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mmu_circUsp34_1983
Basic information of circular RNA
PanCircBase ID:
mmu_circUsp34_1983
mm39_Chr. Position ID:
chr11|23332553|23369131|+
Gene name:
Usp34
Transcript:
ENSMUST00000180046.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
16
Exon/intron indexes:
23,24,25,26,27,28,29,30,31,32,33,34,35,36,37,38
Exon/intron offsets:
0,1847,2459,5880,6110,10288,11198,18899,21006,21258,23313,29661,32182,34909,35095,36425
Genomic length:
36578
Exon/intron sizes in nt:
114,100,160,127,148,101,210,126,123,84,87,201,83,41,125,153
Flanking exon/introns:
chr11:23331379-23332553|chr11:23369131-23370039
Splice length:
1983
Other database IDs:
circAtlas: mmu-Usp34_0142
Human Ortholog IDs:
Mature spliced Sequence:
ATGCCCCAGCTTAAACCTGAAACAATTAGCATGACTGGCTTAAACCTGTTTCAGCATCTTTGTAACTTGGCTCGATTGGCTACCAGTGCCTATGATGGTGGCTCAAACTCTGAGCTGTGTGGTATGGACCAATTTTGGGGTATTGCATTAAGAGCACAATCAGGTGATGTCAGTAGAGCTGCTATTCAGTATATTAACTCCTACTATATTAATGGTAAAACGGGTTTGGAAAAGGAGCAAGAATTTATTAGTAAGTGCATGGAAAGTCTCATGATAGCTTCTAGCAGTCTTGAACAAGAATCACACTCAAGTCTCACAGTTATAGAACGAGGATTGCTTATGCTGAAGACACATCTGGAAGCATTTAGGAGAAGGTTTGCATATCATCTGAGACAGTGGCAGATTGAGGGCACCGGTATTAGCAGTCACTTGAAAGCACTGAGTGACAAACAGTCTTTGCCTCTAAGGGTTGTATGTCAGCCTGCTGGACTTCCCGACAAGATGACTATTGAAATGTATCCAAGTGACCAGGTAGCAGATCTTCGTGCTGAAGTAACTCACTGGTATGAAAACTTACAGAAAGAACAAATAAATCAACAAGCTCAGCTTCAGGAGTTTGGTCAAAGCAGCAGAAAGGGAGAGTTTCCTGGTGGCCTCATGGGGCCTGTCAGGATGATCTCCTCTGGACATGAATTAACAACAGACTATGATGAAAAAGCACTTCATGAACTTGGTTTTAAAGATATGCAGATGGTGTTTGTATCTTTGGGTGCACCAAGAAGAGAAAGAAAAGGAGAAGGGGTTCAACTGCCTGCATCTTGCCTCCCACCACCTCAGAAGGACAACATTCCGATGCTTTTGCTGTTACAAGAACCTCATTTAACTACTCTCTTTGATTTATTAGAAATGCTTGCTTCATTTAAACCACCCTCAGGAAAAGTTGCAGTTGATGACAGTGAGAGTTTAAAATGTGAAGAACTTCATCTTCATGCAGAAAATCTTTCAAGGCGTGTCTGGGAGTTGCTGATGCTTCTTCCGACTTGTCCCAACATGCTGACGGCATTCCAGAATGTCTCAGACGAGCAGAGCAATGATGGACTTAATTGGAAGGAACTTCTCAAAATTAAGAGTGCTCATAAGTTGTTATATGCTCTTGAGATTATTGAAGCACTAGGAAAACCTAACAGAAGAATAAGAAGAGAGTCAACGGGAAGTTACAGTGATCTTTATCCAGATTCTGATGATTCAAGTGAAGATCAAGTGGAAAACAGTAAAAATTCCTGGACTTGCAAGTTTGTTGCTGCTGGCGGGCTTCAGCAGTTACTAGAAATTTTTAATTCTGCGATTCTAGAGCCTAAAGAGCAAGAATCATGGACTGTGTGGCAGCTGGATTGTCTTGCTTGCTTGCTGAAATTAATCTGCCAGTTTGCAGTAGATCCGTCAGATTTGGATTTAGCTTATCATGATGTTTTTGCCTGGTCTGGCATAGCCGAAAGCCATAGGAAAAGAACCTGGCCTGGAAAATCAAGAAAGGCTGCTGGTGATCATGCCAAGAGTCTTCATATACCACGATTAACAGAGGTGTTTCTTGTGCTTGTCCAAGGAACCAGTTTGATTCAGCGACTTATGTCTGTTGCTTATACGTATGATAATCTGGCTCCTAGAGTTTTGAAAGCTCAGTCTGATCATAGGTCTAGACATGAAGTGTCCCATTATTCAATGTGGCTCTTGGTGAGCTGGGCTCATTGCTGCTCTTTAGTCAAGTCTAGTCTTGCCGACAGTGATCATTTACAAGATTGGCTAAAACAGCTGACTCTCCTTATTCCCGAGACTGCAGTTCGCCATGAATCTTGCAATGGTCTCTATAAGCTATCTCTGTCAGGCCTAGATGGAGGAGACTCAATCCATCGATCCTTCCTTCTTTTGGCTGCCTCAACATTATTGAAATTCCTTCCTGATGCTCAAGCACTCAAACCTCCAAGG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCCTTCTTTTGGCTGCCTCA
59.52
GGTAGCCAATCGAGCCAAGT
60.11
152
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCCTTCTTTTGGCTGCCTCA
59.52
TGGTAGCCAATCGAGCCAAG
60.11
153
PCR template sequence:
CCTAGATGGAGGAGACTCAATCCATCGATCCTTCCTTCTTTTGGCTGCCTCAACATTATTGAAATTCCTTCCTGATGCTCAAGCACTCAAACCTCCAAGGATGCCCCAGCTTAAACCTGAAACAATTAGCATGACTGGCTTAAACCTGTTTCAGCATCTTTGTAACTTGGCTCGATTGGCTACCAGTGCCTATGATGGTG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
22
Interacting miRNAs (#binding sites)
mmu-miR-322-5p(2), mmu-miR-335-5p(2), mmu-miR-214-3p(2), mmu-miR-207(2), mmu-miR-1904(2), mmu-miR-134-5p(1), mmu-miR-16-5p(1), mmu-miR-15a-5p(1), mmu-miR-221-3p(1), mmu-miR-135a-5p(1), mmu-miR-31-5p(1), mmu-miR-211-5p(1), mmu-miR-204-5p(1), mmu-miR-29a-3p(1), mmu-miR-222-3p(1), mmu-miR-433-3p(1), mmu-miR-194-5p(1), mmu-miR-215-5p(1), mmu-miR-705(1), mmu-miR-410-3p(1), mmu-miR-344d-3p(1), mmu-miR-335-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CAAACCTCCAAGGATGCCCCAGCTTA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCUSP34_1983_ORF_1
0.8932
-0.02911429
1
3966
ORF sequence:
ATGCCCCAGCTTAAACCTGAAACAATTAGCATGACTGGCTTAAACCTGTTTCAGCATCTTTGTAACTTGGCTCGATTGGCTACCAGTGCCTATGATGGTGGCTCAAACTCTGAGCTGTGTGGTATGGACCAATTTTGGGGTATTGCATTAAGAGCACAATCAGGTGATGTCAGTAGAGCTGCTATTCAGTATATTAACTCCTACTATATTAATGGTAAAACGGGTTTGGAAAAGGAGCAAGAATTTATTAGTAAGTGCATGGAAAGTCTCATGATAGCTTCTAGCAGTCTTGAACAAGAATCACACTCAAGTCTCACAGTTATAGAACGAGGATTGCTTATGCTGAAGACACATCTGGAAGCATTTAGGAGAAGGTTTGCATATCATCTGAGACAGTGGCAGATTGAGGGCACCGGTATTAGCAGTCACTTGAAAGCACTGAGTGACAAACAGTCTTTGCCTCTAAGGGTTGTATGTCAGCCTGCTGGACTTCCCGACAAGATGACTATTGAAATGTATCCAAGTGACCAGGTAGCAGATCTTCGTGCTGAAGTAACTCACTGGTATGAAAACTTACAGAAAGAACAAATAAATCAACAAGCTCAGCTTCAGGAGTTTGGTCAAAGCAGCAGAAAGGGAGAGTTTCCTGGTGGCCTCATGGGGCCTGTCAGGATGATCTCCTCTGGACATGAATTAACAACAGACTATGATGAAAAAGCACTTCATGAACTTGGTTTTAAAGATATGCAGATGGTGTTTGTATCTTTGGGTGCACCAAGAAGAGAAAGAAAAGGAGAAGGGGTTCAACTGCCTGCATCTTGCCTCCCACCACCTCAGAAGGACAACATTCCGATGCTTTTGCTGTTACAAGAACCTCATTTAACTACTCTCTTTGATTTATTAGAAATGCTTGCTTCATTTAAACCACCCTCAGGAAAAGTTGCAGTTGATGACAGTGAGAGTTTAAAATGTGAAGAACTTCATCTTCATGCAGAAAATCTTTCAAGGCGTGTCTGGGAGTTGCTGATGCTTCTTCCGACTTGTCCCAACATGCTGACGGCATTCCAGAATGTCTCAGACGAGCAGAGCAATGATGGACTTAATTGGAAGGAACTTCTCAAAATTAAGAGTGCTCATAAGTTGTTATATGCTCTTGAGATTATTGAAGCACTAGGAAAACCTAACAGAAGAATAAGAAGAGAGTCAACGGGAAGTTACAGTGATCTTTATCCAGATTCTGATGATTCAAGTGAAGATCAAGTGGAAAACAGTAAAAATTCCTGGACTTGCAAGTTTGTTGCTGCTGGCGGGCTTCAGCAGTTACTAGAAATTTTTAATTCTGCGATTCTAGAGCCTAAAGAGCAAGAATCATGGACTGTGTGGCAGCTGGATTGTCTTGCTTGCTTGCTGAAATTAATCTGCCAGTTTGCAGTAGATCCGTCAGATTTGGATTTAGCTTATCATGATGTTTTTGCCTGGTCTGGCATAGCCGAAAGCCATAGGAAAAGAACCTGGCCTGGAAAATCAAGAAAGGCTGCTGGTGATCATGCCAAGAGTCTTCATATACCACGATTAACAGAGGTGTTTCTTGTGCTTGTCCAAGGAACCAGTTTGATTCAGCGACTTATGTCTGTTGCTTATACGTATGATAATCTGGCTCCTAGAGTTTTGAAAGCTCAGTCTGATCATAGGTCTAGACATGAAGTGTCCCATTATTCAATGTGGCTCTTGGTGAGCTGGGCTCATTGCTGCTCTTTAGTCAAGTCTAGTCTTGCCGACAGTGATCATTTACAAGATTGGCTAAAACAGCTGACTCTCCTTATTCCCGAGACTGCAGTTCGCCATGAATCTTGCAATGGTCTCTATAAGCTATCTCTGTCAGGCCTAGATGGAGGAGACTCAATCCATCGATCCTTCCTTCTTTTGGCTGCCTCAACATTATTGAAATTCCTTCCTGATGCTCAAGCACTCAAACCTCCAAGGATGCCCCAGCTTAAACCTGAAACAATTAGCATGACTGGCTTAAACCTGTTTCAGCATCTTTGTAACTTGGCTCGATTGGCTACCAGTGCCTATGATGGTGGCTCAAACTCTGAGCTGTGTGGTATGGACCAATTTTGGGGTATTGCATTAAGAGCACAATCAGGTGATGTCAGTAGAGCTGCTATTCAGTATATTAACTCCTACTATATTAATGGTAAAACGGGTTTGGAAAAGGAGCAAGAATTTATTAGTAAGTGCATGGAAAGTCTCATGATAGCTTCTAGCAGTCTTGAACAAGAATCACACTCAAGTCTCACAGTTATAGAACGAGGATTGCTTATGCTGAAGACACATCTGGAAGCATTTAGGAGAAGGTTTGCATATCATCTGAGACAGTGGCAGATTGAGGGCACCGGTATTAGCAGTCACTTGAAAGCACTGAGTGACAAACAGTCTTTGCCTCTAAGGGTTGTATGTCAGCCTGCTGGACTTCCCGACAAGATGACTATTGAAATGTATCCAAGTGACCAGGTAGCAGATCTTCGTGCTGAAGTAACTCACTGGTATGAAAACTTACAGAAAGAACAAATAAATCAACAAGCTCAGCTTCAGGAGTTTGGTCAAAGCAGCAGAAAGGGAGAGTTTCCTGGTGGCCTCATGGGGCCTGTCAGGATGATCTCCTCTGGACATGAATTAACAACAGACTATGATGAAAAAGCACTTCATGAACTTGGTTTTAAAGATATGCAGATGGTGTTTGTATCTTTGGGTGCACCAAGAAGAGAAAGAAAAGGAGAAGGGGTTCAACTGCCTGCATCTTGCCTCCCACCACCTCAGAAGGACAACATTCCGATGCTTTTGCTGTTACAAGAACCTCATTTAACTACTCTCTTTGATTTATTAGAAATGCTTGCTTCATTTAAACCACCCTCAGGAAAAGTTGCAGTTGATGACAGTGAGAGTTTAAAATGTGAAGAACTTCATCTTCATGCAGAAAATCTTTCAAGGCGTGTCTGGGAGTTGCTGATGCTTCTTCCGACTTGTCCCAACATGCTGACGGCATTCCAGAATGTCTCAGACGAGCAGAGCAATGATGGACTTAATTGGAAGGAACTTCTCAAAATTAAGAGTGCTCATAAGTTGTTATATGCTCTTGAGATTATTGAAGCACTAGGAAAACCTAACAGAAGAATAAGAAGAGAGTCAACGGGAAGTTACAGTGATCTTTATCCAGATTCTGATGATTCAAGTGAAGATCAAGTGGAAAACAGTAAAAATTCCTGGACTTGCAAGTTTGTTGCTGCTGGCGGGCTTCAGCAGTTACTAGAAATTTTTAATTCTGCGATTCTAGAGCCTAAAGAGCAAGAATCATGGACTGTGTGGCAGCTGGATTGTCTTGCTTGCTTGCTGAAATTAATCTGCCAGTTTGCAGTAGATCCGTCAGATTTGGATTTAGCTTATCATGATGTTTTTGCCTGGTCTGGCATAGCCGAAAGCCATAGGAAAAGAACCTGGCCTGGAAAATCAAGAAAGGCTGCTGGTGATCATGCCAAGAGTCTTCATATACCACGATTAACAGAGGTGTTTCTTGTGCTTGTCCAAGGAACCAGTTTGATTCAGCGACTTATGTCTGTTGCTTATACGTATGATAATCTGGCTCCTAGAGTTTTGAAAGCTCAGTCTGATCATAGGTCTAGACATGAAGTGTCCCATTATTCAATGTGGCTCTTGGTGAGCTGGGCTCATTGCTGCTCTTTAGTCAAGTCTAGTCTTGCCGACAGTGATCATTTACAAGATTGGCTAAAACAGCTGACTCTCCTTATTCCCGAGACTGCAGTTCGCCATGAATCTTGCAATGGTCTCTATAAGCTATCTCTGTCAGGCCTAGATGGAGGAGACTCAATCCATCGATCCTTCCTTCTTTTGGCTGCCTCAACATTATTGAAATTCCTTCCTGATGCTCAAGCACTCAAACCTCCAAGG
Peptide sequence:
MPQLKPETISMTGLNLFQHLCNLARLATSAYDGGSNSELCGMDQFWGIALRAQSGDVSRAAIQYINSYYINGKTGLEKEQEFISKCMESLMIASSSLEQESHSSLTVIERGLLMLKTHLEAFRRRFAYHLRQWQIEGTGISSHLKALSDKQSLPLRVVCQPAGLPDKMTIEMYPSDQVADLRAEVTHWYENLQKEQINQQAQLQEFGQSSRKGEFPGGLMGPVRMISSGHELTTDYDEKALHELGFKDMQMVFVSLGAPRRERKGEGVQLPASCLPPPQKDNIPMLLLLQEPHLTTLFDLLEMLASFKPPSGKVAVDDSESLKCEELHLHAENLSRRVWELLMLLPTCPNMLTAFQNVSDEQSNDGLNWKELLKIKSAHKLLYALEIIEALGKPNRRIRRESTGSYSDLYPDSDDSSEDQVENSKNSWTCKFVAAGGLQQLLEIFNSAILEPKEQESWTVWQLDCLACLLKLICQFAVDPSDLDLAYHDVFAWSGIAESHRKRTWPGKSRKAAGDHAKSLHIPRLTEVFLVLVQGTSLIQRLMSVAYTYDNLAPRVLKAQSDHRSRHEVSHYSMWLLVSWAHCCSLVKSSLADSDHLQDWLKQLTLLIPETAVRHESCNGLYKLSLSGLDGGDSIHRSFLLLAASTLLKFLPDAQALKPPRMPQLKPETISMTGLNLFQHLCNLARLATSAYDGGSNSELCGMDQFWGIALRAQSGDVSRAAIQYINSYYINGKTGLEKEQEFISKCMESLMIASSSLEQESHSSLTVIERGLLMLKTHLEAFRRRFAYHLRQWQIEGTGISSHLKALSDKQSLPLRVVCQPAGLPDKMTIEMYPSDQVADLRAEVTHWYENLQKEQINQQAQLQEFGQSSRKGEFPGGLMGPVRMISSGHELTTDYDEKALHELGFKDMQMVFVSLGAPRRERKGEGVQLPASCLPPPQKDNIPMLLLLQEPHLTTLFDLLEMLASFKPPSGKVAVDDSESLKCEELHLHAENLSRRVWELLMLLPTCPNMLTAFQNVSDEQSNDGLNWKELLKIKSAHKLLYALEIIEALGKPNRRIRRESTGSYSDLYPDSDDSSEDQVENSKNSWTCKFVAAGGLQQLLEIFNSAILEPKEQESWTVWQLDCLACLLKLICQFAVDPSDLDLAYHDVFAWSGIAESHRKRTWPGKSRKAAGDHAKSLHIPRLTEVFLVLVQGTSLIQRLMSVAYTYDNLAPRVLKAQSDHRSRHEVSHYSMWLLVSWAHCCSLVKSSLADSDHLQDWLKQLTLLIPETAVRHESCNGLYKLSLSGLDGGDSIHRSFLLLAASTLLKFLPDAQALKPPR
IRESfinder result
IRESfinder score
0.740909621
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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