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mmu_circUsp16_1566
Basic information of circular RNA
PanCircBase ID:
mmu_circUsp16_1566
mm39_Chr. Position ID:
chr16|87266565|87276677|+
Gene name:
Usp16
Transcript:
ENSMUST00000119504.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
9
Exon/intron indexes:
6,7,8,9,10,11,12,13,14
Exon/intron offsets:
0,676,2034,2403,3429,4904,5739,7036,9448
Genomic length:
10112
Exon/intron sizes in nt:
1,85,96,13,18,87,99,25,00,00,000
Flanking exon/introns:
chr16:87263244-87266565|chr16:87276677-87277762
Splice length:
1566
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
AGAAAAATAATGGACACATTGAGCTCGAAAATAAAAAATTGGAGAAAGAGAGTAAAAATGAACAAGAGAGAGAGAAATCGGAAAACCTGGCTAAAGAAACTATTCCCATGGACTCTGCTTCCCAGATAACTGTGAAAGGACTCAGTAATTTGGGGAATACTTGTTTCTTCAATGCAGTTATGCAGAACTTGTCACAAACGCCAGTGCTTAGAGAACTACTAAAAGAAGTGAAGATGTCTGGAACGATTGTAAAAATAGAGCCACCTGATCTGGCACTAACAGAACCTTTAGAAGTAAACCTCGAGCCTCCAGGTCCTCTTACTTTAGCCATGAGCCAGTTTCTCAGTGAGATGCAAGAGAACAAAAAGCGAGTTGTGACACCTAAAGAGCTCTTTTCTCAGGTCTGTAAAAAAGCAACACGTTTTAAAGGGTACCAGCAACAAGACAGCCAGGAGCTGCTTCGCTACCTACTGGATGGGATGAGAGCGGAAGAACACCAAAGAGTGAGTAAAGGAATTCTTAAAGCATTTGGTAATTCTACTGAAAAATTGGATGAAGAAGTAAAAAATAAAGTTAAAGATTATGAAAAGAAAAAGGCAATCCCGAGTTTTGTGGACCGCATCTTTGGTGGCGAGCTGACTAGTACGATCATGTGTGATGAATGCAGGACTGTCTCCTTAGTGCATGAATCGTTCCTTGATTTGTCTCTTCCAGTTTTAGATGATCAGAGTGGTAAGAAAAGTATAAATGATAAAAATGTGAAAATGACAATGGAGGAAGAAGATAAAGACAGTGAGGAAGAGAAAGATGACAGCTACATGAAATCAAGGAGCGATCTTCCGTCAGGGACAAGCAAGCACCTACAGAAAAAGGCAAAGAAGCAGGCCAAAAAGCAGGCCAAGAACCAACGAAGGCAACAAAAAATTCAAGAAAGATTTCTTCACTTCAATGAGCTCTGCGCCACTGACTACACGGAAGACAATGAACGTGAAGCTGACACAGCACTTGCGGGAGAAGTGGAAGTGGATACCGACTCCACCCATGGTTCTCAAGAGGAGGCCACACAGATAGAGCTGTCTGTTAACCAGAAGGATTTGGATGGCCAAGAGAGCATGATAGAAAGGACACCTGATGTGCAGGAAAGCCCAGAGGACCTAGGAGTGAAAAGTGCTAACACCGAGAGTGATCTGGGGATTGTGACGCCTGCTCCTGAATGTCCTAGGGATTTCAATGGTGCCTTCCTGGAAGAAAGGACCAGTGGAGAACTAGACATTATCAATGGTTTAAAAAACCTTAATTTGAATGCTGCTGTTGATCCTGATGAAATAAATATAGAGATTCCGAATGACAGTCATTCTGCACCCAAGGTATATGAGGTCATGAACGAGGACCCAGAAACTGCTTTCTGTACCCTCGCGAACCGAGAAGCGTTTAGTACTGATGAGTGTTCCATTCAACATTGCTTATATCAGTTCACCCGGAATGAGAAACTTCAAGATGCCAATAAACTGCTTTGTGAAGTGTGTTCAAGACGGCAGTGTAATGGACCAAAGGCAAATATAAAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GTGAAGTGTGTTCAAGACGGC
60
AGCCAGGTTTTCCGATTTCTCT
59.96
143
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GAAGTGTGTTCAAGACGGCAG
59.74
AGCCAGGTTTTCCGATTTCTCT
59.96
141
PCR template sequence:
TATCAGTTCACCCGGAATGAGAAACTTCAAGATGCCAATAAACTGCTTTGTGAAGTGTGTTCAAGACGGCAGTGTAATGGACCAAAGGCAAATATAAAAGAGAAAAATAATGGACACATTGAGCTCGAAAATAAAAAATTGGAGAAAGAGAGTAAAAATGAACAAGAGAGAGAGAAATCGGAAAACCTGGCTAAAGAAAC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
16
Interacting miRNAs (#binding sites)
mmu-miR-9-5p(2), mmu-miR-124-3p(1), mmu-miR-16-5p(1), mmu-miR-15a-5p(1), mmu-miR-322-5p(1), mmu-miR-15b-5p(1), mmu-miR-29b-3p(1), mmu-miR-29a-3p(1), mmu-miR-29c-3p(1), mmu-miR-33-5p(1), mmu-miR-217-5p(1), mmu-miR-326-3p(1), mmu-miR-149-5p(1), mmu-miR-136-5p(1), mmu-miR-532-5p(1), mmu-miR-350-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GCAAATATAAAAGAGAAAAATAATGG
siRNA sets
TTTTCTCTTTTATATTTGC, TTTTTCTCTTTTATATTTG, TTATTTTTCTCTTTTATAT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCUSP16_1566_ORF_1
1.1014
0.186807014
0.999999996
3024
ORF sequence:
ATGGACTCTGCTTCCCAGATAACTGTGAAAGGACTCAGTAATTTGGGGAATACTTGTTTCTTCAATGCAGTTATGCAGAACTTGTCACAAACGCCAGTGCTTAGAGAACTACTAAAAGAAGTGAAGATGTCTGGAACGATTGTAAAAATAGAGCCACCTGATCTGGCACTAACAGAACCTTTAGAAGTAAACCTCGAGCCTCCAGGTCCTCTTACTTTAGCCATGAGCCAGTTTCTCAGTGAGATGCAAGAGAACAAAAAGCGAGTTGTGACACCTAAAGAGCTCTTTTCTCAGGTCTGTAAAAAAGCAACACGTTTTAAAGGGTACCAGCAACAAGACAGCCAGGAGCTGCTTCGCTACCTACTGGATGGGATGAGAGCGGAAGAACACCAAAGAGTGAGTAAAGGAATTCTTAAAGCATTTGGTAATTCTACTGAAAAATTGGATGAAGAAGTAAAAAATAAAGTTAAAGATTATGAAAAGAAAAAGGCAATCCCGAGTTTTGTGGACCGCATCTTTGGTGGCGAGCTGACTAGTACGATCATGTGTGATGAATGCAGGACTGTCTCCTTAGTGCATGAATCGTTCCTTGATTTGTCTCTTCCAGTTTTAGATGATCAGAGTGGTAAGAAAAGTATAAATGATAAAAATGTGAAAATGACAATGGAGGAAGAAGATAAAGACAGTGAGGAAGAGAAAGATGACAGCTACATGAAATCAAGGAGCGATCTTCCGTCAGGGACAAGCAAGCACCTACAGAAAAAGGCAAAGAAGCAGGCCAAAAAGCAGGCCAAGAACCAACGAAGGCAACAAAAAATTCAAGAAAGATTTCTTCACTTCAATGAGCTCTGCGCCACTGACTACACGGAAGACAATGAACGTGAAGCTGACACAGCACTTGCGGGAGAAGTGGAAGTGGATACCGACTCCACCCATGGTTCTCAAGAGGAGGCCACACAGATAGAGCTGTCTGTTAACCAGAAGGATTTGGATGGCCAAGAGAGCATGATAGAAAGGACACCTGATGTGCAGGAAAGCCCAGAGGACCTAGGAGTGAAAAGTGCTAACACCGAGAGTGATCTGGGGATTGTGACGCCTGCTCCTGAATGTCCTAGGGATTTCAATGGTGCCTTCCTGGAAGAAAGGACCAGTGGAGAACTAGACATTATCAATGGTTTAAAAAACCTTAATTTGAATGCTGCTGTTGATCCTGATGAAATAAATATAGAGATTCCGAATGACAGTCATTCTGCACCCAAGGTATATGAGGTCATGAACGAGGACCCAGAAACTGCTTTCTGTACCCTCGCGAACCGAGAAGCGTTTAGTACTGATGAGTGTTCCATTCAACATTGCTTATATCAGTTCACCCGGAATGAGAAACTTCAAGATGCCAATAAACTGCTTTGTGAAGTGTGTTCAAGACGGCAGTGTAATGGACCAAAGGCAAATATAAAAGAGAAAAATAATGGACACATTGAGCTCGAAAATAAAAAATTGGAGAAAGAGAGTAAAAATGAACAAGAGAGAGAGAAATCGGAAAACCTGGCTAAAGAAACTATTCCCATGGACTCTGCTTCCCAGATAACTGTGAAAGGACTCAGTAATTTGGGGAATACTTGTTTCTTCAATGCAGTTATGCAGAACTTGTCACAAACGCCAGTGCTTAGAGAACTACTAAAAGAAGTGAAGATGTCTGGAACGATTGTAAAAATAGAGCCACCTGATCTGGCACTAACAGAACCTTTAGAAGTAAACCTCGAGCCTCCAGGTCCTCTTACTTTAGCCATGAGCCAGTTTCTCAGTGAGATGCAAGAGAACAAAAAGCGAGTTGTGACACCTAAAGAGCTCTTTTCTCAGGTCTGTAAAAAAGCAACACGTTTTAAAGGGTACCAGCAACAAGACAGCCAGGAGCTGCTTCGCTACCTACTGGATGGGATGAGAGCGGAAGAACACCAAAGAGTGAGTAAAGGAATTCTTAAAGCATTTGGTAATTCTACTGAAAAATTGGATGAAGAAGTAAAAAATAAAGTTAAAGATTATGAAAAGAAAAAGGCAATCCCGAGTTTTGTGGACCGCATCTTTGGTGGCGAGCTGACTAGTACGATCATGTGTGATGAATGCAGGACTGTCTCCTTAGTGCATGAATCGTTCCTTGATTTGTCTCTTCCAGTTTTAGATGATCAGAGTGGTAAGAAAAGTATAAATGATAAAAATGTGAAAATGACAATGGAGGAAGAAGATAAAGACAGTGAGGAAGAGAAAGATGACAGCTACATGAAATCAAGGAGCGATCTTCCGTCAGGGACAAGCAAGCACCTACAGAAAAAGGCAAAGAAGCAGGCCAAAAAGCAGGCCAAGAACCAACGAAGGCAACAAAAAATTCAAGAAAGATTTCTTCACTTCAATGAGCTCTGCGCCACTGACTACACGGAAGACAATGAACGTGAAGCTGACACAGCACTTGCGGGAGAAGTGGAAGTGGATACCGACTCCACCCATGGTTCTCAAGAGGAGGCCACACAGATAGAGCTGTCTGTTAACCAGAAGGATTTGGATGGCCAAGAGAGCATGATAGAAAGGACACCTGATGTGCAGGAAAGCCCAGAGGACCTAGGAGTGAAAAGTGCTAACACCGAGAGTGATCTGGGGATTGTGACGCCTGCTCCTGAATGTCCTAGGGATTTCAATGGTGCCTTCCTGGAAGAAAGGACCAGTGGAGAACTAGACATTATCAATGGTTTAAAAAACCTTAATTTGAATGCTGCTGTTGATCCTGATGAAATAAATATAGAGATTCCGAATGACAGTCATTCTGCACCCAAGGTATATGAGGTCATGAACGAGGACCCAGAAACTGCTTTCTGTACCCTCGCGAACCGAGAAGCGTTTAGTACTGATGAGTGTTCCATTCAACATTGCTTATATCAGTTCACCCGGAATGAGAAACTTCAAGATGCCAATAAACTGCTTTGTGAAGTGTGTTCAAGACGGCAGTGTAATGGACCAAAGGCAAATATAAAA
Peptide sequence:
MDSASQITVKGLSNLGNTCFFNAVMQNLSQTPVLRELLKEVKMSGTIVKIEPPDLALTEPLEVNLEPPGPLTLAMSQFLSEMQENKKRVVTPKELFSQVCKKATRFKGYQQQDSQELLRYLLDGMRAEEHQRVSKGILKAFGNSTEKLDEEVKNKVKDYEKKKAIPSFVDRIFGGELTSTIMCDECRTVSLVHESFLDLSLPVLDDQSGKKSINDKNVKMTMEEEDKDSEEEKDDSYMKSRSDLPSGTSKHLQKKAKKQAKKQAKNQRRQQKIQERFLHFNELCATDYTEDNEREADTALAGEVEVDTDSTHGSQEEATQIELSVNQKDLDGQESMIERTPDVQESPEDLGVKSANTESDLGIVTPAPECPRDFNGAFLEERTSGELDIINGLKNLNLNAAVDPDEINIEIPNDSHSAPKVYEVMNEDPETAFCTLANREAFSTDECSIQHCLYQFTRNEKLQDANKLLCEVCSRRQCNGPKANIKEKNNGHIELENKKLEKESKNEQEREKSENLAKETIPMDSASQITVKGLSNLGNTCFFNAVMQNLSQTPVLRELLKEVKMSGTIVKIEPPDLALTEPLEVNLEPPGPLTLAMSQFLSEMQENKKRVVTPKELFSQVCKKATRFKGYQQQDSQELLRYLLDGMRAEEHQRVSKGILKAFGNSTEKLDEEVKNKVKDYEKKKAIPSFVDRIFGGELTSTIMCDECRTVSLVHESFLDLSLPVLDDQSGKKSINDKNVKMTMEEEDKDSEEEKDDSYMKSRSDLPSGTSKHLQKKAKKQAKKQAKNQRRQQKIQERFLHFNELCATDYTEDNEREADTALAGEVEVDTDSTHGSQEEATQIELSVNQKDLDGQESMIERTPDVQESPEDLGVKSANTESDLGIVTPAPECPRDFNGAFLEERTSGELDIINGLKNLNLNAAVDPDEINIEIPNDSHSAPKVYEVMNEDPETAFCTLANREAFSTDECSIQHCLYQFTRNEKLQDANKLLCEVCSRRQCNGPKANIK
IRESfinder result
IRESfinder score
0.495463819
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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