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mmu_circCrebbp_578
Basic information of circular RNA
PanCircBase ID:
mmu_circCrebbp_578
mm39_Chr. Position ID:
chr16|3910053|3912650|-
Gene name:
Crebbp
Transcript:
ENSMUST00000023165.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
27,26,25,24
Exon/intron offsets:
0,1282,1984,2446
Genomic length:
2597
Exon/intron sizes in nt:
1,66,11,41,47,151
Flanking exon/introns:
chr16:3909823-3910053|chr16:3912650-3913926
Splice length:
578
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GGCTGCAGACCACACGATTGGGAAACCACTTAGAAGACAGAGTGAATAAGTTTTTGCGGCGCCAGAATCACCCTGAAGCTGGGGAGGTTTTTGTCAGAGTGGTGGCCAGCTCAGACAAGACTGTGGAGGTCAAGCCGGGAATGAAGTCAAGGTTTGTGGATTCTGGAGAGATGTCGGAATCTTTCCCATATCGTACCAAAGCACTCTTTGCTTTTGAGGAGATCGATGGAGTCGATGTGTGCTTTTTTGGGATGCATGTGCAAGAATACGGCTCTGATTGCCCCCCACCAAATACAAGGCGTGTATACATATCTTATCTGGACAGTATTCATTTCTTCCGGCCCCGCTGCCTCCGGACAGCTGTTTACCATGAGATCCTCATCGGATATCTCGAGTATGTGAAGAAATTGGGGTATGTGACAGGACATATTTGGGCCTGTCCCCCAAGTGAAGGAGATGACTATATCTTTCATTGCCACCCCCCTGACCAGAAAATCCCCAAACCAAAACGACTACAGGAGTGGTACAAGAAGATGCTGGACAAGGCGTTTGCAGAGAGGATCATTAACGACTATAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCCCTGACCAGAAAATCCCC
60.03
AGCTTCAGGGTGATTCTGGC
60.03
178
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCCCCTGACCAGAAAATCCC
60.03
AGCTTCAGGGTGATTCTGGC
60.03
179
PCR template sequence:
CCCCCCTGACCAGAAAATCCCCAAACCAAAACGACTACAGGAGTGGTACAAGAAGATGCTGGACAAGGCGTTTGCAGAGAGGATCATTAACGACTATAAGGGCTGCAGACCACACGATTGGGAAACCACTTAGAAGACAGAGTGAATAAGTTTTTGCGGCGCCAGAATCACCCTGAAGCTGGGGAGGTTTTTGTCAGAGT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
9
Interacting miRNAs (#binding sites)
mmu-miR-140-5p(1), mmu-miR-429-3p(1), mmu-miR-200b-3p(1), mmu-miR-30e-5p(1), mmu-miR-200c-3p(1), mmu-miR-30a-5p(1), mmu-miR-709(1), mmu-miR-29b-2-5p(1), mmu-miR-338-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TAACGACTATAAGGGCTGCAGACCAC
siRNA sets
TCTGCAGCCCTTATAGTCG, CTGCAGCCCTTATAGTCGT, GTCTGCAGCCCTTATAGTC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCCREBBP_578_ORF_1
0.7873
0.193361076
0.594693399
471
ORF sequence:
ATGAAGTCAAGGTTTGTGGATTCTGGAGAGATGTCGGAATCTTTCCCATATCGTACCAAAGCACTCTTTGCTTTTGAGGAGATCGATGGAGTCGATGTGTGCTTTTTTGGGATGCATGTGCAAGAATACGGCTCTGATTGCCCCCCACCAAATACAAGGCGTGTATACATATCTTATCTGGACAGTATTCATTTCTTCCGGCCCCGCTGCCTCCGGACAGCTGTTTACCATGAGATCCTCATCGGATATCTCGAGTATGTGAAGAAATTGGGGTATGTGACAGGACATATTTGGGCCTGTCCCCCAAGTGAAGGAGATGACTATATCTTTCATTGCCACCCCCCTGACCAGAAAATCCCCAAACCAAAACGACTACAGGAGTGGTACAAGAAGATGCTGGACAAGGCGTTTGCAGAGAGGATCATTAACGACTATAAGGGCTGCAGACCACACGATTGGGAAACCACTTAG
Peptide sequence:
MKSRFVDSGEMSESFPYRTKALFAFEEIDGVDVCFFGMHVQEYGSDCPPPNTRRVYISYLDSIHFFRPRCLRTAVYHEILIGYLEYVKKLGYVTGHIWACPPSEGDDYIFHCHPPDQKIPKPKRLQEWYKKMLDKAFAERIINDYKGCRPHDWETT
IRESfinder result
IRESfinder score
0.542112498
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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