2), mmu-miR-132-3p(2), mmu-miR-23a-3p(2), mmu-miR-128-3p(2), mmu-miR-802-5p(2), mmu-miR-188-3p(2), mmu-miR-124-3p(1), mmu-miR-210-3p(1), mmu-miR-9-5p(1), mmu-miR-20b-5p(1), mmu-miR-16-5p(1), mmu-miR-15a-5p(1), mmu-miR-27b-3p(1), mmu-miR-27a-3p(1), mmu-miR-106a-5p(1), mmu-miR-17-5p(1), mmu-let-7e-5p(1), mmu-miR-135a-5p(1), mmu-let-7c-5p(1), mmu-miR-322-5p(1), mmu-miR-148a-3p(1), mmu-miR-298-5p(1), mmu-miR-101b-3p(1), mmu-miR-709(1), mmu-miR-125b-5p(1), mmu-miR-185-5p(1), mmu-miR-339-5p(1), mmu-miR-495-3p(1), mmu-miR-136-5p(1), mmu-miR-351-5p(1), mmu-miR-125a-5p(1), mmu-miR-29b-1-5p(1), mmu-miR-96-5p(1), mmu-miR-212-3p(1), mmu-miR-183-5p(1), mmu-miR-541-5p(1), mmu-miR-324-3p(1), mmu-miR-383-5p(1), mmu-miR-690(1), mmu-miR-384-3p(1), mmu-miR-129-5p(1), mmu-miR-207(1), mmu-miR-300-3p(1), mmu-miR-5099(1), mmu-miR-532-5p(1), mmu-miR-670-5p(1), mmu-miR-697(1), mmu-miR-3105-3p(1), mmu-miR-296-3p(1), mmu-miR-7a-1-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CTCTTTGGCCCTAGTAAGTCTCCAGA
siRNA sets
ACTTACTAGGGCCAAAGAG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
NA
NA
NA
NA
NA
ORF sequence:
NA
Peptide sequence:
NA
IRESfinder result
IRESfinder score
0.801674023
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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