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mmu_circMrpl1_346
Basic information of circular RNA
PanCircBase ID:
mmu_circMrpl1_346
mm39_Chr. Position ID:
chr5|96371629|96374227|+
Gene name:
Mrpl1
Transcript:
ENSMUST00000117766.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
4,5
Exon/intron offsets:
0,2514
Genomic length:
2598
Exon/intron sizes in nt:
262,84
Flanking exon/introns:
chr5:96361769-96371629|chr5:96374227-96375538
Splice length:
346
Other database IDs:
circBase: hsa_circ_0127009, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_124000
Human Ortholog IDs:
Mature spliced Sequence:
GCCTGCAAGAAAAATTAAAAAAGGTGCCAAGGAAAAGACATCAGATGAAAAACCAGTAGATGATATAGAGAAAATAAAGTCATATACGTACATGGAAAGTGATCCTGAAGATGATGTCTACTTAAAACGCTTATACCCACGGCGGATCTATGAAGTAGAGAAAGCTATTCACTTACTTAAGAAGTTTCAAGTTCTGGACTTTACCAATCCAAAGCAAGGTGTTTATCTTGACTTAACATTAGATATGGCATTGGGGAAAAAGAAAACAGTGGAGCCATTTGCCAGTGTTATTGCTTTACCACACCTCTTCTCCTCAGAAGTCAACAAGGTTGCTGTGTTTACAGCG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGCATTGGGGAAAAAGAAAACA
58.19
TGATGTCTTTTCCTTGGCACCT
60.16
143
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGCATTGGGGAAAAAGAAAACAG
59.19
TGATGTCTTTTCCTTGGCACCT
60.16
143
PCR template sequence:
GGCATTGGGGAAAAAGAAAACAGTGGAGCCATTTGCCAGTGTTATTGCTTTACCACACCTCTTCTCCTCAGAAGTCAACAAGGTTGCTGTGTTTACAGCGGCCTGCAAGAAAAATTAAAAAAGGTGCCAAGGAAAAGACATCAGATGAAAAACCAGTAGATGATATAGAGAAAATAAAGTCATATACGTACATGGAAAGT
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-135a-5p(1), mmu-miR-29b-1-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TGTGTTTACAGCGGCCTGCAAGAAAA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCMRPL1_346_ORF_1
0.8068
0.117501396
0.212741584
273
ORF sequence:
ATGGAAAGTGATCCTGAAGATGATGTCTACTTAAAACGCTTATACCCACGGCGGATCTATGAAGTAGAGAAAGCTATTCACTTACTTAAGAAGTTTCAAGTTCTGGACTTTACCAATCCAAAGCAAGGTGTTTATCTTGACTTAACATTAGATATGGCATTGGGGAAAAAGAAAACAGTGGAGCCATTTGCCAGTGTTATTGCTTTACCACACCTCTTCTCCTCAGAAGTCAACAAGGTTGCTGTGTTTACAGCGGCCTGCAAGAAAAATTAA
Peptide sequence:
MESDPEDDVYLKRLYPRRIYEVEKAIHLLKKFQVLDFTNPKQGVYLDLTLDMALGKKKTVEPFASVIALPHLFSSEVNKVAVFTAACKKN
IRESfinder result
IRESfinder score
0.548921383
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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