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mmu_circPds5a_972
Basic information of circular RNA
PanCircBase ID:
mmu_circPds5a_972
mm39_Chr. Position ID:
chr5|65807735|65817076|-
Gene name:
Pds5a
Transcript:
ENSMUST00000201948.4
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
8
Exon/intron indexes:
13,12,11,10,9,8,7,6
Exon/intron offsets:
0,752,1995,3612,4396,5875,7954,9214
Genomic length:
9341
Exon/intron sizes in nt:
1,14,15,21,46,95,11,61,00,00,000
Flanking exon/introns:
chr5:65805348-65807735|chr5:65817076-65821198
Splice length:
972
Other database IDs:
CIRCpedia: MMU_CIRCpedia_26231, circAtlas: mmu-Pds5a_0001
circBase: hsa_circ_0126324, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_48589
Human Ortholog IDs:
Mature spliced Sequence:
CAATAGCCACAATACGAAAGTACAAATGCACATGTTAGACTTGATGAGTTCTATCATCATGGAAGGTGATGGAGTTACTCAAGAATTATTGGATTCCATTCTTATCAACCTCATCCCTGCACACAAGAACTTAAATAAACAGTCCTTCGACCTTGCAAAAGTCCTACTGAAAAGGACAGTCCAGACTATTGAAGCATGTATTGCCAATTTTTTCAATCAAGTCCTGGTGCTGGGCAGATCATCAGTCAGCGACCTGTCTGAACACGTATTTGATCTGATTCAGGAACTTTTTGCTATCGATCCTCAGTTACTGTTATCTGTCATGCCACAGCTTGAATTCAAACTGAAGAGCAACGATGGTGAAGAACGCCTAGCTGTGGTTCGACTCCTCGCAAAATTGTTCGGCTCTAAAGATTCAGATTTAGCAACACAGAATCGGCCTCTCTGGCAGTGCTTTCTTGGGCGATTTAATGACATTCATGTTCCTGTGAGGTTAGAAAGTGTGAAGTTTGCCAGCCACTGTTTGATGAATCACCCAGACTTAGCGAAGGATCTGACAGAATATTTGAAAGTTAGGTCACATGATCCAGAAGAAGCCATTCGTCATGATGTTATTGTTACTATAATAACAGCTGCCAAAAGAGACCTTGCCTTAGTAAATGATCAGTTGCTTGGCTTTGTCAGGGAAAGGACACTGGATAAACGGTGGCGAGTAAGAAAAGAAGCCATGATGGGTCTGGCTCAGCTCTATAAGAAATACTGTCTTCATGGGGAAGCAGGAAAGGAAGCCGCGGAGAAAGTCAGCTGGATAAAGGACAAGCTGCTGCATATCTACTATCAGAACAGCATTGATGACAAACTATTGGTAGAGAAAATCTTTGCTCAGTATCTTGTTCCCCACAACCTGGAAACAGAAGAGAGAATGAAATGCTTATATTATTTATATGCTAGCTTGGATCCAAATGCTGTAAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CTTGTTCCCCACAACCTGGA
59.82
TGAGTAACTCCATCACCTTCCA
58.48
164
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCTTGTTCCCCACAACCTGG
59.82
TGAGTAACTCCATCACCTTCCA
58.48
165
PCR template sequence:
AAATCTTTGCTCAGTATCTTGTTCCCCACAACCTGGAAACAGAAGAGAGAATGAAATGCTTATATTATTTATATGCTAGCTTGGATCCAAATGCTGTAAACAATAGCCACAATACGAAAGTACAAATGCACATGTTAGACTTGATGAGTTCTATCATCATGGAAGGTGATGGAGTTACTCAAGAATTATTGGATTCCATT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
7
Interacting miRNAs (#binding sites)
mmu-miR-135a-5p(2), mmu-miR-136-5p(1), mmu-miR-194-5p(1), mmu-miR-324-3p(1), mmu-miR-802-5p(1), mmu-miR-669d-5p(1), mmu-miR-338-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CAAATGCTGTAAACAATAGCCACAAT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCPDS5A_972_ORF_1
1.0266
0.11029785
0.999981638
1917
ORF sequence:
ATGCACATGTTAGACTTGATGAGTTCTATCATCATGGAAGGTGATGGAGTTACTCAAGAATTATTGGATTCCATTCTTATCAACCTCATCCCTGCACACAAGAACTTAAATAAACAGTCCTTCGACCTTGCAAAAGTCCTACTGAAAAGGACAGTCCAGACTATTGAAGCATGTATTGCCAATTTTTTCAATCAAGTCCTGGTGCTGGGCAGATCATCAGTCAGCGACCTGTCTGAACACGTATTTGATCTGATTCAGGAACTTTTTGCTATCGATCCTCAGTTACTGTTATCTGTCATGCCACAGCTTGAATTCAAACTGAAGAGCAACGATGGTGAAGAACGCCTAGCTGTGGTTCGACTCCTCGCAAAATTGTTCGGCTCTAAAGATTCAGATTTAGCAACACAGAATCGGCCTCTCTGGCAGTGCTTTCTTGGGCGATTTAATGACATTCATGTTCCTGTGAGGTTAGAAAGTGTGAAGTTTGCCAGCCACTGTTTGATGAATCACCCAGACTTAGCGAAGGATCTGACAGAATATTTGAAAGTTAGGTCACATGATCCAGAAGAAGCCATTCGTCATGATGTTATTGTTACTATAATAACAGCTGCCAAAAGAGACCTTGCCTTAGTAAATGATCAGTTGCTTGGCTTTGTCAGGGAAAGGACACTGGATAAACGGTGGCGAGTAAGAAAAGAAGCCATGATGGGTCTGGCTCAGCTCTATAAGAAATACTGTCTTCATGGGGAAGCAGGAAAGGAAGCCGCGGAGAAAGTCAGCTGGATAAAGGACAAGCTGCTGCATATCTACTATCAGAACAGCATTGATGACAAACTATTGGTAGAGAAAATCTTTGCTCAGTATCTTGTTCCCCACAACCTGGAAACAGAAGAGAGAATGAAATGCTTATATTATTTATATGCTAGCTTGGATCCAAATGCTGTAAACAATAGCCACAATACGAAAGTACAAATGCACATGTTAGACTTGATGAGTTCTATCATCATGGAAGGTGATGGAGTTACTCAAGAATTATTGGATTCCATTCTTATCAACCTCATCCCTGCACACAAGAACTTAAATAAACAGTCCTTCGACCTTGCAAAAGTCCTACTGAAAAGGACAGTCCAGACTATTGAAGCATGTATTGCCAATTTTTTCAATCAAGTCCTGGTGCTGGGCAGATCATCAGTCAGCGACCTGTCTGAACACGTATTTGATCTGATTCAGGAACTTTTTGCTATCGATCCTCAGTTACTGTTATCTGTCATGCCACAGCTTGAATTCAAACTGAAGAGCAACGATGGTGAAGAACGCCTAGCTGTGGTTCGACTCCTCGCAAAATTGTTCGGCTCTAAAGATTCAGATTTAGCAACACAGAATCGGCCTCTCTGGCAGTGCTTTCTTGGGCGATTTAATGACATTCATGTTCCTGTGAGGTTAGAAAGTGTGAAGTTTGCCAGCCACTGTTTGATGAATCACCCAGACTTAGCGAAGGATCTGACAGAATATTTGAAAGTTAGGTCACATGATCCAGAAGAAGCCATTCGTCATGATGTTATTGTTACTATAATAACAGCTGCCAAAAGAGACCTTGCCTTAGTAAATGATCAGTTGCTTGGCTTTGTCAGGGAAAGGACACTGGATAAACGGTGGCGAGTAAGAAAAGAAGCCATGATGGGTCTGGCTCAGCTCTATAAGAAATACTGTCTTCATGGGGAAGCAGGAAAGGAAGCCGCGGAGAAAGTCAGCTGGATAAAGGACAAGCTGCTGCATATCTACTATCAGAACAGCATTGATGACAAACTATTGGTAGAGAAAATCTTTGCTCAGTATCTTGTTCCCCACAACCTGGAAACAGAAGAGAGAATGAAATGCTTATATTATTTATATGCTAGCTTGGATCCAAATGCTGTA
Peptide sequence:
MHMLDLMSSIIMEGDGVTQELLDSILINLIPAHKNLNKQSFDLAKVLLKRTVQTIEACIANFFNQVLVLGRSSVSDLSEHVFDLIQELFAIDPQLLLSVMPQLEFKLKSNDGEERLAVVRLLAKLFGSKDSDLATQNRPLWQCFLGRFNDIHVPVRLESVKFASHCLMNHPDLAKDLTEYLKVRSHDPEEAIRHDVIVTIITAAKRDLALVNDQLLGFVRERTLDKRWRVRKEAMMGLAQLYKKYCLHGEAGKEAAEKVSWIKDKLLHIYYQNSIDDKLLVEKIFAQYLVPHNLETEERMKCLYYLYASLDPNAVNNSHNTKVQMHMLDLMSSIIMEGDGVTQELLDSILINLIPAHKNLNKQSFDLAKVLLKRTVQTIEACIANFFNQVLVLGRSSVSDLSEHVFDLIQELFAIDPQLLLSVMPQLEFKLKSNDGEERLAVVRLLAKLFGSKDSDLATQNRPLWQCFLGRFNDIHVPVRLESVKFASHCLMNHPDLAKDLTEYLKVRSHDPEEAIRHDVIVTIITAAKRDLALVNDQLLGFVRERTLDKRWRVRKEAMMGLAQLYKKYCLHGEAGKEAAEKVSWIKDKLLHIYYQNSIDDKLLVEKIFAQYLVPHNLETEERMKCLYYLYASLDPNAV
IRESfinder result
IRESfinder score
0.617785496
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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