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mmu_circTbc1d5_1428
Basic information of circular RNA
PanCircBase ID:
mmu_circTbc1d5_1428
mm39_Chr. Position ID:
chr17|51120783|51450449|-
Gene name:
Tbc1d5
Transcript:
ENSMUST00000024717.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
15
Exon/intron indexes:
16,15,14,13,12,11,10,9,8,7,6,5,4,3,2
Exon/intron offsets:
0,38777,60810,103771,105236,105406,106759,121700,149937,152796,152960,154434,170849,211318,329603
Genomic length:
329666
Exon/intron sizes in nt:
86,107,143,173,70,51,89,103,68,75,90,109,70,131,63
Flanking exon/introns:
chr17:51107223-51120783|chr17:51450449-51486127
Splice length:
1428
Other database IDs:
CIRCpedia: MMU_CIRCpedia_21951
Human Ortholog IDs:
Mature spliced Sequence:
AAAATTTCTAATGACTTGGTGAAGATAGGAAAACCGTCAGAAAGGCTGAAGTACTGCCATACTACAATTACTTCGGTGACTGTCTCCACTCTATGCAATGTATAAGTCTGTGTCTGAAACGAGACATCCTCTGCAGTCAGAAGAACAAGAAGTAGGCATTGACCCCTTGTTCAGTTATTCAAATAAAACAAGAGGAGATCTAAGTCAAAATGGAAGAGGATCAAATTCTACCTTAGACACTGAAGGGACGTTCAATTCATATATGAAAGAATGGGAAGAACTATTTGTAAACAACAATTACTTGGCAACAGTAAGACAGAAGGGGATTAATGGGCAGCTGAGAAGCAGCAGGTTCCGCAGCATTTGCTGGAAGCTCTTTCTTTGTGTTCTTCCTCAAGATAAAAGTCAGTGGATAAGTAAAATCAAAGAACTAAGAGCCTGGTATAGCAGTATTAAAGAAATACACATCACTAACCCAAGGAAGGCTGCCGGCCAGCAGGATCTGATGATCAACAACCCCCTATCACAGGATGAAGGAAGTCTTTGGAACAAGTTCTTTCAAGATAAAGAACTACGGTCCATGATTGAGCAAGATGTCAAAAGAACGTTTCCTGAAATGCAGTTTTTCCAACAAGAAAATGTGAGAAAAATTCTTACAGATGTTCTGTTCTGCTATGCAAGAGAGAACGAGCAGTTGCTTTACAAACAGGGTATGCATGAGCTACTAGCGCCTATCATCTTTACCCTCCACTGTGACCACCAAGCTTTTCTACATGCCAGCGAGTCTGCACAGCCCAGTGAGGAAATGAAAACTCTCCTGAACCCTGAGTATCTGGAGCATGATGCCTATGCAATGTTCTCACAGCTTATGGAAACTGCTGAACCTTGGTTTTCTACGTTTGAGCATGATGGTCAAAAGGGAAAAGAAACTCTGATGGCCCCCATTCCCTTTGCTCGACCACAGGATTTAGGGCCAACAGTTGCCATTGTTACAAAAGTCAACCAGATCCAGGACCATCTACTGAAGAAACATGATATTGAGCTCTACATGCACCTGAACAGACTAGAAATTGCACCACAAATATATGGGTTACGATGGGTGCGGCTGCTGTTTGGCAGAGAGTTCCCTCTGCAGGACCTGCTGGTGGTCTGGGATGCCCTGTTTGCGGATAGCCTCAACCTGAGCTTAGTCGACTATGTCTTCACAGCCATGCTACTCTATATCCGAGATGCTTTGATTTCTAGTAACTATCAGACCTGTCTTGGCCTTCTGATGCATTATCCAATCATCGGGGACATACACTCACTGATACTGAAGGCTCTGTTCCTTAGAGACCCAAAGAGAAATCCAAGGCCGGCGACTTACCAGTTCCACCCCAACTTAGACTACTACAAAGCACGGGGAGCCGACCTTATGAACAAAAGCCG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CGACTTACCAGTTCCACCCC
60.04
GTGGAGACAGTCACCGAAGT
59.33
159
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CGACTTACCAGTTCCACCCC
60.04
AGTGGAGACAGTCACCGAAG
59.04
160
PCR template sequence:
TTAGAGACCCAAAGAGAAATCCAAGGCCGGCGACTTACCAGTTCCACCCCAACTTAGACTACTACAAAGCACGGGGAGCCGACCTTATGAACAAAAGCCGAAAATTTCTAATGACTTGGTGAAGATAGGAAAACCGTCAGAAAGGCTGAAGTACTGCCATACTACAATTACTTCGGTGACTGTCTCCACTCTATGCAATG
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-298-5p(2), mmu-miR-27b-3p(1), mmu-miR-27a-3p(1), mmu-miR-211-5p(1), mmu-miR-204-5p(1), mmu-miR-217-5p(1), mmu-miR-324-5p(1), mmu-miR-214-3p(1), mmu-miR-153-3p(1), mmu-miR-22-3p(1), mmu-miR-370-3p(1), mmu-miR-297a-5p(1), mmu-miR-335-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TGAACAAAAGCCGAAAATTTCTAATG
siRNA sets
AATTTTCGGCTTTTGTTCA, AAATTTTCGGCTTTTGTTC, TAGAAATTTTCGGCTTTTG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCTBC1D5_1428_ORF_1
0.8641
0.110570593
0.998517917
1353
ORF sequence:
ATGTATAAGTCTGTGTCTGAAACGAGACATCCTCTGCAGTCAGAAGAACAAGAAGTAGGCATTGACCCCTTGTTCAGTTATTCAAATAAAACAAGAGGAGATCTAAGTCAAAATGGAAGAGGATCAAATTCTACCTTAGACACTGAAGGGACGTTCAATTCATATATGAAAGAATGGGAAGAACTATTTGTAAACAACAATTACTTGGCAACAGTAAGACAGAAGGGGATTAATGGGCAGCTGAGAAGCAGCAGGTTCCGCAGCATTTGCTGGAAGCTCTTTCTTTGTGTTCTTCCTCAAGATAAAAGTCAGTGGATAAGTAAAATCAAAGAACTAAGAGCCTGGTATAGCAGTATTAAAGAAATACACATCACTAACCCAAGGAAGGCTGCCGGCCAGCAGGATCTGATGATCAACAACCCCCTATCACAGGATGAAGGAAGTCTTTGGAACAAGTTCTTTCAAGATAAAGAACTACGGTCCATGATTGAGCAAGATGTCAAAAGAACGTTTCCTGAAATGCAGTTTTTCCAACAAGAAAATGTGAGAAAAATTCTTACAGATGTTCTGTTCTGCTATGCAAGAGAGAACGAGCAGTTGCTTTACAAACAGGGTATGCATGAGCTACTAGCGCCTATCATCTTTACCCTCCACTGTGACCACCAAGCTTTTCTACATGCCAGCGAGTCTGCACAGCCCAGTGAGGAAATGAAAACTCTCCTGAACCCTGAGTATCTGGAGCATGATGCCTATGCAATGTTCTCACAGCTTATGGAAACTGCTGAACCTTGGTTTTCTACGTTTGAGCATGATGGTCAAAAGGGAAAAGAAACTCTGATGGCCCCCATTCCCTTTGCTCGACCACAGGATTTAGGGCCAACAGTTGCCATTGTTACAAAAGTCAACCAGATCCAGGACCATCTACTGAAGAAACATGATATTGAGCTCTACATGCACCTGAACAGACTAGAAATTGCACCACAAATATATGGGTTACGATGGGTGCGGCTGCTGTTTGGCAGAGAGTTCCCTCTGCAGGACCTGCTGGTGGTCTGGGATGCCCTGTTTGCGGATAGCCTCAACCTGAGCTTAGTCGACTATGTCTTCACAGCCATGCTACTCTATATCCGAGATGCTTTGATTTCTAGTAACTATCAGACCTGTCTTGGCCTTCTGATGCATTATCCAATCATCGGGGACATACACTCACTGATACTGAAGGCTCTGTTCCTTAGAGACCCAAAGAGAAATCCAAGGCCGGCGACTTACCAGTTCCACCCCAACTTAGACTACTACAAAGCACGGGGAGCCGACCTTATGAACAAAAGCCGAAAATTTCTAATGACTTGGTGA
Peptide sequence:
MYKSVSETRHPLQSEEQEVGIDPLFSYSNKTRGDLSQNGRGSNSTLDTEGTFNSYMKEWEELFVNNNYLATVRQKGINGQLRSSRFRSICWKLFLCVLPQDKSQWISKIKELRAWYSSIKEIHITNPRKAAGQQDLMINNPLSQDEGSLWNKFFQDKELRSMIEQDVKRTFPEMQFFQQENVRKILTDVLFCYARENEQLLYKQGMHELLAPIIFTLHCDHQAFLHASESAQPSEEMKTLLNPEYLEHDAYAMFSQLMETAEPWFSTFEHDGQKGKETLMAPIPFARPQDLGPTVAIVTKVNQIQDHLLKKHDIELYMHLNRLEIAPQIYGLRWVRLLFGREFPLQDLLVVWDALFADSLNLSLVDYVFTAMLLYIRDALISSNYQTCLGLLMHYPIIGDIHSLILKALFLRDPKRNPRPATYQFHPNLDYYKARGADLMNKSRKFLMTW
IRESfinder result
IRESfinder score
0.553799961
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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