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mmu_circTbc1d5_538
Basic information of circular RNA
PanCircBase ID:
mmu_circTbc1d5_538
mm39_Chr. Position ID:
chr17|51273579|51450449|-
Gene name:
Tbc1d5
Transcript:
ENSMUST00000024717.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
7,6,5,4,3,2
Exon/intron offsets:
0,164,1638,18053,58522,176807
Genomic length:
176870
Exon/intron sizes in nt:
75,90,109,70,131,63
Flanking exon/introns:
chr17:51270788-51273579|chr17:51450449-51486127
Splice length:
538
Other database IDs:
circAtlas: mmu-Tbc1d5_0049
Human Ortholog IDs:
Mature spliced Sequence:
AAAATTTCTAATGACTTGGTGAAGATAGGAAAACCGTCAGAAAGGCTGAAGTACTGCCATACTACAATTACTTCGGTGACTGTCTCCACTCTATGCAATGTATAAGTCTGTGTCTGAAACGAGACATCCTCTGCAGTCAGAAGAACAAGAAGTAGGCATTGACCCCTTGTTCAGTTATTCAAATAAAACAAGAGGAGATCTAAGTCAAAATGGAAGAGGATCAAATTCTACCTTAGACACTGAAGGGACGTTCAATTCATATATGAAAGAATGGGAAGAACTATTTGTAAACAACAATTACTTGGCAACAGTAAGACAGAAGGGGATTAATGGGCAGCTGAGAAGCAGCAGGTTCCGCAGCATTTGCTGGAAGCTCTTTCTTTGTGTTCTTCCTCAAGATAAAAGTCAGTGGATAAGTAAAATCAAAGAACTAAGAGCCTGGTATAGCAGTATTAAAGAAATACACATCACTAACCCAAGGAAGGCTGCCGGCCAGCAGGATCTGATGATCAACAACCCCCTATCACAGGATGAAGGA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACTAACCCAAGGAAGGCTGC
59.96
GTGGAGACAGTCACCGAAGT
59.33
158
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACTAACCCAAGGAAGGCTGC
59.96
AGTGGAGACAGTCACCGAAG
59.04
159
PCR template sequence:
CTGGTATAGCAGTATTAAAGAAATACACATCACTAACCCAAGGAAGGCTGCCGGCCAGCAGGATCTGATGATCAACAACCCCCTATCACAGGATGAAGGAAAAATTTCTAATGACTTGGTGAAGATAGGAAAACCGTCAGAAAGGCTGAAGTACTGCCATACTACAATTACTTCGGTGACTGTCTCCACTCTATGCAATG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
3
Interacting miRNAs (#binding sites)
mmu-miR-298-5p(1), mmu-miR-22-3p(1), mmu-miR-370-3p(1)
siRNAs for circular RNA silencing
Junction sequence
ACAGGATGAAGGAAAAATTTCTAATG
siRNA sets
AAATTTTTCCTTCATCCTG, AATTTTTCCTTCATCCTGT, TTAGAAATTTTTCCTTCAT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCTBC1D5_538_ORF_1
0.4707
-0.018513974
0.37085546
546
ORF sequence:
ATGTATAAGTCTGTGTCTGAAACGAGACATCCTCTGCAGTCAGAAGAACAAGAAGTAGGCATTGACCCCTTGTTCAGTTATTCAAATAAAACAAGAGGAGATCTAAGTCAAAATGGAAGAGGATCAAATTCTACCTTAGACACTGAAGGGACGTTCAATTCATATATGAAAGAATGGGAAGAACTATTTGTAAACAACAATTACTTGGCAACAGTAAGACAGAAGGGGATTAATGGGCAGCTGAGAAGCAGCAGGTTCCGCAGCATTTGCTGGAAGCTCTTTCTTTGTGTTCTTCCTCAAGATAAAAGTCAGTGGATAAGTAAAATCAAAGAACTAAGAGCCTGGTATAGCAGTATTAAAGAAATACACATCACTAACCCAAGGAAGGCTGCCGGCCAGCAGGATCTGATGATCAACAACCCCCTATCACAGGATGAAGGAAAAATTTCTAATGACTTGGTGAAGATAGGAAAACCGTCAGAAAGGCTGAAGTACTGCCATACTACAATTACTTCGGTGACTGTCTCCACTCTATGCAATGTATAA
Peptide sequence:
MYKSVSETRHPLQSEEQEVGIDPLFSYSNKTRGDLSQNGRGSNSTLDTEGTFNSYMKEWEELFVNNNYLATVRQKGINGQLRSSRFRSICWKLFLCVLPQDKSQWISKIKELRAWYSSIKEIHITNPRKAAGQQDLMINNPLSQDEGKISNDLVKIGKPSERLKYCHTTITSVTVSTLCNV
IRESfinder result
IRESfinder score
0.608015795
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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