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mmu_circAtg4b_448
Basic information of circular RNA
PanCircBase ID:
mmu_circAtg4b_448
mm39_Chr. Position ID:
chr1|93695774|93703422|+
Gene name:
Atg4b
Transcript:
ENSMUST00000027502.16
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
2,3,4,5,6
Exon/intron offsets:
0,200,5717,7080,7575
Genomic length:
7648
Exon/intron sizes in nt:
102,72,99,102,73
Flanking exon/introns:
chr1:93682776-93695774|chr1:93703422-93706006
Splice length:
448
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
CCACTTTGACATATGATACTCTCCGGTTTGCTGAATTTGAAGATTTCCCTGAGACCTCAGAGCCTGTTTGGATTCTGGGCAGAAAATACAGCATTTTCACAGAGAAGGACGAAATCTTGTCTGATGTTGCATCCAGACTTTGGTTTACATACAGGAGAAACTTTCCAGCTATTGGGGGAACTGGCCCTACTTCAGACACAGGCTGGGGTTGCATGCTTCGGTGTGGACAGATGATCTTTGCCCAGGCCCTGGTATGCCGGCACTTAGGTCGAGATTGGAGGTGGACTCAGCGGAAGAGGCAGCCTGACAGCTACTTTAATGTCCTCAATGCTTTCCTCGACAGGAAGGACAGCTACTATTCCATCCATCAGATAGCGCAAATGGGAGTTGGCGAAGGCAAGTCTATAGGCCAGTGGTACGGGCCGAACACTGTTGCCCAGGTCCTCAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCAAATGGGAGTTGGCGAAG
60.11
GCCCAGAATCCAAACAGGCT
60.61
152
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCAAATGGGAGTTGGCGAAG
60.11
TCCAAACAGGCTCTGAGGTC
59.31
144
PCR template sequence:
ACAGCTACTATTCCATCCATCAGATAGCGCAAATGGGAGTTGGCGAAGGCAAGTCTATAGGCCAGTGGTACGGGCCGAACACTGTTGCCCAGGTCCTCAACCACTTTGACATATGATACTCTCCGGTTTGCTGAATTTGAAGATTTCCCTGAGACCTCAGAGCCTGTTTGGATTCTGGGCAGAAAATACAGCATTTTCAC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
1
Interacting miRNAs (#binding sites)
mmu-miR-467b-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CCCAGGTCCTCAACCACTTTGACATA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCATG4B_448_ORF_1
0.8049
0.22976747
0.2671129
252
ORF sequence:
ATGCTTCGGTGTGGACAGATGATCTTTGCCCAGGCCCTGGTATGCCGGCACTTAGGTCGAGATTGGAGGTGGACTCAGCGGAAGAGGCAGCCTGACAGCTACTTTAATGTCCTCAATGCTTTCCTCGACAGGAAGGACAGCTACTATTCCATCCATCAGATAGCGCAAATGGGAGTTGGCGAAGGCAAGTCTATAGGCCAGTGGTACGGGCCGAACACTGTTGCCCAGGTCCTCAACCACTTTGACATATGA
Peptide sequence:
MLRCGQMIFAQALVCRHLGRDWRWTQRKRQPDSYFNVLNAFLDRKDSYYSIHQIAQMGVGEGKSIGQWYGPNTVAQVLNHFDI
IRESfinder result
IRESfinder score
0.470422306
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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