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mmu_circFbxo38_2913
Basic information of circular RNA
PanCircBase ID:
mmu_circFbxo38_2913
mm39_Chr. Position ID:
chr18|62643780|62674117|-
Gene name:
Fbxo38
Transcript:
ENSMUST00000048688.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
16
Exon/intron indexes:
17,16,15,14,13,12,11,10,9,8,7,6,5,4,3,2
Exon/intron offsets:
0,304,4085,6254,7782,9044,9973,11640,15422,16467,18842,19979,22799,23191,25406,30171
Genomic length:
30337
Exon/intron sizes in nt:
10,31,01,75,01,80,12,00,00,00,00,00,00,00,00,00,00,00,00,00,00,00,000
Flanking exon/introns:
chr18:62641071-62643780|chr18:62674117-62681682
Splice length:
2913
Other database IDs:
circAtlas: mmu-Fbxo38_0004
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_50745
Human Ortholog IDs:
Mature spliced Sequence:
GTATTTTGAACTAACTTTGACACTGAGGGAGCACAGCCATGGGACCACGAAAGAAAAGTGCTAAAGTGTGTGTGATGGACAGTGAGGTCGCTGAGGAAATGACAGCCGATGAAGAGAAGGACTACATGAACCAGCTGTCACATGAAGTGCTCTGTCATATCTTCAGGTACCTGCCACTACAGGACATCATGTGCATGGAATGCCTCTCTCGGAAGCTAAAGGAGGCAGTCACTCTGTATCTGAGAGTTGTCAGAGTGGTGGATCTCTGTGCAGGGCGCTGGTGGGAATATATGCCAAGTGGCTTCACAGATTCCAGTTTCCTAACCCTTTTGAAGAAGATGCCAGATGTTGAACAGCTGTATGGCCTTCACCCTAGATACCTCGAGAGGCGAAGAGTGAGGGGCCAGGAGGCTTTCAGCATCCCAGGAGTCTTGGAAGCTTTGCAAGCGTGCCCAAACTTGGTGGGTGTAGAAACATCTCATTTGGAGTTGGTAGAATCCATTTGGACATATATGCCGCATGTTCATATTTTGGGGAAATTTCGTAATCGTAACGGAGCATTTCCGATTCCTCCTGAAAATAAACTGAAAATCCCCATAGGAGCCAAAATCCAAACTTTGCATTTAGTTGGTGTCAATGTTCCTGAAATCCCTTGTATCCCTATGCTAAGGCACCTGTACATGAAGTGGGTGAGACTCACTAAACCACAGCCGTTTAAAGATTTCCTTTGCATCAGCTTGCGAACTTTTGTCATGAGGAACTGTGCAGGACCAACAAACTCCTTGAAATACGTGCCCTTGGTAACAGGTCTGGCATCTGCCCGTAACCTGGAACACTTGGAAATGGTTCGAGTCCCTTTCCTGGGAGGTCTCATCCAACACGTGGTTGAAGACAGCTGGAGATCAGGTGGTTTTAGGAACTTGCACACTATTGTCTTAGGAGCTTGCAAGAATGCCCTGGAAGTAGACCTTGGCTACCTCATCATCACTGCTGCGCGAAGGTTACATGAAGTTCGCATCCAGCCTTCTTTAACCAAAGATGGTGTCTTTTCTGCCCTAAAGATGGCAGAATTGGAGTTTCCCCAGTTTGAAACCCTTCATCTGGGATATGTAGATGAGTTCTTGCTACAGAGCAGAATGGCGAATGCAGATTTGGTGAAGTATGGCTTGGCTGATGTGGTAGAAAATCCTGGTATCATTACTGATATAGGGATGAAGGCAGTCAATGAAGTTTTTTCCTGTATCAAATATCTGGCAATTTATAACTGTCCTCATCTACACAACCCATACAATTGGATCTCAGACCACTCGAGGTGGATGCGACTGGTTGATATCAACCTCGTGCGGTGCCATGCTTTGAAGCTGGATTCTTTTGGCCAGTTTGTTGAATTATTGCCCAGCCTGGAATTTATTTCTCTGGACCAGATGTTCCGTGAGCCACCCAAGGGCTGTGCTCGAGTTGGTCTGAGTGCAGGAACTGGAATTGGGGTTTCCTCAGCGCTTGTCAGCAACCAGAATTCCAACAATGACAATGACAATAATGCTCCAAATAACAACGCCAACCTCCATGATAACAATCACCATCACCCAGATGATTCGGATGACGACAATGACTTTCGTCCAGACCTACAAGCAGGAGAGGCACAATTTGCAGCCGATGCGTTGAATGAGATGGAAGACATGGTCCAGGAAGATGGAGAACTGGTAGCCGAGAGTGGAAATGGTATGCCAGCTCACAATCGGGAAGTTCTTCCTGTGGATGCTGATGAGGAACAAGCAGGACCTAGTGGTCTACAACGCGTGGTAAAACCTACACCAATTGCTGATCACGATTCAGAGAGCGATGATGAAGAAGATAGTTTAGAACTCCAAGAAGTCTGGGCTCCTAAGAATGGCACCCGGCGTTACTCAGAGCGGGAAGAAAAGACTGGAGACTCAGGACAGTCCAGGGAAACGGCAGTAAGTGGGAAAGGCAAGACTCCACTTCGAAAGAGGTGCAACAACTCCCACCAGACGGGCCAGGCGAAGCCGTTTCCCCTGGAGGAGAGCAGCTGTGAGAAAGGCTGTCAGGTGACCAGTGAGCAGATCAAAGCCGATATGAAAGCAGCTAGGGATGTTTCTGAAAAGAAAAAATCCAAGGATGTCTATCCCAGCTGCAGCAGCAGCAGCAGCAGCACAGCCGCCAGCACAGCGGGAAACGCCAGCTCACCCAGCACTGCTTCCCAGAGCCCGGACTTTGCAAGGACGGTGACCAGCAGCGGCTCTTCCGAGCCGAGCCCTCCAGAAGTAGATGTATCCAGGCAGTGTGTCTGCTCCCCTGGTGGGTCAGAGGACTCTGAGGCCATGGAGGAGGGAGATGCAGAGAGCTCTGTCTGCCCCAGATGCTGCTGTCTCAGGCCCCAGGAGTCTCAAAGGAGAACTGGCAGGTGTTCTGATGAGGAGCGTCCTTCAACCAGCCGAGCCTGTGTTGTGAATGGCGCGGATGGTACGAGATCCGCCTTTTCCTTTAGGACTCTGCCACAAGGGGGGTCTTCAGGCCCAGCACATGATGAGAGGACTAATGGGAGTGGCTGTGGGGCTACAGGTGAGGACAGGAGGGGGAGCTCCCAGCCTGAGAGTTGTGACGTGCAGTCTAATGAAGACTATCCTCGGAGGCCCCTAACCAGGGCCAGGAGCAGACTGTCCCATGTACCGCTGATATCTGAGTCAGAAGTTGCCAAAACAAAGCCATGCCATGCCATGAAACGAAAGCGAACTGCAGATAAGTCTACCAGCACCAGTGACCCTGTGATTGAAGATGACCACGTACAGGTTCTTGTATTAAAATCCAAAAATCTTGTTGGAGTCACAATGACCAATTGTGGAATCACAGATCTAGTACTGAAAGACTGCCCCAAGATGATGTTCATCCATG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCTAGTACTGAAAGACTGCCCC
58.9
TTTCCTCAGCGACCTCACTG
59.68
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCTAGTACTGAAAGACTGCCCCA
60.5
TTTCCTCAGCGACCTCACTG
59.68
140
PCR template sequence:
CTTGTATTAAAATCCAAAAATCTTGTTGGAGTCACAATGACCAATTGTGGAATCACAGATCTAGTACTGAAAGACTGCCCCAAGATGATGTTCATCCATGGTATTTTGAACTAACTTTGACACTGAGGGAGCACAGCCATGGGACCACGAAAGAAAAGTGCTAAAGTGTGTGTGATGGACAGTGAGGTCGCTGAGGAAAT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
25
Interacting miRNAs (#binding sites)
mmu-miR-9-5p(1), mmu-let-7a-5p(1), mmu-miR-181a-5p(1), mmu-miR-103-3p(1), mmu-let-7e-5p(1), mmu-miR-135a-5p(1), mmu-miR-205-5p(1), mmu-let-7c-5p(1), mmu-miR-381-3p(1), mmu-let-7d-5p(1), mmu-miR-182-5p(1), mmu-miR-541-5p(1), mmu-miR-362-5p(1), mmu-miR-107-3p(1), mmu-miR-98-5p(1), mmu-miR-680(1), mmu-miR-377-3p(1), mmu-miR-300-3p(1), mmu-miR-673-5p(1), mmu-miR-539-5p(1), mmu-miR-335-3p(1), mmu-miR-188-3p(1), mmu-miR-1199-5p(1), mmu-miR-1904(1), mmu-miR-193b-3p(1)
siRNAs for circular RNA silencing
Junction sequence
ATGTTCATCCATGGTATTTTGAACTA
siRNA sets
AAATACCATGGATGAACAT, AAAATACCATGGATGAACA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCFBXO38_2913_ORF_1
0.9667
0.186000844
0.999999985
2889
ORF sequence:
ATGGGACCACGAAAGAAAAGTGCTAAAGTGTGTGTGATGGACAGTGAGGTCGCTGAGGAAATGACAGCCGATGAAGAGAAGGACTACATGAACCAGCTGTCACATGAAGTGCTCTGTCATATCTTCAGGTACCTGCCACTACAGGACATCATGTGCATGGAATGCCTCTCTCGGAAGCTAAAGGAGGCAGTCACTCTGTATCTGAGAGTTGTCAGAGTGGTGGATCTCTGTGCAGGGCGCTGGTGGGAATATATGCCAAGTGGCTTCACAGATTCCAGTTTCCTAACCCTTTTGAAGAAGATGCCAGATGTTGAACAGCTGTATGGCCTTCACCCTAGATACCTCGAGAGGCGAAGAGTGAGGGGCCAGGAGGCTTTCAGCATCCCAGGAGTCTTGGAAGCTTTGCAAGCGTGCCCAAACTTGGTGGGTGTAGAAACATCTCATTTGGAGTTGGTAGAATCCATTTGGACATATATGCCGCATGTTCATATTTTGGGGAAATTTCGTAATCGTAACGGAGCATTTCCGATTCCTCCTGAAAATAAACTGAAAATCCCCATAGGAGCCAAAATCCAAACTTTGCATTTAGTTGGTGTCAATGTTCCTGAAATCCCTTGTATCCCTATGCTAAGGCACCTGTACATGAAGTGGGTGAGACTCACTAAACCACAGCCGTTTAAAGATTTCCTTTGCATCAGCTTGCGAACTTTTGTCATGAGGAACTGTGCAGGACCAACAAACTCCTTGAAATACGTGCCCTTGGTAACAGGTCTGGCATCTGCCCGTAACCTGGAACACTTGGAAATGGTTCGAGTCCCTTTCCTGGGAGGTCTCATCCAACACGTGGTTGAAGACAGCTGGAGATCAGGTGGTTTTAGGAACTTGCACACTATTGTCTTAGGAGCTTGCAAGAATGCCCTGGAAGTAGACCTTGGCTACCTCATCATCACTGCTGCGCGAAGGTTACATGAAGTTCGCATCCAGCCTTCTTTAACCAAAGATGGTGTCTTTTCTGCCCTAAAGATGGCAGAATTGGAGTTTCCCCAGTTTGAAACCCTTCATCTGGGATATGTAGATGAGTTCTTGCTACAGAGCAGAATGGCGAATGCAGATTTGGTGAAGTATGGCTTGGCTGATGTGGTAGAAAATCCTGGTATCATTACTGATATAGGGATGAAGGCAGTCAATGAAGTTTTTTCCTGTATCAAATATCTGGCAATTTATAACTGTCCTCATCTACACAACCCATACAATTGGATCTCAGACCACTCGAGGTGGATGCGACTGGTTGATATCAACCTCGTGCGGTGCCATGCTTTGAAGCTGGATTCTTTTGGCCAGTTTGTTGAATTATTGCCCAGCCTGGAATTTATTTCTCTGGACCAGATGTTCCGTGAGCCACCCAAGGGCTGTGCTCGAGTTGGTCTGAGTGCAGGAACTGGAATTGGGGTTTCCTCAGCGCTTGTCAGCAACCAGAATTCCAACAATGACAATGACAATAATGCTCCAAATAACAACGCCAACCTCCATGATAACAATCACCATCACCCAGATGATTCGGATGACGACAATGACTTTCGTCCAGACCTACAAGCAGGAGAGGCACAATTTGCAGCCGATGCGTTGAATGAGATGGAAGACATGGTCCAGGAAGATGGAGAACTGGTAGCCGAGAGTGGAAATGGTATGCCAGCTCACAATCGGGAAGTTCTTCCTGTGGATGCTGATGAGGAACAAGCAGGACCTAGTGGTCTACAACGCGTGGTAAAACCTACACCAATTGCTGATCACGATTCAGAGAGCGATGATGAAGAAGATAGTTTAGAACTCCAAGAAGTCTGGGCTCCTAAGAATGGCACCCGGCGTTACTCAGAGCGGGAAGAAAAGACTGGAGACTCAGGACAGTCCAGGGAAACGGCAGTAAGTGGGAAAGGCAAGACTCCACTTCGAAAGAGGTGCAACAACTCCCACCAGACGGGCCAGGCGAAGCCGTTTCCCCTGGAGGAGAGCAGCTGTGAGAAAGGCTGTCAGGTGACCAGTGAGCAGATCAAAGCCGATATGAAAGCAGCTAGGGATGTTTCTGAAAAGAAAAAATCCAAGGATGTCTATCCCAGCTGCAGCAGCAGCAGCAGCAGCACAGCCGCCAGCACAGCGGGAAACGCCAGCTCACCCAGCACTGCTTCCCAGAGCCCGGACTTTGCAAGGACGGTGACCAGCAGCGGCTCTTCCGAGCCGAGCCCTCCAGAAGTAGATGTATCCAGGCAGTGTGTCTGCTCCCCTGGTGGGTCAGAGGACTCTGAGGCCATGGAGGAGGGAGATGCAGAGAGCTCTGTCTGCCCCAGATGCTGCTGTCTCAGGCCCCAGGAGTCTCAAAGGAGAACTGGCAGGTGTTCTGATGAGGAGCGTCCTTCAACCAGCCGAGCCTGTGTTGTGAATGGCGCGGATGGTACGAGATCCGCCTTTTCCTTTAGGACTCTGCCACAAGGGGGGTCTTCAGGCCCAGCACATGATGAGAGGACTAATGGGAGTGGCTGTGGGGCTACAGGTGAGGACAGGAGGGGGAGCTCCCAGCCTGAGAGTTGTGACGTGCAGTCTAATGAAGACTATCCTCGGAGGCCCCTAACCAGGGCCAGGAGCAGACTGTCCCATGTACCGCTGATATCTGAGTCAGAAGTTGCCAAAACAAAGCCATGCCATGCCATGAAACGAAAGCGAACTGCAGATAAGTCTACCAGCACCAGTGACCCTGTGATTGAAGATGACCACGTACAGGTTCTTGTATTAAAATCCAAAAATCTTGTTGGAGTCACAATGACCAATTGTGGAATCACAGATCTAGTACTGAAAGACTGCCCCAAGATGATGTTCATCCATGGTATTTTGAACTAA
Peptide sequence:
MGPRKKSAKVCVMDSEVAEEMTADEEKDYMNQLSHEVLCHIFRYLPLQDIMCMECLSRKLKEAVTLYLRVVRVVDLCAGRWWEYMPSGFTDSSFLTLLKKMPDVEQLYGLHPRYLERRRVRGQEAFSIPGVLEALQACPNLVGVETSHLELVESIWTYMPHVHILGKFRNRNGAFPIPPENKLKIPIGAKIQTLHLVGVNVPEIPCIPMLRHLYMKWVRLTKPQPFKDFLCISLRTFVMRNCAGPTNSLKYVPLVTGLASARNLEHLEMVRVPFLGGLIQHVVEDSWRSGGFRNLHTIVLGACKNALEVDLGYLIITAARRLHEVRIQPSLTKDGVFSALKMAELEFPQFETLHLGYVDEFLLQSRMANADLVKYGLADVVENPGIITDIGMKAVNEVFSCIKYLAIYNCPHLHNPYNWISDHSRWMRLVDINLVRCHALKLDSFGQFVELLPSLEFISLDQMFREPPKGCARVGLSAGTGIGVSSALVSNQNSNNDNDNNAPNNNANLHDNNHHHPDDSDDDNDFRPDLQAGEAQFAADALNEMEDMVQEDGELVAESGNGMPAHNREVLPVDADEEQAGPSGLQRVVKPTPIADHDSESDDEEDSLELQEVWAPKNGTRRYSEREEKTGDSGQSRETAVSGKGKTPLRKRCNNSHQTGQAKPFPLEESSCEKGCQVTSEQIKADMKAARDVSEKKKSKDVYPSCSSSSSSTAASTAGNASSPSTASQSPDFARTVTSSGSSEPSPPEVDVSRQCVCSPGGSEDSEAMEEGDAESSVCPRCCCLRPQESQRRTGRCSDEERPSTSRACVVNGADGTRSAFSFRTLPQGGSSGPAHDERTNGSGCGATGEDRRGSSQPESCDVQSNEDYPRRPLTRARSRLSHVPLISESEVAKTKPCHAMKRKRTADKSTSTSDPVIEDDHVQVLVLKSKNLVGVTMTNCGITDLVLKDCPKMMFIHGILN
IRESfinder result
IRESfinder score
0.419269765
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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