top of page
mmu_circUsp9x_1631
Basic information of circular RNA
PanCircBase ID:
mmu_circUsp9x_1631
mm39_Chr. Position ID:
chrX|13001182|13017682|+
Gene name:
Usp9x
Transcript:
ENSMUST00000089302.11
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
10
Exon/intron indexes:
24,25,26,27,28,29,30,31,32,33
Exon/intron offsets:
0,1501,2664,5165,5466,6763,9342,10183,13001,16326
Genomic length:
16500
Exon/intron sizes in nt:
1,26,12,61,67,10,91,47,00,00,00,00,00,00,000
Flanking exon/introns:
chrX:12998587-13001182|chrX:13017682-13020330
Splice length:
1631
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTCAACCAAGTAACTCATGATCAAGCAGTGGTGCTACAAAGTGCCCTTCAGAGCATTCCTAACCCATCATCTGAATGCATGCTTAGAAACGTGTCTGTTCGCCTTGCTCAGCAGATTTCTGATGAGGCTTCAAGATATATGCCTGATATTTGTGTAATTAGAGCTATACAAAAAATTATTTGGACATCAGGATGTGGAGGATTACAGCTGGTATTCAGCCCAAATGAAGAAGTGACAAAAATTTATGAGAAGACCAATGCAGGCAATGAGCCAGACCTCGAAGATGAACAGGTTTGCTGTGAAGCATTGGAGGTGATGACACTGTGTTTCGCCTTGATTCCAACAGCCTTAGATGCTCTAAGTAAAGAAAAAGCTTGGCAGACATTTATTATTGACTTACTGTTGCACTGTCACAGCAAAACTGTTCGTCAAGTGGCACAGGAACAATTCTTCTTAATGTGCACCAGATGTTGCATGGGGCACAGGCCTCTACTTTTCTTCATTACGCTGCTCTTTACTGTTTTGGGGAGCACAGCCAGAGAGAGGGCTAAACACTCAGGCGACTACTTTACTCTTTTAAGACATCTTCTTAATTACGCCTACAACAGTAACATTAATGTGCCCAATGCTGAAGTTCTTCTAAATAATGAAATTGATTGGCTTAAAAGAATTAGGGATGATGTTAAAAGGACAGGTGAAACAGGTGTTGAGGAGACAATCTTAGAAGGACACCTTGGGGTTACAAAGGAGCTACTGGCTTTTCAGACTCCTGAGAAAAAGTTTCATATTGGTTGTGAAAAGGGAGGTGCTAATCTCATTAAAGAATTAATCGACGACTTCATCTTTCCCGCATCCAATGTTTACCTGCAGTATATGAGAAATGGAGAACTCCCTGCTGAGCAGGCCATTCCTGTGTGTGGTTCACCAGCCACAATTAATGCTGGTTTTGAGTTACTTGTGGCATTAGCTGTTGGCTGTGTGAGGAACCTCAAACAGATAGTAGATTCTTTGACTGAAATGTATTACATTGGTACAGCAATAACTACTTGTGAAGCACTTACTGAGTGGGAATACCTGCCACCCGTTGGACCCCGTCCACCAAAAGGATTTGTGGGGCTGAAAAATGCTGGTGCTACTTGTTACATGAACTCTGTGATCCAGCAACTCTATATGATCCCCTCTATCAGGAATGGTATTCTTGCCATAGAAGGCACAGGTAGTGATGTAGATGATGATATGTCTGGGGATGAGAAGCAGGACAACGAGAGCAATGTTGATCCCAGGGATGATGTGTTTGGATATCCTCAACAATTTGAAGACAAACCACCACTGAGTAAAACAGAAGATAGGAAAGAGTACAATATTGGTGTTCTAAGACACCTTCAGGTTATCTTTGGCCATTTAGCTGCTTCTCGACTACAGTACTATGTGCCTAGAGGATTTTGGAAACAGTTCAGGCTTTGGGGTGAGCCTGTCAATCTTCGTGAACAACATGATGCTTTAGAGTTCTTTAATTCTTTGGTGGATAGTTTAGATGAAGCTTTAAAAGCCTTAGGGCATCCAGCTATGCTAAGTAAAGTCTTGGGAGGTTCCTTTGCTGATCAGAAAATTTGCCAAGGCTGCCCACATAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCTTAGGGCATCCAGCTATG
57.51
GGAATGCTCTGAAGGGCACT
60.03
141
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCTTAGGGCATCCAGCTATG
57.51
AGGAATGCTCTGAAGGGCAC
60.03
142
PCR template sequence:
TAGATGAAGCTTTAAAAGCCTTAGGGCATCCAGCTATGCTAAGTAAAGTCTTGGGAGGTTCCTTTGCTGATCAGAAAATTTGCCAAGGCTGCCCACATAGGTCAACCAAGTAACTCATGATCAAGCAGTGGTGCTACAAAGTGCCCTTCAGAGCATTCCTAACCCATCATCTGAATGCATGCTTAGAAACGTGTCTGTTC
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-137-3p(1), mmu-miR-150-5p(1), mmu-miR-204-5p(1), mmu-miR-29b-3p(1), mmu-miR-29c-3p(1), mmu-miR-130a-3p(1), mmu-miR-152-3p(1), mmu-miR-148b-3p(1), mmu-miR-148a-3p(1), mmu-miR-149-5p(1), mmu-miR-136-5p(1), mmu-miR-26b-5p(1), mmu-miR-411-3p(1), mmu-miR-130b-3p(1), mmu-miR-301b-3p(1), mmu-miR-467b-5p(1), mmu-miR-301a-3p(1), mmu-miR-342-3p(1), mmu-miR-673-5p(1), mmu-miR-484(1), mmu-miR-697(1), mmu-miR-338-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GCTGCCCACATAGGTCAACCAAGTAA
siRNA sets
TTACTTGGTTGACCTATGT, CTTGGTTGACCTATGTGGG, TTGGTTGACCTATGTGGGC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCUSP9X_1631_ORF_1
1.002
0.023370979
0.999644047
1566
ORF sequence:
ATGCTTAGAAACGTGTCTGTTCGCCTTGCTCAGCAGATTTCTGATGAGGCTTCAAGATATATGCCTGATATTTGTGTAATTAGAGCTATACAAAAAATTATTTGGACATCAGGATGTGGAGGATTACAGCTGGTATTCAGCCCAAATGAAGAAGTGACAAAAATTTATGAGAAGACCAATGCAGGCAATGAGCCAGACCTCGAAGATGAACAGGTTTGCTGTGAAGCATTGGAGGTGATGACACTGTGTTTCGCCTTGATTCCAACAGCCTTAGATGCTCTAAGTAAAGAAAAAGCTTGGCAGACATTTATTATTGACTTACTGTTGCACTGTCACAGCAAAACTGTTCGTCAAGTGGCACAGGAACAATTCTTCTTAATGTGCACCAGATGTTGCATGGGGCACAGGCCTCTACTTTTCTTCATTACGCTGCTCTTTACTGTTTTGGGGAGCACAGCCAGAGAGAGGGCTAAACACTCAGGCGACTACTTTACTCTTTTAAGACATCTTCTTAATTACGCCTACAACAGTAACATTAATGTGCCCAATGCTGAAGTTCTTCTAAATAATGAAATTGATTGGCTTAAAAGAATTAGGGATGATGTTAAAAGGACAGGTGAAACAGGTGTTGAGGAGACAATCTTAGAAGGACACCTTGGGGTTACAAAGGAGCTACTGGCTTTTCAGACTCCTGAGAAAAAGTTTCATATTGGTTGTGAAAAGGGAGGTGCTAATCTCATTAAAGAATTAATCGACGACTTCATCTTTCCCGCATCCAATGTTTACCTGCAGTATATGAGAAATGGAGAACTCCCTGCTGAGCAGGCCATTCCTGTGTGTGGTTCACCAGCCACAATTAATGCTGGTTTTGAGTTACTTGTGGCATTAGCTGTTGGCTGTGTGAGGAACCTCAAACAGATAGTAGATTCTTTGACTGAAATGTATTACATTGGTACAGCAATAACTACTTGTGAAGCACTTACTGAGTGGGAATACCTGCCACCCGTTGGACCCCGTCCACCAAAAGGATTTGTGGGGCTGAAAAATGCTGGTGCTACTTGTTACATGAACTCTGTGATCCAGCAACTCTATATGATCCCCTCTATCAGGAATGGTATTCTTGCCATAGAAGGCACAGGTAGTGATGTAGATGATGATATGTCTGGGGATGAGAAGCAGGACAACGAGAGCAATGTTGATCCCAGGGATGATGTGTTTGGATATCCTCAACAATTTGAAGACAAACCACCACTGAGTAAAACAGAAGATAGGAAAGAGTACAATATTGGTGTTCTAAGACACCTTCAGGTTATCTTTGGCCATTTAGCTGCTTCTCGACTACAGTACTATGTGCCTAGAGGATTTTGGAAACAGTTCAGGCTTTGGGGTGAGCCTGTCAATCTTCGTGAACAACATGATGCTTTAGAGTTCTTTAATTCTTTGGTGGATAGTTTAGATGAAGCTTTAAAAGCCTTAGGGCATCCAGCTATGCTAAGTAAAGTCTTGGGAGGTTCCTTTGCTGATCAGAAAATTTGCCAAGGCTGCCCACATAGGTCAACCAAGTAA
Peptide sequence:
MLRNVSVRLAQQISDEASRYMPDICVIRAIQKIIWTSGCGGLQLVFSPNEEVTKIYEKTNAGNEPDLEDEQVCCEALEVMTLCFALIPTALDALSKEKAWQTFIIDLLLHCHSKTVRQVAQEQFFLMCTRCCMGHRPLLFFITLLFTVLGSTARERAKHSGDYFTLLRHLLNYAYNSNINVPNAEVLLNNEIDWLKRIRDDVKRTGETGVEETILEGHLGVTKELLAFQTPEKKFHIGCEKGGANLIKELIDDFIFPASNVYLQYMRNGELPAEQAIPVCGSPATINAGFELLVALAVGCVRNLKQIVDSLTEMYYIGTAITTCEALTEWEYLPPVGPRPPKGFVGLKNAGATCYMNSVIQQLYMIPSIRNGILAIEGTGSDVDDDMSGDEKQDNESNVDPRDDVFGYPQQFEDKPPLSKTEDRKEYNIGVLRHLQVIFGHLAASRLQYYVPRGFWKQFRLWGEPVNLREQHDALEFFNSLVDSLDEALKALGHPAMLSKVLGGSFADQKICQGCPHRSTK
IRESfinder result
IRESfinder score
0.712585912
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page