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mmu_ciDnajb2_1254
Basic information of circular RNA
PanCircBase ID:
mmu_ciDnajb2_1254
mm39_Chr. Position ID:
chr1|75216274|75217528|+
Gene name:
Dnajb2
Transcript:
ENSMUST00000188931.7
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
5
Exon/intron offsets:
0
Genomic length:
1254
Exon/intron sizes in nt:
1254
Flanking exon/introns:
chr1:75216274-75217535
Splice length:
1254
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTACGTAGACGCAGGGTTGCTCCACTCCCTCTTCCAGCCTGCTGTCTGTCCTCTGTGGGGAATCTCTCAGGCTAGAGCCGGAGACGGAATTGGAATTTCACAGCCGGGAGATTTGAGGTTGTAGGCGTGAGTCCAGGGAAAGCTAGGACAGAACCTGACACATGGCAGGACTCACGTGACACACCAGTGACACTTCACAGACTGGCCTTATTAAATGACAACAAGAACACATTGTTAAGCCTCCACAACAGCCACCAGTGGAGCAAGACTCAAAAGCATCATGTGACTGCTGCAGCGCCATTACACATAACAACAGACACCTTTTTTTGTTGTGGTTTGATGACTAACATATGCCAAGAGTTCTACATCTCCTAAAGCCTCTTGTAAATCCTGAGAGCTGAGCCATTTTAATCCCCATTTCCAGATGAGAAGACGGAAGCATGTTAGTTAGCTTAGATGCGCACAAGTAATTGGCACAGCTGGGTGGCTAGGAAGGCGCTCTGTGGTAGGGGCTTGTCCAGCATGTGCAGGGCACTGATTTCAGTCCCCGGCACCACAAATCAAAACGTGAAGGCAAATCTGTTGATTAAAAGACTCCTTCGACAAGCATGGTTTGCACATGCCTGTAAAGAACTCACCACTGAGCACTGGCCACGGTGGTGCACACTTTTAATCCCTGCGCTCAGGAGGCAGAGGCACTCTTGAGTTCAGGGCTAGCCTGCTCTACCTAGCAATTTTCAGGCCAGCCAGACCTATGCAGTGAGAACCTGTCTCAAAACCCCAAAAGAACTTTAAACTTGGGAGATGGAGGCCCAAGATCAGGGCTTCAGGGTCATCTTTATCTATTAAGTTTGAGGCTAGCCTGAGCTACTGATACTGAGACGCTTTTTCCAAAAAAAAAAAAAAAAAAAAAAACAGTTTAAAAAATGTGTAAGTGGGGCTGGAGAGATGGCTCAGCGGTTAAGAGATTTTGAGTTCAATTCCCAGCAACCACATGGTGGCTCACAACCATCTGTGATGGGATCTGATGCCCTCTTCTGGTGTGTCTGAAGACAGGGACAGTGTACTCATATATACAGAATAAATAAATATATTAAAAAAAACAACAATAATCTTAAAACATTTTGTAAGTTTACACAACCCCAAACAGGAGCCATCAGAAGTGTATCGGGTTGTTTAGCAGCTTGCTTTCTAGGCCTTAAGGCTACAGCCACACACATTTTGGAGGAAAGCTCTTCACCAAGGACTTACCTT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CGGGTTGTTTAGCAGCTTGC
60.39
CACAGAGGACAGACAGCAGG
60.04
143
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CGGGTTGTTTAGCAGCTTGC
60.39
CCACAGAGGACAGACAGCAG
60.04
144
PCR template sequence:
CATCAGAAGTGTATCGGGTTGTTTAGCAGCTTGCTTTCTAGGCCTTAAGGCTACAGCCACACACATTTTGGAGGAAAGCTCTTCACCAAGGACTTACCTTGTACGTAGACGCAGGGTTGCTCCACTCCCTCTTCCAGCCTGCTGTCTGTCCTCTGTGGGGAATCTCTCAGGCTAGAGCCGGAGACGGAATTGGAATTTCA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
13
Interacting miRNAs (#binding sites)
mmu-miR-19b-3p(1), mmu-miR-19a-3p(1), mmu-miR-217-5p(1), mmu-miR-125b-5p(1), mmu-miR-339-5p(1), mmu-miR-214-3p(1), mmu-miR-24-3p(1), mmu-miR-541-5p(1), mmu-miR-466a-5p(1), mmu-miR-1187(1), mmu-miR-1198-5p(1), mmu-miR-466p-5p(1), mmu-miR-339-3p(1)
siRNAs for circular RNA silencing
Junction sequence
AAGGACTTACCTTGTACGTAGACGCA
siRNA sets
TCTACGTACAAGGTAAGTC,CTACGTACAAGGTAAGTCC,TACGTACAAGGTAAGTCCT
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
0.644152786
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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