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mmu_circTtc39b_962
Basic information of circular RNA
PanCircBase ID:
mmu_circTtc39b_962
mm39_Chr. Position ID:
chr4|83148644|83163375|-
Gene name:
Ttc39b
Transcript:
ENSMUST00000102823.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
9
Exon/intron indexes:
19,18,17,16,15,14,13,12,11
Exon/intron offsets:
0,2303,6834,9660,11238,11731,13496,13640,14622
Genomic length:
14731
Exon/intron sizes in nt:
1,17,11,81,09,12,79,21,00,00,00,000
Flanking exon/introns:
chr4:83145461-83148644|chr4:83163375-83164509
Splice length:
962
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GACCTAGGCCTTCTGCAGCTCCGGGAAGGCGCATCAGGAAGCAGCATGCGGTCCCCGCTCTGTTGCCTTACCATCCTGGCCTTCCATACCTACATCTCCCTCATTCTCGGTACAGGAGAAGTGAATGTTGTGGAAGCAGAGAGTCTCCTCGCTCCGTTCCTTCAACAGTTCCCAAATGGCTCCCTCATACTCTTCTATCATGCCCGAATCGAGCTGCTCAAAGGGAACACTGAAAAGGCTCAAGAAACATTTCGAAAGTGCATTTCAGTTCAAGAAGAGTGGAAACAGTTTCACCATCTCTGTTACTGGGAATTAATGTGGATTCATATATACCAACAAAATTGGATGCAGGCGTATTACTATTCAGACCTACTTTGCAAAGAGAGTAAATGGTCCAAGGCAACATATGTGTTCTTGAAAGCTGCTATTTTGAGCATGCTTCCAGAGGAAGAAGTGGCAGCGACTAAGGAGAATGTGGTGTCTCTGTTTAGACAGGTGGATGGTCTGAAGCAGAGAATCGCGGGGAAATCTCTCCCAACAGAGAAGTTCGCTGTGAGGAAGGCGCGGAGGTACTCACCCCCGTCAGGCGTCCCCGGAAAGCTGGTGATGCCAGCCCTGGAAATGATGTACGTCTGGAATGGCTTTTCAATAGTGGGAAAAAGGAAGGACCTTTCTGAAAATCTCTTGGTGACTGTGGAGAAGGCTGAGGAGGCATTGCAGAATCAAGACTTTACTGACTACTCTGTGGATGATGAATGCTTGGTGAAATTACTGAAAGGATGCTGCCTCAAGAACTTGGAGCGGCCCTTGCAAGCTGAGCTGTGTTTCAACCACGTTGTGGAAAGTGAAAAACTATTGAAGTACGACCACTATCTGGTGCCATTTACGCTGTTTGAGTTGGCATTTTTGTATAAAAGCCAAGGGGAAATTGACAAGGCCATCAAGGTCCTAGAAACTGCAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCTGGTGCCATTTACGCTGT
59.96
ATGGTAAGGCAACAGAGCGG
60.39
164
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCTGGTGCCATTTACGCTGT
59.96
TGGTAAGGCAACAGAGCGG
60
163
PCR template sequence:
ACGACCACTATCTGGTGCCATTTACGCTGTTTGAGTTGGCATTTTTGTATAAAAGCCAAGGGGAAATTGACAAGGCCATCAAGGTCCTAGAAACTGCAAGGACCTAGGCCTTCTGCAGCTCCGGGAAGGCGCATCAGGAAGCAGCATGCGGTCCCCGCTCTGTTGCCTTACCATCCTGGCCTTCCATACCTACATCTCCC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
6
Interacting miRNAs (#binding sites)
mmu-miR-204-5p(1), mmu-miR-181b-5p(1), mmu-miR-183-5p(1), mmu-miR-802-5p(1), mmu-miR-207(1), mmu-miR-181d-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TAGAAACTGCAAGGACCTAGGCCTTC
siRNA sets
TAGGTCCTTGCAGTTTCTA, CTAGGTCCTTGCAGTTTCT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCTTC39B_962_ORF_1
1.002
0.176339063
0.981369444
924
ORF sequence:
ATGCGGTCCCCGCTCTGTTGCCTTACCATCCTGGCCTTCCATACCTACATCTCCCTCATTCTCGGTACAGGAGAAGTGAATGTTGTGGAAGCAGAGAGTCTCCTCGCTCCGTTCCTTCAACAGTTCCCAAATGGCTCCCTCATACTCTTCTATCATGCCCGAATCGAGCTGCTCAAAGGGAACACTGAAAAGGCTCAAGAAACATTTCGAAAGTGCATTTCAGTTCAAGAAGAGTGGAAACAGTTTCACCATCTCTGTTACTGGGAATTAATGTGGATTCATATATACCAACAAAATTGGATGCAGGCGTATTACTATTCAGACCTACTTTGCAAAGAGAGTAAATGGTCCAAGGCAACATATGTGTTCTTGAAAGCTGCTATTTTGAGCATGCTTCCAGAGGAAGAAGTGGCAGCGACTAAGGAGAATGTGGTGTCTCTGTTTAGACAGGTGGATGGTCTGAAGCAGAGAATCGCGGGGAAATCTCTCCCAACAGAGAAGTTCGCTGTGAGGAAGGCGCGGAGGTACTCACCCCCGTCAGGCGTCCCCGGAAAGCTGGTGATGCCAGCCCTGGAAATGATGTACGTCTGGAATGGCTTTTCAATAGTGGGAAAAAGGAAGGACCTTTCTGAAAATCTCTTGGTGACTGTGGAGAAGGCTGAGGAGGCATTGCAGAATCAAGACTTTACTGACTACTCTGTGGATGATGAATGCTTGGTGAAATTACTGAAAGGATGCTGCCTCAAGAACTTGGAGCGGCCCTTGCAAGCTGAGCTGTGTTTCAACCACGTTGTGGAAAGTGAAAAACTATTGAAGTACGACCACTATCTGGTGCCATTTACGCTGTTTGAGTTGGCATTTTTGTATAAAAGCCAAGGGGAAATTGACAAGGCCATCAAGGTCCTAGAAACTGCAAGGACCTAG
Peptide sequence:
MRSPLCCLTILAFHTYISLILGTGEVNVVEAESLLAPFLQQFPNGSLILFYHARIELLKGNTEKAQETFRKCISVQEEWKQFHHLCYWELMWIHIYQQNWMQAYYYSDLLCKESKWSKATYVFLKAAILSMLPEEEVAATKENVVSLFRQVDGLKQRIAGKSLPTEKFAVRKARRYSPPSGVPGKLVMPALEMMYVWNGFSIVGKRKDLSENLLVTVEKAEEALQNQDFTDYSVDDECLVKLLKGCCLKNLERPLQAELCFNHVVESEKLLKYDHYLVPFTLFELAFLYKSQGEIDKAIKVLETART
IRESfinder result
IRESfinder score
0.537803151
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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