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mmu_ciTaf3_5540
Basic information of circular RNA
PanCircBase ID:
mmu_ciTaf3_5540
mm39_Chr. Position ID:
chr2|10047505|10053045|-
Gene name:
Taf3
Transcript:
ENSMUST00000026888.11
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
1
Exon/intron offsets:
0
Genomic length:
5540
Exon/intron sizes in nt:
5540
Flanking exon/introns:
chr2:10047480-10053045
Splice length:
5540
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTGAGTACTGGGGCTGGGTTGCGGGAGGGCTGCCCCAAGCCGGTCACGAGTGACACCTTTGCCCCTCCGGACCCCTTTGGGCATCCCCTGCAGGGGTGGCGTTCCGAAGCCGGCTTCGACATGGGGATCCTCTCAGACTCCGACCGTCTGGGGGGCTTCCACCGTCTCCTGCGAACTCCAGTCATCCCTTAGGTGCCTCTTCCTCATCCGCTAACTTCCCGCCACCGGCAGGGAAGCGGGGTCCCGGCTCGCAGCCACACACCCTCTCACCGATGCTGCTCCTGGACCAGTGCTTCGGTCTCTCTCATTGTCTCGGGTCGGCTGCGGCCAGAGCCACCCCCAGAATGCTCTCCACCTCGCTCACCTTGGTCTTTTGCCTCCCTTGCTCGCAAACTACTACAACTAGTTGTCACAGGCGCTCCGTCTACCGGCCGTTTCTTACAAGGCTGGCCATTCCTGAGCTCCCAAATAGACTCGTTGACAGCTCCGCTCAGTCAGGGTCGCTGCCTTTTTTTTTTTTTTTTCTCCCCTCTCTATCTGTTCGTTTCACAGACTTCGCCTACTACTTTTCAAGGCAGGTTTTGTCGATTTCGCTGAATACCTTTCAATAAGCATCTCAGTTACGCACGGCGTCCTTCCTCTATGCTCTTCTGTTAGTGTTGATCTAAGTGTGATGGGAAGCATCACTCGGTAATTTGGGAGGTTTTCCGGGTACTCAGTGTCGCAGTATGTATTAACTTTTTTTTTTCTGGTTCATGTCTCTTTAATGAGATTAAAGGCTCCTGTGTATGTTTTGGGAGTGAGTAAAGATAGCACAGTCCTCCGTGTTGCCCCTCTTCAGGGCTCCAGCCCTTTCAGGTGTGTTCTAGGAGAGTGGGGACGGTCCCACATGGAGGACTGCAGTTGAAACTAGGGCTGAATCCTGGTGGCCAAGTAATACCCAGTTTCCCTCTTGAAACTACTTATGGGATGTCCCCACAACTAGAAGCCAGCCCCACGGGAGGAACTTGAGACATAGAATCTGGGGACAGTGTATTGACTTTTAAGTGAATGCCCAGTAGTGTCTTTACCCGGTGGTATTTAATGATTTGTAGAAGGTACAGATCATTTTATAGATGTGTGATTTTTACTGATGTATGAGTGTGTGTGTGTGTGGGGGGGGGCGGGGATTATAACGTTCATTTAAATTCCAAGATATGACGTTTAAGGTGGCAAGTTGGATAACTAAATGAAGTGTTTTATAGAGTAATTTGTTCTGCTACAGTGGTTCCTACTTTTAAAGTGAGGGCCTATAGATTCGCCATACCTTCAAGACTCCAAATGCCATTCCTAACAAAATAATGAAACCCCAACAAATCAGATCCTATTTATCTTATTTTGTAATTGTTTGTGTATATGTGTACCCTGACCCAGAAGATAAATTGATTATATTCATATTCTGCGTAAGTACCTAATGTGCTGATTGGAGCACCCTTGATTGTATTTGTATTACTCTAGTACCTACTGTGCTAACTGATTGGAGCATCCTGATTTGTGTCACCCTAGGGTTGTTCCAAATAGGAAACAGTTGGCTAGTAAATTAATGGGTAGTCCACAAAAGACTTAGTGAATGAATTCCTAAAATGCACATCTTTTTGAGTGCTTGATTTAACGTGTGTGGTGGTAGAATGATCGTCTAGCTGTTGCTTCCTTACCTTCAAGCCCCTTCTCCATTGACCTTCAGTATATTGTTACTATTATGTTTAAGATAGATTATATTTTGTTACCTAGTTCCTGAACTAAAGGCAGATGTATACCTTTTGGGTTCTGAAAATATCCCCTGAATACATAGTTACCTTCCATGCCAGGTAGTTCATGGATTCAAGCATTCCAAAGTGTCCAAGAACTCATTGTGCTTTACTGAGAACCTCTTCATTCCCCTCTCTCTCCTCTCTTCCCTCCTCCCCCCGCCCCCCATTTTATTTTATGTTTATGTTTGAGACATGGTCTCTCTTCATAGCCCTGGTTATCCTAGAGCTCAGTATGTAGACCAGACGCCTGCCTCTGCCTCATGAGTGCTGGGATTAAAGGTGTGGGCCATCACATTTATCATGAACCCTTTCCCCTCCATTCCCTGGCCTTTTCTTTTGTTTTTTTGAGACAGAGTTTTGGGGTTTTTTTTGTTTGTTTGTTTGTTTGGTTGGTTGGTTTTTGTTTTTTGTTTTTTTTGGTGGTGGTTTTTTCATATCCCAGGCTGTCCTGTAACTCTCTCTGTAGACCAGGCTGTCCTTGAATTCACAGAGATCTGCTTGTCTCTGCCTCCTGAATGCTGGGATTAAAGATACGTGCTGCCACTGTCCAGTATGAAACTTTTTATAATTACCCATCTTTTTCTAGTCAGTTTTCTTCTCTTCCTTTTCGCTCTTTTTTTTAATGAGAATATGATTCGAAGATTCATTATTTCCCATTTGGATTTGGTGACTTGTTAAAAATGCTTACTTATTAAACAGATGGTTTTAGAGTGCAAGGTTGCAGGCTATCCATTCATTTTCTAGCTAACAGTTTCCTGAGTGTATATACTGGTTTAGCTCCACCATAGTGTGATACAAATACAGTTAGGGTTCTCCAGTCTGTTAGCACATTAGTACTGTAGTAGAATATGAAAATAATCAATTCATCCCATGAGAAAGGGTACGTACATGTATGCACACACACACACACACACACACACACACACACACAGAGAATTACAAATTTCTTTTAAAACTGAGTTCTGTAACTTCAGGTTACTATTATGTCATCTTGTATTCTATAATCAGTTCTCTTGGTGTTTCTGACAAGCGTTTATTGAGCACTACTTATAAACTGAGCTTGGGCTGAGGGTTGTGGAATACAAGCTCTGTCTACCAGGGTGTCAGAATATCGACACACGTAGGCTGATGGTGTGTGATCCTTTTTCTAAAATAAATACATAAAAATTAAAACAAGTACAGAAGTTGCTATTAATTCCTCAAGTAACAAAGTTATAAATTTTTCTAAGGTGACAGTTTCTCCTACACATGTTGACGCATTGGTCCCTGGGTATGGGTACTGCTATGTCGTACTGAAAGCAGGTACTAAGCCTTTCTGATGGGTCTCATGATTCGTACCCTGACTTCATTATCTTATGGTACTGGCAGTATATGTAAACCGAGTAAAACAGAGGGAATATATGTTTAGCTGTGGATTCCAGGGAACACTTGCTTTGGGGGGAAAAGATAAAGTTTGAGTTGAAGTATGAAGTATGTTTGTGTAGAAATGGAGAGAACTGTAGGTCAGAAGACAGCATACATGTGTAGTGAAAGTACCCACTAGACTGGACTGCTAACCCTGCCCAGCTAGCTCATTAGAAGGCTATTCAAGAGAAGTACTTAAGGCTTTACAAAAGGAGGCTAAGGCAGGAGGATTGCTGAGAGCCCAAGGCCAGCCTTGACTACAAAAATGAAACGATGTCTCCAAAAACCAAAGCAAAGTCACAGAAGAAGGAAAACCTGGGCGGGTCACGGTAGCACACATATGTAATCCTAATAGTCAGCAAGGTTCGTCAGGGACACTGCATGTCCAAGGCCAGCAGCACAAAGGAGTGGGAATATGTGTGTGTGTGTGTGTGTGTGTGTGTATGTATATGTGTGTGTATGTGTGTGTATGTATGTGTGTGTGTGTGTATGTGTATATGTATGTGTGTGTGTGTGTGTGTGTGTGTGTGTATATATTGAGTGGGCAGAACTTGAAGCCACAGCCCTGCACTGTCTGCCCTTGTACCAGATACCACCATCCACTCCTGTACTCCCAACACACAGAACGGTGAGACGGGAGGATCAGTATGAGTTTGGAGCCAGTCTATGTTACATAATGAGTTATAAGTCAGTGAGAACTATGCATTTAGACCTTGTCTTAATAAACCACTCACTGAGCCACAAAACTACATTTTAGTTAACATAGTGGTAGATAGATTATAAAAGTAAGCATTTTATAAATCTTTTTGGGGGGAGGGGGAATTCGAGACAGGGTTTCTCTGTGTAGCCGTGGCTGTCCTGGAACTCGCTCTGTAGACCAGGCTGGCCTTGCACTCAGCAATCCACCTGCTTCTGCCTCCCAAGTGCTGGGATTAAAGGTGTGTGCTACCACTGCCCAGACCATTTCATAAATCACGTTTTTTAGGGTACATTGTCATTTTTTTTCTATTTTGTCATTGGTTATAATGTCTCACTGTCCCTAATGTATAAATTATTTAGCATAGATAAGCTATAGATAGATAGATAGATGATAGGCAGAACTATAGTCTATGTGGATTTGGACTCTTCAAGGCTTCCAGCACTCACTGGGACTGGTGTAAAGTGTCTTCCATGGATAAAGAGAGACTATTCCTTTTTTTGTTTTGTTTTGTTTTGTTTTGTTTTGTTTTGTTTTCAATACAGGTTTCCCTGTGTAGCTCTGGCTCTTACAGAACTTGATTTGTAGACCTGGCTGGCCTTGCACTCAGAGATCTGACTGCCTCTACCTCCAGTGCTGGGACTAAAGGCGTGCACAGCACACCTGGCAAGCCGGAGACCATTTTCTACTGATGTAATTATAGACGAAATACAGAATTGGGGGAGATGAAATACCTGAACTCTTGCAGGAAAAGCGGGTCAAGGGGAGCATCAGAATGTCCTAGATTGAAATTATGAGGCGTGTAGAATTTAAGATGGTTCTATTCTTTACACAATGGTGATAAAGACTTTGATGAGAAGAAATGAAATGCATGCTTACATCCAGTAATAAGAGAAATGTGTATTATTTTTCTGTTTTGTGCATCACTGAAAGTGAGGCTGTTTGTTTGTTTGTTTGTTGCTTGTTTGTTTTGAGGCAGGGCTTATCTACTTAGCCCTGGCTGTCCTGGAACTCATTATATATACTAGACTGGCCTCAAACTCACAGAGATCTGTCTGTCTCTGCCTTCCGAGTTCTGAGACTTAAGGCAAATGCCATCACTACACCTGGCCTGAAAAAGTGTTTGATAGGCTAGTGAGATTGCTTGGTGGGTAATGGTACTGGCTGCTAAGCCTGGCAACGTGTGTTAAGACTCTAGGACTCATAATGGAAAGAGAGACACAACTCCAAACCACCACCCCCCCACCCCCCACACCCCCGCAGTCCCGTCCCTTCCCTTCCCTCCCTACCCCCTCTCTCTTCCCTCTCCCCCCCCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTGTCTCTCTCTTTCTGTTTTGTTTTTGAAAGAGAAGTCTCATTATGTATCTCTGACTGGCTTTGAACTCACTATGTAGACCAGGCTGGCCATGAATGAGATCTGCCTGTCTGTGTCTCCCTATTGCTGGGATTAAAGGTGTGTGTCACCATGTCTAGCAGTCAGCTTTGTATTATTTAAGCAATGTGATATTCTGTTTAAAAATATGTAACTAGGTTTTGAATAAGTAATATATTTCATTTCAAACCATACACACACACACACACACGTTTTAAAAGTCACCATGTACTTTCTTCCTAGTGACA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ATTTCATTTCAAACCATACACACACAC
59.56
GGAGGGGCAAAGGTGTCAC
60.6
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ATTTCATTTCAAACCATACACACACA
58.5
GGAGGGGCAAAGGTGTCAC
60.6
140
PCR template sequence:
ATGTAACTAGGTTTTGAATAAGTAATATATTTCATTTCAAACCATACACACACACACACACACGTTTTAAAAGTCACCATGTACTTTCTTCCTAGTGACAGTGAGTACTGGGGCTGGGTTGCGGGAGGGCTGCCCCAAGCCGGTCACGAGTGACACCTTTGCCCCTCCGGACCCCTTTGGGCATCCCCTGCAGGGGTGGC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
52
Interacting miRNAs (#binding sites)
mmu-miR-466d-3p(9), mmu-miR-466b-3p(7), mmu-miR-709(4), mmu-miR-495-3p(3), mmu-miR-1187(3), mmu-miR-574-5p(3), mmu-miR-466a-5p(2), mmu-miR-466p-5p(2), mmu-miR-369-3p(2), mmu-miR-335-3p(2), mmu-miR-532-5p(2), mmu-miR-137-3p(1), mmu-miR-9-5p(1), mmu-miR-23b-3p(1), mmu-miR-140-5p(1), mmu-let-7a-5p(1), mmu-miR-103-3p(1), mmu-let-7e-5p(1), mmu-let-7b-5p(1), mmu-miR-150-5p(1), mmu-miR-200c-3p(1), mmu-miR-101a-3p(1), mmu-let-7c-5p(1), mmu-miR-146a-5p(1), mmu-miR-130a-3p(1), mmu-miR-298-5p(1), mmu-miR-216a-5p(1), mmu-miR-101b-3p(1), mmu-miR-203-3p(1), mmu-miR-23a-3p(1), mmu-miR-185-5p(1), mmu-miR-139-5p(1), mmu-miR-10a-5p(1), mmu-miR-214-3p(1), mmu-let-7d-5p(1), mmu-miR-149-5p(1), mmu-miR-494-3p(1), mmu-miR-29b-1-5p(1), mmu-miR-411-3p(1), mmu-miR-511-3p(1), mmu-miR-215-5p(1), mmu-miR-297a-5p(1), mmu-miR-107-3p(1), mmu-miR-301a-3p(1), mmu-miR-27a-5p(1), mmu-miR-377-3p(1), mmu-miR-344d-3p(1), mmu-miR-3470b(1), mmu-miR-146b-5p(1), mmu-miR-339-3p(1), mmu-miR-7a-1-3p(1), mmu-miR-7a-2-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CTTCCTAGTGACAGTGAGTACTGGGG
siRNA sets
NA
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
0.851334706
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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