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mmu_circMtpap_440
Basic information of circular RNA
PanCircBase ID:
mmu_circMtpap_440
mm39_Chr. Position ID:
chr18|4380672|4383413|+
Gene name:
Mtpap
Transcript:
ENSMUST00000234422.2
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
3,4
Exon/intron offsets:
0,2516
Genomic length:
2741
Exon/intron sizes in nt:
2,15,225
Flanking exon/introns:
chr18:4379741-4380672|chr18:4383413-4386170
Splice length:
440
Other database IDs:
circAtlas: mmu-Mtpap_0009
Human Ortholog IDs:
Mature spliced Sequence:
AATTTTGCCAAAAAGACAGTATAAAGTCATTGCAGAATGGAACACATACTCCAACCCAGAGCACAGAGGCTGCAATTCCATTTAAGTCACGGTTCTTGAACTTAAGGCTGAAGAATCCGTCTAGCCAAGTATCTGGACAGCCATTTGTACAGACAACCAACCAGTCACCTCCTTCAAGCAAAAAGCTCTTTGAATTACTGAGTTATGCAGAAAGCATAGAGGAGCAGCTGAACACTCTCCTGAAGGCCTTCCAGCTCACAGAAGAGAATATCAGGCTCCGCCATCTCACCTGCTCTCTGATTGAGGACATTGCTGCTGCATATTTTCCCAGCTGTGTCATCCGGCCCTTTGGCTCCTCAGTGAACACATTTGGCAAATTAGGATGTGATTTGGACATGTTTTTAGATCTAGATGAAACTGGAAAACTTGATGTTCACAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCCTTTGGCTCCTCAGTGAA
59.6
CTCTGTGCTCTGGGTTGGAG
60.04
164
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCCTTTGGCTCCTCAGTGAA
59.6
AATTGCAGCCTCTGTGCTCT
59.96
173
PCR template sequence:
CCGGCCCTTTGGCTCCTCAGTGAACACATTTGGCAAATTAGGATGTGATTTGGACATGTTTTTAGATCTAGATGAAACTGGAAAACTTGATGTTCACAAGAATTTTGCCAAAAAGACAGTATAAAGTCATTGCAGAATGGAACACATACTCCAACCCAGAGCACAGAGGCTGCAATTCCATTTAAGTCACGGTTCTTGAA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
3
Interacting miRNAs (#binding sites)
mmu-miR-1198-5p(2), mmu-miR-134-5p(1), mmu-miR-322-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TGATGTTCACAAGAATTTTGCCAAAA
siRNA sets
TTTTGGCAAAATTCTTGTG, AAAATTCTTGTGAACATCA, CAAAATTCTTGTGAACATC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCMTPAP_440_ORF_1
0.6507
-0.057009643
0.030352258
114
ORF sequence:
ATGAAACTGGAAAACTTGATGTTCACAAGAATTTTGCCAAAAAGACAGTATAAAGTCATTGCAGAATGGAACACATACTCCAACCCAGAGCACAGAGGCTGCAATTCCATTTAA
Peptide sequence:
MKLENLMFTRILPKRQYKVIAEWNTYSNPEHRGCNSI
IRESfinder result
IRESfinder score
0.719007539
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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