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mmu_circEif3a_1369
Basic information of circular RNA
PanCircBase ID:
mmu_circEif3a_1369
mm39_Chr. Position ID:
chr19|60759452|60765235|-
Gene name:
Eif3a
Transcript:
ENSMUST00000025955.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
9
Exon/intron indexes:
15,14,13,12,11,10,9,8,7
Exon/intron offsets:
0,629,1078,1677,2492,2886,4278,4736,5611
Genomic length:
5783
Exon/intron sizes in nt:
1,23,11,41,05,34,81,86,00,00,00,00,000
Flanking exon/introns:
chr19:60758457-60759452|chr19:60765235-60766376
Splice length:
1369
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
AATGTCTACTAGAGTCCTTTTGGCGACTCTTTCCATTCCTATTACTCCTGAGCGAACTGATATTGCTCGACTTTTGGATATGGATGGTATTATAGTTGAGAAGCAGCGACGCCTTGCCACATTGCTAGGTCTTCAAGCCCCACCCACACGAATCGGCCTAATTAATGATATGGTCAGGTTCAGTGTGCTACAGTATGTTGTCCCAGAAGTGAAAGACCTTTACAACTGGTTGGAGGTGGAATTCAACCCACTAAAACTCTGTGAGAGAGTTACAAAGGTATTAAATTGGGTTAGGGAACAACCTGAAAAAGAACCAGAATTGCAACAATATGTACCACAACTCCAGAACAATACCATACTCCGCCTTCTGCAACAGGTGGCACAGATTTATCAGAGCATTGAGTTTTCTCGTTTGACTTCTCTGGTTCCTTTTGTTGATGCTTTCCAACTGGAACGGGCCATAGTAGATGCAGCCAGGCACTGTGACCTGCAGGTACGTATTGACCATACTTCCCGGACTCTGAGTTTTGGATCAGATTTGAATTATGCAACTCGAGAAGATGCCCCAGTTGGCCCTCATCTGCAGAGCATGCCTTCAGAGCAGATAAGAAACCAGCTCACGGCCATGTCCTCAGTGCTTGCCAAAGCACTTGAAGTCATCAGACCTGCTCACATTCTGCAAGAGAAAGAAGAACAGCATCAATTGGCAGTTAATGCATATCTTAAAAATTCAAGAAAAGAGCACCAGAGGATCCTGGCTCGGAGACAGACAATTGAGGAAAGAAAAGAGCGTCTTGAGAGTCTGAATATTCAACGTGAGAAGGAAGAACTCGAGCAGAGGGAAGCTGAACTCCAGAAAGTACGAAAGGCTGAAGAAGAAAGGCTGCGCCAAGAGGCAAAGGAGCGAGAGAAGGAACGAATCCTTCAAGAACACGAGCAAATCAAGAAGAAAACTGTTCGGGAGCGGTTAGAGCAGATCAAGAAGACAGAGCTGGGCGCCAAAGCATTTAAAGATATTGACATTGAAGACCTTGAAGAACTGGATCCAGATTTTATTATGGCCAAACAGGTTGAACAACTGGAGAAAGAAAAGAAGGAACTTCAGGAACGCCTGAAGAATCAAGAAAAGAAGATTGACTATTTTGAGAGAGCTAAGCGTTTGGAAGAAATTCCTTTAATAAAGAGTGCTTATGAGGAACAAAGGGTTAAAGACATGGACCTGTGGGAACAGCAAGAAGAAGAAAGAATCACTACAATGCAGCTAGAACGAGAAAAAGCTCTGGAGCATAAGAATAGGATGTCACGAATGTTGGAAGACAGAGATCTATTTGTGATGCGCCTCAAAGCTGCCCGGCAGTCTGTCTACGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGGATGTCACGAATGTTGGAAGA
59.99
AGTCGAGCAATATCAGTTCGCT
59.9
147
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGATGTCACGAATGTTGGAAGAC
59.87
AGTCGAGCAATATCAGTTCGCT
59.9
146
PCR template sequence:
AGAAAAAGCTCTGGAGCATAAGAATAGGATGTCACGAATGTTGGAAGACAGAGATCTATTTGTGATGCGCCTCAAAGCTGCCCGGCAGTCTGTCTACGAGAATGTCTACTAGAGTCCTTTTGGCGACTCTTTCCATTCCTATTACTCCTGAGCGAACTGATATTGCTCGACTTTTGGATATGGATGGTATTATAGTTGAG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
8
Interacting miRNAs (#binding sites)
mmu-miR-27b-3p(1), mmu-miR-27a-3p(1), mmu-miR-33-5p(1), mmu-miR-29b-1-5p(1), mmu-miR-22-3p(1), mmu-miR-680(1), mmu-miR-29b-2-5p(1), mmu-miR-697(1)
siRNAs for circular RNA silencing
Junction sequence
GTCTGTCTACGAGAATGTCTACTAGA
siRNA sets
TAGACATTCTCGTAGACAG, TAGTAGACATTCTCGTAGA, AGACATTCTCGTAGACAGA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCEIF3A_1369_ORF_1
1.1734
0.242080983
0.999599869
1380
ORF sequence:
ATGTCTACTAGAGTCCTTTTGGCGACTCTTTCCATTCCTATTACTCCTGAGCGAACTGATATTGCTCGACTTTTGGATATGGATGGTATTATAGTTGAGAAGCAGCGACGCCTTGCCACATTGCTAGGTCTTCAAGCCCCACCCACACGAATCGGCCTAATTAATGATATGGTCAGGTTCAGTGTGCTACAGTATGTTGTCCCAGAAGTGAAAGACCTTTACAACTGGTTGGAGGTGGAATTCAACCCACTAAAACTCTGTGAGAGAGTTACAAAGGTATTAAATTGGGTTAGGGAACAACCTGAAAAAGAACCAGAATTGCAACAATATGTACCACAACTCCAGAACAATACCATACTCCGCCTTCTGCAACAGGTGGCACAGATTTATCAGAGCATTGAGTTTTCTCGTTTGACTTCTCTGGTTCCTTTTGTTGATGCTTTCCAACTGGAACGGGCCATAGTAGATGCAGCCAGGCACTGTGACCTGCAGGTACGTATTGACCATACTTCCCGGACTCTGAGTTTTGGATCAGATTTGAATTATGCAACTCGAGAAGATGCCCCAGTTGGCCCTCATCTGCAGAGCATGCCTTCAGAGCAGATAAGAAACCAGCTCACGGCCATGTCCTCAGTGCTTGCCAAAGCACTTGAAGTCATCAGACCTGCTCACATTCTGCAAGAGAAAGAAGAACAGCATCAATTGGCAGTTAATGCATATCTTAAAAATTCAAGAAAAGAGCACCAGAGGATCCTGGCTCGGAGACAGACAATTGAGGAAAGAAAAGAGCGTCTTGAGAGTCTGAATATTCAACGTGAGAAGGAAGAACTCGAGCAGAGGGAAGCTGAACTCCAGAAAGTACGAAAGGCTGAAGAAGAAAGGCTGCGCCAAGAGGCAAAGGAGCGAGAGAAGGAACGAATCCTTCAAGAACACGAGCAAATCAAGAAGAAAACTGTTCGGGAGCGGTTAGAGCAGATCAAGAAGACAGAGCTGGGCGCCAAAGCATTTAAAGATATTGACATTGAAGACCTTGAAGAACTGGATCCAGATTTTATTATGGCCAAACAGGTTGAACAACTGGAGAAAGAAAAGAAGGAACTTCAGGAACGCCTGAAGAATCAAGAAAAGAAGATTGACTATTTTGAGAGAGCTAAGCGTTTGGAAGAAATTCCTTTAATAAAGAGTGCTTATGAGGAACAAAGGGTTAAAGACATGGACCTGTGGGAACAGCAAGAAGAAGAAAGAATCACTACAATGCAGCTAGAACGAGAAAAAGCTCTGGAGCATAAGAATAGGATGTCACGAATGTTGGAAGACAGAGATCTATTTGTGATGCGCCTCAAAGCTGCCCGGCAGTCTGTCTACGAGAATGTCTACTAG
Peptide sequence:
MSTRVLLATLSIPITPERTDIARLLDMDGIIVEKQRRLATLLGLQAPPTRIGLINDMVRFSVLQYVVPEVKDLYNWLEVEFNPLKLCERVTKVLNWVREQPEKEPELQQYVPQLQNNTILRLLQQVAQIYQSIEFSRLTSLVPFVDAFQLERAIVDAARHCDLQVRIDHTSRTLSFGSDLNYATREDAPVGPHLQSMPSEQIRNQLTAMSSVLAKALEVIRPAHILQEKEEQHQLAVNAYLKNSRKEHQRILARRQTIEERKERLESLNIQREKEELEQREAELQKVRKAEEERLRQEAKEREKERILQEHEQIKKKTVRERLEQIKKTELGAKAFKDIDIEDLEELDPDFIMAKQVEQLEKEKKELQERLKNQEKKIDYFERAKRLEEIPLIKSAYEEQRVKDMDLWEQQEEERITTMQLEREKALEHKNRMSRMLEDRDLFVMRLKAARQSVYENVY
IRESfinder result
IRESfinder score
0.542673172
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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