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mmu_circUsp24_2310

Basic information of circular RNA
PanCircBase ID:

mmu_circUsp24_2310

mm39_Chr. Position ID:

chr4|106219534|106245115|+

Gene name:

Usp24

Transcript:

ENSMUST00000165709.8

CircRNA type:

Exonic circular (circ)RNA

Exon/Intron count:

20

Exon/intron indexes:

15,16,17,18,19,20,21,22,23,24,25,26,27,28,29,30,31,32,33,34

Exon/intron offsets:

0,350,5689,6385,7731,8646,10350,11321,11653,13309,14991,15171,16701,16891,17731,18090,19897,23085,25141,25352

Genomic length:

25581

Exon/intron sizes in nt:

16,24,81,08,15,01,32,10,00,00,00,00,00,00,00,00,00,00,00,00,00,00,00,00,000

Flanking exon/introns:

chr4:106219449-106219534|chr4:106245115-106245697

Splice length:

2310

Other database IDs:

Human Ortholog IDs:
Mature spliced Sequence:

GTGTTAGATGTCCTCTGGGAGCTGGCTCACCTTCCCACCTTGCCCAGCAGCCTCATTCAGCAGGCCTTGGAGGAGCACCTCACCATCCTCAGTGACGCGTACGCAGTGAAGGAGGCGGTCAAGAGGAGCTACATCATTAAATGCATAGAAGACATTAAAAGGCCTGGAGAATGGTCGAGTTTGGAGAAAAACAAGAAAGATGGATTTAAGTCATCTCAACTTAATAATCCGCAGTTTGTGTGGGTGGTTCCAGCTTTACGTCAGCTTCATGAAATCACTCGTTCATTTATAAAACAAACCTATCAAAAGCAAGACAAGAGCATTATTCAAGACCTGAAGAAAAATTTTGAAATAGTCAAACTGGTAACGGGAAGCTTACTGGCTTGTCACCGACTTGCAGCAGCCGTGGCTGGGCCTGGAGGCTTAACCGGCTTAACATTGGTGGATGGCCGCTATACTTACCGGGAGTATTTAGAGGCACATCTGAAATTTCTGGCATTTTTCTTACAAGAAGCTACACTGTATCTTGGGTGGAACCGAGCCAAAGAAATTTGGGAGTGCCTTGTGACTGGCCAGGACGTCTGCGAGCTAGATAGAGAGATGTGCTTTGAGTGGTTTACAAAGGGGCAGCATGACCTGGAGAGTGACGTCCAGCAGCAGCTCTTCAAGGAGAAGATTCTGAAATTGGAGTCATATGAAATCACTATGAATGGTTTCAACTTATTTAAGACTTTTTTTGAAAATGTGAATCTCTGTGATCATCGGTTGAAAAGACAAGGAGCTCAGTTGTATGTAGAAAAGTTGGAGTTGGTAGGAATGGATTTCATTTGGAAAATTGCCATGGAATCACCTGATGAAGAAATTGCTAATGAAGCTATTCAATTAATCATAAACTACAGTTACATTAATCTAAACCCTAGGTTAAAGAAGGACTCAGTGTCTTTACATAAGAAATTCATTGCTGACTGCTATACAAGACTAGAAGCAGCCAGTTCAGCACTCGGTGGCCCCACTCTAACACATGCTGTGACCCGAGCAACCAAAATGCTCACTGCAACTGCCATGCCAACTGTAGCAACATCAGTTCAGTCTCCATATAGATCAACAAAACTTGTGATAATCGAGAGACTGCTGCTTCTGGCGGAGCGCTACGTGATCACAATAGAGGACTTCTACTCTGTCCCACGAACTATTCTACCTCATGGTGCCTCATTTCATGGACATCTTTTAACTCTTAATGTTACCTACGAGTCTACCAAAGATACCTTCACTGTAGAGGCTCACAGTAATGAGACGATAGGCAGCGTCCGCTGGAAGATAGCCAAACAGCTGTGCTCTCCTGTGGACAACATACAGATATTTACGAACGATAGTCTGCTGACTGTAAATAAAGATCAAAAGCTCCTCCACCAACTGGGGTTCTCTGATGAACAAGTTCTTACCGTGAAGACTTCTGGCAGTGGGACCCCCTCGGGGAGCTCTGCAGATTCCTCCACCAGCTCCAGCAGCAGCAGCAGTGGGGCCTTCAGTTCGTCCTACGCCATGGAACAGGAGAAATCTCTCCCTGGTGTGGTGATGGCACTTGTATGTAATGTGTTTGACATGCTGTACCAACTTGCCAACCTGGAGGAGCCAAGGATAACTCTACGAGTGCGGAAGCTTCTGCTCTTGATACCCACTGACCCAGCCATTCAGGAAGCCCTTGACCAGCTGGATTCTTTAGGCAGAAAGAAAACTTTGCTCTCTGAAACAAGCTCCCAGTCTTCAAAGTCTCCTTCGCTTTCGTCAAAGCAGCAGCATCAGCCAAGTGCCAGCTCCATCTTGGAAAGTTTGTTTCGATCTTTTGCTCCTGGCATGTCAACCTTCAGAGTGCTCTACAACTTGGAAGTCCTAAGCTCCAAACTCATGCCCACGGCTGATGACGACATGGCAAGAAGCTGCGCAAAGTCCTTCTGTGAGAACTTCCTCAAAGCTGGAGGCTTGAGTTTGGTTGTAAATGTCATGCAGAGAGATTCCATCCCATCAGAGGTGGACTATGAGACAAGGCAGGGTGTTTATTCTATCTGTCTACAACTTGCAAGGTTTTTACTTGTTGGACAGACAATGCCAACATCATTAGATGAAGACCTCACCAAAGATGGCATAGAAGCACTTTCTTCCCGTCCATTCCGAAATGTCAGCCGGCAGACGAGCAGACAGATGTCCCTATGTGGGACCCCAGAGAAGTCGTCCTACAGACAGCTGTCAGTGTCAGACAGGTCTTCCATTAGGGTTGAGGAAATCATTCCCGCTGCTCGAGTTGCAATACAA

Divergent primers for circular RNA PCR

Primer Set-1

Forward primer
Tm
Reverse primer
Tm
Product size

GACCCCAGAGAAGTCGTCCT

60.61

TCCAAGGCCTGCTGAATGAG

60.03

168

Primer Set-2

Forward primer
Tm
Reverse primer
Tm
Product size

GACCCCAGAGAAGTCGTCCT

60.61

CTCCAAGGCCTGCTGAATGA

60.03

169

PCR template sequence:

TGGGACCCCAGAGAAGTCGTCCTACAGACAGCTGTCAGTGTCAGACAGGTCTTCCATTAGGGTTGAGGAAATCATTCCCGCTGCTCGAGTTGCAATACAAGTGTTAGATGTCCTCTGGGAGCTGGCTCACCTTCCCACCTTGCCCAGCAGCCTCATTCAGCAGGCCTTGGAGGAGCACCTCACCATCCTCAGTGACGCGT

Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs

32

Interacting miRNAs (#binding sites)

mmu-miR-23b-3p(1), mmu-miR-20b-5p(1), mmu-let-7a-5p(1), mmu-miR-106a-5p(1), mmu-miR-93-5p(1), mmu-miR-20a-5p(1), mmu-miR-17-5p(1), mmu-miR-7b-5p(1), mmu-let-7e-5p(1), mmu-let-7b-5p(1), mmu-let-7c-5p(1), mmu-miR-322-5p(1), mmu-miR-106b-5p(1), mmu-miR-7a-5p(1), mmu-miR-23a-3p(1), mmu-miR-138-5p(1), mmu-miR-139-5p(1), mmu-miR-381-3p(1), mmu-let-7d-5p(1), mmu-miR-503-5p(1), mmu-miR-127-5p(1), mmu-miR-182-5p(1), mmu-miR-382-5p(1), mmu-miR-370-3p(1), mmu-miR-362-5p(1), mmu-miR-324-3p(1), mmu-miR-297a-5p(1), mmu-miR-98-5p(1), mmu-miR-29b-2-5p(1), mmu-miR-188-3p(1), mmu-miR-466b-3p(1), mmu-miR-7a-2-3p(1)

siRNAs for circular RNA silencing
Junction sequence

AGTTGCAATACAAGTGTTAGATGTCC

siRNA sets

ATCTAACACTTGTATTGCA, CATCTAACACTTGTATTGC, TAACACTTGTATTGCAACT

Protein-coding potential of circular RNAs

CPAT analysis

CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length

CIRCUSP24_2310_ORF_1

0.7868

0.145237268

1

4020

ORF sequence:

ATGTGCTTTGAGTGGTTTACAAAGGGGCAGCATGACCTGGAGAGTGACGTCCAGCAGCAGCTCTTCAAGGAGAAGATTCTGAAATTGGAGTCATATGAAATCACTATGAATGGTTTCAACTTATTTAAGACTTTTTTTGAAAATGTGAATCTCTGTGATCATCGGTTGAAAAGACAAGGAGCTCAGTTGTATGTAGAAAAGTTGGAGTTGGTAGGAATGGATTTCATTTGGAAAATTGCCATGGAATCACCTGATGAAGAAATTGCTAATGAAGCTATTCAATTAATCATAAACTACAGTTACATTAATCTAAACCCTAGGTTAAAGAAGGACTCAGTGTCTTTACATAAGAAATTCATTGCTGACTGCTATACAAGACTAGAAGCAGCCAGTTCAGCACTCGGTGGCCCCACTCTAACACATGCTGTGACCCGAGCAACCAAAATGCTCACTGCAACTGCCATGCCAACTGTAGCAACATCAGTTCAGTCTCCATATAGATCAACAAAACTTGTGATAATCGAGAGACTGCTGCTTCTGGCGGAGCGCTACGTGATCACAATAGAGGACTTCTACTCTGTCCCACGAACTATTCTACCTCATGGTGCCTCATTTCATGGACATCTTTTAACTCTTAATGTTACCTACGAGTCTACCAAAGATACCTTCACTGTAGAGGCTCACAGTAATGAGACGATAGGCAGCGTCCGCTGGAAGATAGCCAAACAGCTGTGCTCTCCTGTGGACAACATACAGATATTTACGAACGATAGTCTGCTGACTGTAAATAAAGATCAAAAGCTCCTCCACCAACTGGGGTTCTCTGATGAACAAGTTCTTACCGTGAAGACTTCTGGCAGTGGGACCCCCTCGGGGAGCTCTGCAGATTCCTCCACCAGCTCCAGCAGCAGCAGCAGTGGGGCCTTCAGTTCGTCCTACGCCATGGAACAGGAGAAATCTCTCCCTGGTGTGGTGATGGCACTTGTATGTAATGTGTTTGACATGCTGTACCAACTTGCCAACCTGGAGGAGCCAAGGATAACTCTACGAGTGCGGAAGCTTCTGCTCTTGATACCCACTGACCCAGCCATTCAGGAAGCCCTTGACCAGCTGGATTCTTTAGGCAGAAAGAAAACTTTGCTCTCTGAAACAAGCTCCCAGTCTTCAAAGTCTCCTTCGCTTTCGTCAAAGCAGCAGCATCAGCCAAGTGCCAGCTCCATCTTGGAAAGTTTGTTTCGATCTTTTGCTCCTGGCATGTCAACCTTCAGAGTGCTCTACAACTTGGAAGTCCTAAGCTCCAAACTCATGCCCACGGCTGATGACGACATGGCAAGAAGCTGCGCAAAGTCCTTCTGTGAGAACTTCCTCAAAGCTGGAGGCTTGAGTTTGGTTGTAAATGTCATGCAGAGAGATTCCATCCCATCAGAGGTGGACTATGAGACAAGGCAGGGTGTTTATTCTATCTGTCTACAACTTGCAAGGTTTTTACTTGTTGGACAGACAATGCCAACATCATTAGATGAAGACCTCACCAAAGATGGCATAGAAGCACTTTCTTCCCGTCCATTCCGAAATGTCAGCCGGCAGACGAGCAGACAGATGTCCCTATGTGGGACCCCAGAGAAGTCGTCCTACAGACAGCTGTCAGTGTCAGACAGGTCTTCCATTAGGGTTGAGGAAATCATTCCCGCTGCTCGAGTTGCAATACAAGTGTTAGATGTCCTCTGGGAGCTGGCTCACCTTCCCACCTTGCCCAGCAGCCTCATTCAGCAGGCCTTGGAGGAGCACCTCACCATCCTCAGTGACGCGTACGCAGTGAAGGAGGCGGTCAAGAGGAGCTACATCATTAAATGCATAGAAGACATTAAAAGGCCTGGAGAATGGTCGAGTTTGGAGAAAAACAAGAAAGATGGATTTAAGTCATCTCAACTTAATAATCCGCAGTTTGTGTGGGTGGTTCCAGCTTTACGTCAGCTTCATGAAATCACTCGTTCATTTATAAAACAAACCTATCAAAAGCAAGACAAGAGCATTATTCAAGACCTGAAGAAAAATTTTGAAATAGTCAAACTGGTAACGGGAAGCTTACTGGCTTGTCACCGACTTGCAGCAGCCGTGGCTGGGCCTGGAGGCTTAACCGGCTTAACATTGGTGGATGGCCGCTATACTTACCGGGAGTATTTAGAGGCACATCTGAAATTTCTGGCATTTTTCTTACAAGAAGCTACACTGTATCTTGGGTGGAACCGAGCCAAAGAAATTTGGGAGTGCCTTGTGACTGGCCAGGACGTCTGCGAGCTAGATAGAGAGATGTGCTTTGAGTGGTTTACAAAGGGGCAGCATGACCTGGAGAGTGACGTCCAGCAGCAGCTCTTCAAGGAGAAGATTCTGAAATTGGAGTCATATGAAATCACTATGAATGGTTTCAACTTATTTAAGACTTTTTTTGAAAATGTGAATCTCTGTGATCATCGGTTGAAAAGACAAGGAGCTCAGTTGTATGTAGAAAAGTTGGAGTTGGTAGGAATGGATTTCATTTGGAAAATTGCCATGGAATCACCTGATGAAGAAATTGCTAATGAAGCTATTCAATTAATCATAAACTACAGTTACATTAATCTAAACCCTAGGTTAAAGAAGGACTCAGTGTCTTTACATAAGAAATTCATTGCTGACTGCTATACAAGACTAGAAGCAGCCAGTTCAGCACTCGGTGGCCCCACTCTAACACATGCTGTGACCCGAGCAACCAAAATGCTCACTGCAACTGCCATGCCAACTGTAGCAACATCAGTTCAGTCTCCATATAGATCAACAAAACTTGTGATAATCGAGAGACTGCTGCTTCTGGCGGAGCGCTACGTGATCACAATAGAGGACTTCTACTCTGTCCCACGAACTATTCTACCTCATGGTGCCTCATTTCATGGACATCTTTTAACTCTTAATGTTACCTACGAGTCTACCAAAGATACCTTCACTGTAGAGGCTCACAGTAATGAGACGATAGGCAGCGTCCGCTGGAAGATAGCCAAACAGCTGTGCTCTCCTGTGGACAACATACAGATATTTACGAACGATAGTCTGCTGACTGTAAATAAAGATCAAAAGCTCCTCCACCAACTGGGGTTCTCTGATGAACAAGTTCTTACCGTGAAGACTTCTGGCAGTGGGACCCCCTCGGGGAGCTCTGCAGATTCCTCCACCAGCTCCAGCAGCAGCAGCAGTGGGGCCTTCAGTTCGTCCTACGCCATGGAACAGGAGAAATCTCTCCCTGGTGTGGTGATGGCACTTGTATGTAATGTGTTTGACATGCTGTACCAACTTGCCAACCTGGAGGAGCCAAGGATAACTCTACGAGTGCGGAAGCTTCTGCTCTTGATACCCACTGACCCAGCCATTCAGGAAGCCCTTGACCAGCTGGATTCTTTAGGCAGAAAGAAAACTTTGCTCTCTGAAACAAGCTCCCAGTCTTCAAAGTCTCCTTCGCTTTCGTCAAAGCAGCAGCATCAGCCAAGTGCCAGCTCCATCTTGGAAAGTTTGTTTCGATCTTTTGCTCCTGGCATGTCAACCTTCAGAGTGCTCTACAACTTGGAAGTCCTAAGCTCCAAACTCATGCCCACGGCTGATGACGACATGGCAAGAAGCTGCGCAAAGTCCTTCTGTGAGAACTTCCTCAAAGCTGGAGGCTTGAGTTTGGTTGTAAATGTCATGCAGAGAGATTCCATCCCATCAGAGGTGGACTATGAGACAAGGCAGGGTGTTTATTCTATCTGTCTACAACTTGCAAGGTTTTTACTTGTTGGACAGACAATGCCAACATCATTAGATGAAGACCTCACCAAAGATGGCATAGAAGCACTTTCTTCCCGTCCATTCCGAAATGTCAGCCGGCAGACGAGCAGACAGATGTCCCTATGTGGGACCCCAGAGAAGTCGTCCTACAGACAGCTGTCAGTGTCAGACAGGTCTTCCATTAGGGTTGAGGAAATCATTCCCGCTGCTCGAGTTGCAATACAA

Peptide sequence:

MCFEWFTKGQHDLESDVQQQLFKEKILKLESYEITMNGFNLFKTFFENVNLCDHRLKRQGAQLYVEKLELVGMDFIWKIAMESPDEEIANEAIQLIINYSYINLNPRLKKDSVSLHKKFIADCYTRLEAASSALGGPTLTHAVTRATKMLTATAMPTVATSVQSPYRSTKLVIIERLLLLAERYVITIEDFYSVPRTILPHGASFHGHLLTLNVTYESTKDTFTVEAHSNETIGSVRWKIAKQLCSPVDNIQIFTNDSLLTVNKDQKLLHQLGFSDEQVLTVKTSGSGTPSGSSADSSTSSSSSSSGAFSSSYAMEQEKSLPGVVMALVCNVFDMLYQLANLEEPRITLRVRKLLLLIPTDPAIQEALDQLDSLGRKKTLLSETSSQSSKSPSLSSKQQHQPSASSILESLFRSFAPGMSTFRVLYNLEVLSSKLMPTADDDMARSCAKSFCENFLKAGGLSLVVNVMQRDSIPSEVDYETRQGVYSICLQLARFLLVGQTMPTSLDEDLTKDGIEALSSRPFRNVSRQTSRQMSLCGTPEKSSYRQLSVSDRSSIRVEEIIPAARVAIQVLDVLWELAHLPTLPSSLIQQALEEHLTILSDAYAVKEAVKRSYIIKCIEDIKRPGEWSSLEKNKKDGFKSSQLNNPQFVWVVPALRQLHEITRSFIKQTYQKQDKSIIQDLKKNFEIVKLVTGSLLACHRLAAAVAGPGGLTGLTLVDGRYTYREYLEAHLKFLAFFLQEATLYLGWNRAKEIWECLVTGQDVCELDREMCFEWFTKGQHDLESDVQQQLFKEKILKLESYEITMNGFNLFKTFFENVNLCDHRLKRQGAQLYVEKLELVGMDFIWKIAMESPDEEIANEAIQLIINYSYINLNPRLKKDSVSLHKKFIADCYTRLEAASSALGGPTLTHAVTRATKMLTATAMPTVATSVQSPYRSTKLVIIERLLLLAERYVITIEDFYSVPRTILPHGASFHGHLLTLNVTYESTKDTFTVEAHSNETIGSVRWKIAKQLCSPVDNIQIFTNDSLLTVNKDQKLLHQLGFSDEQVLTVKTSGSGTPSGSSADSSTSSSSSSSGAFSSSYAMEQEKSLPGVVMALVCNVFDMLYQLANLEEPRITLRVRKLLLLIPTDPAIQEALDQLDSLGRKKTLLSETSSQSSKSPSLSSKQQHQPSASSILESLFRSFAPGMSTFRVLYNLEVLSSKLMPTADDDMARSCAKSFCENFLKAGGLSLVVNVMQRDSIPSEVDYETRQGVYSICLQLARFLLVGQTMPTSLDEDLTKDGIEALSSRPFRNVSRQTSRQMSLCGTPEKSSYRQLSVSDRSSIRVEEIIPAARVAIQ

IRESfinder result

IRESfinder score

0.631571258

IRES/non IRES

IRES

riboCIRC information

riboCIRC ID

NA

NA

Evidence
Peptide sequence:

NA

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Institute of Life sciences, Bhubaneswar, India

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