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mmu_circAcin1_1687
Basic information of circular RNA
PanCircBase ID:
mmu_circAcin1_1687
mm39_Chr. Position ID:
chr14|54899624|54904618|-
Gene name:
Acin1
Transcript:
ENSMUST00000022793.15
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
8,7,6,5
Exon/intron offsets:
0,1419,2204,4905
Genomic length:
4994
Exon/intron sizes in nt:
116,219,1263,89
Flanking exon/introns:
chr14:54889315-54899624|chr14:54904618-54916199
Splice length:
1687
Other database IDs:
circBase: mmu_circ_0005278, CIRCpedia: MMU_CIRCpedia_22902, circAtlas: mmu-Acin1_0001
circAtlas: hsa-ACIN1_0001, CIRCpedia: HSA_CIRCpedia_11754
Human Ortholog IDs:
Mature spliced Sequence:
GAAAGAGCTCCTCTTTTTCTGAAGAAAAAGGAGAATCTGATGATGAGAAGCCGAGGAAAGGGGAAAGACGATCATCCAGAGTTAGACAGGCAAAATCTAAACTCCCTGAGTACAGTCAGACTGCTGAGGAGGAAGAGGATCAAGAGACACCATCTAGAAACCTGAGGGTCAGAGCAGATCGAAATTTAAAAATAGAGGAGGAGGAAGAAGAAGAGGAAGAAGAAGAAGATGACGATGATGAAGAGGAAGAGGAGGTAGATGAGGCACAGAAATCTAGAGAGGCTGAGGCACCAACCCTGAAGCAGTTTGAGGATGAAGAAGGGGAAGAGAGGACCAGAGCAAAACCAGAAAAGGTGGTGGATGAGAAACCCCTAAACATCAGATCCCAGGAAAAGGGTGAGTTAGAGAAAGGAGGGCGAGTTACTAGATCCCAAGAAGAAGCTAGAAGAAGTCATCTGGCCAGACAGCAACAAGAGAAAGAGACACAAATTGTTTCTCTCCCTCAAGAAGAAAATGAGGTAAAGTCTTCACAAAGTTTGGAGGAAAAATCCCAGTCTCCCTCCCCACCTCCGCTTCCTGAAGACCTAGAGAAGGCCCCTGTTGTGCTGCAGCCAGAACAGATAGTCAGTGAAGAGGAAACACCCCCACCTTTACTTACCAAGGAAGCGTCATCTCCACCAACTCATATACAACTCCAGGAAGAGATGGAGCCAGTGGAAGGCCCAGCACCCCCTGTCCTCATTCAGTTGTCTCCTCCTAACACAGATGCTGGAGCCAGGGAGCCACTAGCGTCTCCTCACCCTGCGCAGCTGCTAAGAAGCCTGTCTCCTTTGTCAGGTACTACAGACACCAAAGCAGAGTCTCCAGCAGGGAGAGTGTCAGATGAGAGTGTCCTGCCTCTGGCTCAGAAAAGCTCACTGCCTGAATGCTCCACCCAGAAGGGTGTTGAAAGTGAGCGTGAAAAGTCTGCTCCCCTCCCTCTAACAGTGGAGGAGTTCGCACCTGCCAAAGGCATCACTGAGGAACCTATGAAGAAACAGTCTTTGGAACAGAAGGAGGGCAGAAGAGCCTCCCATGCTCTCTTCCCAGAGCACAGTGGGAAGCAGTCAGCCGACTCATCCTCTAGCAGGTCCTCCTCCCCTTCATCCTCCAGCTCTCCATCCAGATCTCCATCTCCTGACAGTGTGGCTTCCCGCCCACAGTCGTCTCCAGGATCTAAGCAGAGAGATGGAGCCCAAGCACGAGTTCATGCCAACCCTCACGAGAGACCCAAGATGGGCTCCAGGTCAACTTCAGAGTCCAGGTCACGTTCCCGATCTCGTTCCCGTTCCGCGTCAAGCAGCAGCAGAAAATCTCTGAGCCCTGGAGTCTCCAGAGATAGCAACACCAGCTACACTGAAACCAAAGATCCCTCTTGTGGTCAGGAGGCTGCAGCTCCATCTGGGCCACAGCTGCAGGTCCTTGAACCAAAGGAGAAGGCTCCCACGTTCTCAGCATCTGTCCGGGGGAGGCATCTGAGCCATCCTGAGCCAGAGCAACAGCACGTGATCCAGAGGTTGCAGCCGGAGCAGGGGAGCCCAAAGAAGTGTGAAGCTGAAGAGGCAGAGCCACCAGCTGCCACACAGCCTCAAACCTCAGAGACTCAGATCTCTCATCTGCTAGAATCAGAAAGGACTCATCACACTGT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGAAGCTGAAGAGGCAGAGC
60.04
TTTCCCCTTTCCTCGGCTTC
59.96
165
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGAAGCTGAAGAGGCAGAGC
60.04
CTTTCCCCTTTCCTCGGCTT
59.96
166
PCR template sequence:
GTGAAGCTGAAGAGGCAGAGCCACCAGCTGCCACACAGCCTCAAACCTCAGAGACTCAGATCTCTCATCTGCTAGAATCAGAAAGGACTCATCACACTGTGAAAGAGCTCCTCTTTTTCTGAAGAAAAAGGAGAATCTGATGATGAGAAGCCGAGGAAAGGGGAAAGACGATCATCCAGAGTTAGACAGGCAAAATCTAA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
15
Interacting miRNAs (#binding sites)
mmu-miR-9-5p(3), mmu-miR-149-5p(3), mmu-miR-29b-2-5p(2), mmu-miR-296-3p(2), mmu-miR-34c-5p(1), mmu-miR-34a-5p(1), mmu-miR-138-5p(1), mmu-miR-185-5p(1), mmu-miR-370-3p(1), mmu-miR-34b-5p(1), mmu-miR-342-5p(1), mmu-miR-3087-3p(1), mmu-miR-1904(1), mmu-miR-3105-3p(1), mmu-miR-338-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CTCATCACACTGTGAAAGAGCTCCTC
siRNA sets
GAGGAGCTCTTTCACAGTG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCACIN1_1687_ORF_1
0.9925
0.186676447
0.989432904
1005
ORF sequence:
ATGGAGCCAGTGGAAGGCCCAGCACCCCCTGTCCTCATTCAGTTGTCTCCTCCTAACACAGATGCTGGAGCCAGGGAGCCACTAGCGTCTCCTCACCCTGCGCAGCTGCTAAGAAGCCTGTCTCCTTTGTCAGGTACTACAGACACCAAAGCAGAGTCTCCAGCAGGGAGAGTGTCAGATGAGAGTGTCCTGCCTCTGGCTCAGAAAAGCTCACTGCCTGAATGCTCCACCCAGAAGGGTGTTGAAAGTGAGCGTGAAAAGTCTGCTCCCCTCCCTCTAACAGTGGAGGAGTTCGCACCTGCCAAAGGCATCACTGAGGAACCTATGAAGAAACAGTCTTTGGAACAGAAGGAGGGCAGAAGAGCCTCCCATGCTCTCTTCCCAGAGCACAGTGGGAAGCAGTCAGCCGACTCATCCTCTAGCAGGTCCTCCTCCCCTTCATCCTCCAGCTCTCCATCCAGATCTCCATCTCCTGACAGTGTGGCTTCCCGCCCACAGTCGTCTCCAGGATCTAAGCAGAGAGATGGAGCCCAAGCACGAGTTCATGCCAACCCTCACGAGAGACCCAAGATGGGCTCCAGGTCAACTTCAGAGTCCAGGTCACGTTCCCGATCTCGTTCCCGTTCCGCGTCAAGCAGCAGCAGAAAATCTCTGAGCCCTGGAGTCTCCAGAGATAGCAACACCAGCTACACTGAAACCAAAGATCCCTCTTGTGGTCAGGAGGCTGCAGCTCCATCTGGGCCACAGCTGCAGGTCCTTGAACCAAAGGAGAAGGCTCCCACGTTCTCAGCATCTGTCCGGGGGAGGCATCTGAGCCATCCTGAGCCAGAGCAACAGCACGTGATCCAGAGGTTGCAGCCGGAGCAGGGGAGCCCAAAGAAGTGTGAAGCTGAAGAGGCAGAGCCACCAGCTGCCACACAGCCTCAAACCTCAGAGACTCAGATCTCTCATCTGCTAGAATCAGAAAGGACTCATCACACTGTGAAAGAGCTCCTCTTTTTCTGA
Peptide sequence:
MEPVEGPAPPVLIQLSPPNTDAGAREPLASPHPAQLLRSLSPLSGTTDTKAESPAGRVSDESVLPLAQKSSLPECSTQKGVESEREKSAPLPLTVEEFAPAKGITEEPMKKQSLEQKEGRRASHALFPEHSGKQSADSSSSRSSSPSSSSSPSRSPSPDSVASRPQSSPGSKQRDGAQARVHANPHERPKMGSRSTSESRSRSRSRSRSASSSSRKSLSPGVSRDSNTSYTETKDPSCGQEAAAPSGPQLQVLEPKEKAPTFSASVRGRHLSHPEPEQQHVIQRLQPEQGSPKKCEAEEAEPPAATQPQTSETQISHLLESERTHHTVKELLFF
IRESfinder result
IRESfinder score
0.52784545
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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