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mmu_circAtg4b_273
Basic information of circular RNA
PanCircBase ID:
mmu_circAtg4b_273
mm39_Chr. Position ID:
chr1|93695774|93701590|+
Gene name:
Atg4b
Transcript:
ENSMUST00000149436.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
2,3,4
Exon/intron offsets:
0,200,5717
Genomic length:
5816
Exon/intron sizes in nt:
102,72,99
Flanking exon/introns:
chr1:93679303-93695774|chr1:93701590-93702854
Splice length:
273
Other database IDs:
CIRCpedia: MMU_CIRCpedia_215553, circAtlas: mmu-Atg4b_0001
Human Ortholog IDs:
Mature spliced Sequence:
CCACTTTGACATATGATACTCTCCGGTTTGCTGAATTTGAAGATTTCCCTGAGACCTCAGAGCCTGTTTGGATTCTGGGCAGAAAATACAGCATTTTCACAGAGAAGGACGAAATCTTGTCTGATGTTGCATCCAGACTTTGGTTTACATACAGGAGAAACTTTCCAGCTATTGGGGGAACTGGCCCTACTTCAGACACAGGCTGGGGTTGCATGCTTCGGTGTGGACAGATGATCTTTGCCCAGGCCCTGGTATGCCGGCACTTAGGTCGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGCCCTACTTCAGACACAGG
59.75
GCCCAGAATCCAAACAGGCT
60.61
171
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGGAACTGGCCCTACTTCAG
59.75
GCCCAGAATCCAAACAGGCT
60.61
178
PCR template sequence:
GGGGGAACTGGCCCTACTTCAGACACAGGCTGGGGTTGCATGCTTCGGTGTGGACAGATGATCTTTGCCCAGGCCCTGGTATGCCGGCACTTAGGTCGAGCCACTTTGACATATGATACTCTCCGGTTTGCTGAATTTGAAGATTTCCCTGAGACCTCAGAGCCTGTTTGGATTCTGGGCAGAAAATACAGCATTTTCAC
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
CACTTAGGTCGAGCCACTTTGACATA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCATG4B_273_ORF_1
0.4252
0.119186201
0.171522794
333
ORF sequence:
ATGCTTCGGTGTGGACAGATGATCTTTGCCCAGGCCCTGGTATGCCGGCACTTAGGTCGAGCCACTTTGACATATGATACTCTCCGGTTTGCTGAATTTGAAGATTTCCCTGAGACCTCAGAGCCTGTTTGGATTCTGGGCAGAAAATACAGCATTTTCACAGAGAAGGACGAAATCTTGTCTGATGTTGCATCCAGACTTTGGTTTACATACAGGAGAAACTTTCCAGCTATTGGGGGAACTGGCCCTACTTCAGACACAGGCTGGGGTTGCATGCTTCGGTGTGGACAGATGATCTTTGCCCAGGCCCTGGTATGCCGGCACTTAGGTCGA
Peptide sequence:
MLRCGQMIFAQALVCRHLGRATLTYDTLRFAEFEDFPETSEPVWILGRKYSIFTEKDEILSDVASRLWFTYRRNFPAIGGTGPTSDTGWGCMLRCGQMIFAQALVCRHLGR
IRESfinder result
IRESfinder score
0.607339849
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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