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mmu_circAp3b1_237
Basic information of circular RNA
PanCircBase ID:
mmu_circAp3b1_237
mm39_Chr. Position ID:
chr13|94679286|94684401|+
Gene name:
Ap3b1
Transcript:
ENSMUST00000022196.5
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
25,26
Exon/intron offsets:
0,4976
Genomic length:
5115
Exon/intron sizes in nt:
98,139
Flanking exon/introns:
chr13:94668574-94679286|chr13:94684401-94702112
Splice length:
237
Other database IDs:
CIRCpedia: MMU_CIRCpedia_222450, circAtlas: mmu-Ap3b1_0060
circBase: hsa_circ_0129689, circAtlas: hsa-AP3B1_0067, CIRCpedia: HSA_CIRCpedia_52681
Human Ortholog IDs:
Mature spliced Sequence:
CACCAAGGATGACTGCTTCAACGTCACCCTCCAGCCACCTGTTGGGGAGCTGCTTTCACCTGTGGCCATGTCAGAGAAGGACTTTAAGAAGGAGCAAGGAACGCTCACTGGAATGAACGAGACTTCGGCTACACTCATCGCTGCTCCACAGAACTTCACTCCCTCCATGATCCTCCAGAAGGTTGTAAATGTGGCCAACCTCGGTGCTGTGCCTTCCAGCCAAGATAACGTACACAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACTCCCTCCATGATCCTCCA
59.36
TGACATGGCCACAGGTGAAA
59.82
153
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACTCCCTCCATGATCCTCCA
59.36
CTGACATGGCCACAGGTGAA
60.25
154
PCR template sequence:
TCGCTGCTCCACAGAACTTCACTCCCTCCATGATCCTCCAGAAGGTTGTAAATGTGGCCAACCTCGGTGCTGTGCCTTCCAGCCAAGATAACGTACACAGCACCAAGGATGACTGCTTCAACGTCACCCTCCAGCCACCTGTTGGGGAGCTGCTTTCACCTGTGGCCATGTCAGAGAAGGACTTTAAGAAGGAGCAAGGA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
2
Interacting miRNAs (#binding sites)
mmu-miR-124-3p(1), mmu-miR-503-5p(1)
siRNAs for circular RNA silencing
Junction sequence
ATAACGTACACAGCACCAAGGATGAC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCAP3B1_237_ORF_1
1.2174
0.4191192
0.838342204
405
ORF sequence:
ATGTCAGAGAAGGACTTTAAGAAGGAGCAAGGAACGCTCACTGGAATGAACGAGACTTCGGCTACACTCATCGCTGCTCCACAGAACTTCACTCCCTCCATGATCCTCCAGAAGGTTGTAAATGTGGCCAACCTCGGTGCTGTGCCTTCCAGCCAAGATAACGTACACAGCACCAAGGATGACTGCTTCAACGTCACCCTCCAGCCACCTGTTGGGGAGCTGCTTTCACCTGTGGCCATGTCAGAGAAGGACTTTAAGAAGGAGCAAGGAACGCTCACTGGAATGAACGAGACTTCGGCTACACTCATCGCTGCTCCACAGAACTTCACTCCCTCCATGATCCTCCAGAAGGTTGTAAATGTGGCCAACCTCGGTGCTGTGCCTTCCAGCCAAGATAACGTACAC
Peptide sequence:
MSEKDFKKEQGTLTGMNETSATLIAAPQNFTPSMILQKVVNVANLGAVPSSQDNVHSTKDDCFNVTLQPPVGELLSPVAMSEKDFKKEQGTLTGMNETSATLIAAPQNFTPSMILQKVVNVANLGAVPSSQDNVH
IRESfinder result
IRESfinder score
0.229959161
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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