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mmu_circAp3b1_324
Basic information of circular RNA
PanCircBase ID:
mmu_circAp3b1_324
mm39_Chr. Position ID:
chr13|94539845|94545351|+
Gene name:
Ap3b1
Transcript:
ENSMUST00000022196.5
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
4,5,6
Exon/intron offsets:
0,609,5439
Genomic length:
5506
Exon/intron sizes in nt:
96,161,67
Flanking exon/introns:
chr13:94531301-94539845|chr13:94545351-94554468
Splice length:
324
Other database IDs:
CIRCpedia: MMU_CIRCpedia_38088, circAtlas: mmu-Ap3b1_0053
circBase: hsa_circ_0129695, circAtlas: hsa-AP3B1_0015, CIRCpedia: HSA_CIRCpedia_101318
Human Ortholog IDs:
Mature spliced Sequence:
ATCAAGAAGTTGGTGTACGTTTACCTTGTCCGATATGCTGAAGAACAGCAGGACCTGGCTCTTCTGTCCATAAGCACTTTCCAGCGAGCTTTGAAGGACCCGAATCAACTAATCCGTGCAAGTGCCTTGAGAGTTTTGTCAAGTATTAGAGTGCCAATTATCGTGCCTGTCATGATGCTGGCTATTAAGGAGGCTTCAGCTGACCTGTCGCCATATGTTAGGAAGAATGCAGCCCATGCTATTCAGAAGCTGTACAGTCTTGACCCCGAGCAGAAGGAGATGTTAATTGAAGTCATTGAGAAGCTTCTGAAAGACAAGAGCACG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GTACAGTCTTGACCCCGAGC
60.11
GACAGAAGAGCCAGGTCCTG
59.75
141
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GTACAGTCTTGACCCCGAGC
60.11
GTCCTTCAAAGCTCGCTGGA
60.32
172
PCR template sequence:
GAATGCAGCCCATGCTATTCAGAAGCTGTACAGTCTTGACCCCGAGCAGAAGGAGATGTTAATTGAAGTCATTGAGAAGCTTCTGAAAGACAAGAGCACGATCAAGAAGTTGGTGTACGTTTACCTTGTCCGATATGCTGAAGAACAGCAGGACCTGGCTCTTCTGTCCATAAGCACTTTCCAGCGAGCTTTGAAGGACC
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-20b-5p(1), mmu-miR-106a-5p(1), mmu-miR-93-5p(1), mmu-miR-20a-5p(1), mmu-miR-17-5p(1), mmu-miR-106b-5p(1), mmu-miR-96-5p(1), mmu-miR-338-3p(1)
siRNAs for circular RNA silencing
Junction sequence
AGACAAGAGCACGATCAAGAAGTTGG
siRNA sets
TCTTGATCGTGCTCTTGTC, TTCTTGATCGTGCTCTTGT, AACTTCTTGATCGTGCTCT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCAP3B1_324_ORF_1
1.1892
0.350845206
0.861746434
477
ORF sequence:
ATGATGCTGGCTATTAAGGAGGCTTCAGCTGACCTGTCGCCATATGTTAGGAAGAATGCAGCCCATGCTATTCAGAAGCTGTACAGTCTTGACCCCGAGCAGAAGGAGATGTTAATTGAAGTCATTGAGAAGCTTCTGAAAGACAAGAGCACGATCAAGAAGTTGGTGTACGTTTACCTTGTCCGATATGCTGAAGAACAGCAGGACCTGGCTCTTCTGTCCATAAGCACTTTCCAGCGAGCTTTGAAGGACCCGAATCAACTAATCCGTGCAAGTGCCTTGAGAGTTTTGTCAAGTATTAGAGTGCCAATTATCGTGCCTGTCATGATGCTGGCTATTAAGGAGGCTTCAGCTGACCTGTCGCCATATGTTAGGAAGAATGCAGCCCATGCTATTCAGAAGCTGTACAGTCTTGACCCCGAGCAGAAGGAGATGTTAATTGAAGTCATTGAGAAGCTTCTGAAAGACAAGAGCACG
Peptide sequence:
MMLAIKEASADLSPYVRKNAAHAIQKLYSLDPEQKEMLIEVIEKLLKDKSTIKKLVYVYLVRYAEEQQDLALLSISTFQRALKDPNQLIRASALRVLSSIRVPIIVPVMMLAIKEASADLSPYVRKNAAHAIQKLYSLDPEQKEMLIEVIEKLLKDKST
IRESfinder result
IRESfinder score
0.61220027
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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