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mmu_circParn_387
Basic information of circular RNA
PanCircBase ID:
mmu_circParn_387
mm39_Chr. Position ID:
chr16|13384433|13425170|-
Gene name:
Parn
Transcript:
ENSMUST00000058884.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
22,21,20,19
Exon/intron offsets:
0,36458,39578,40681
Genomic length:
40737
Exon/intron sizes in nt:
169,75,87,56
Flanking exon/introns:
chr16:13359112-13384433|chr16:13425170-13443372
Splice length:
387
Other database IDs:
CIRCpedia: MMU_CIRCpedia_214163, circAtlas: mmu-Parn_0018
circBase: hsa_circ_0037953, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_16413
Human Ortholog IDs:
Mature spliced Sequence:
GTTATTTCTTATGAGGGTCATGGATATTCCCTATTTAAACTTGGAAGGGCCAGACTTGCAGCCTAAGCGGGACCATGTTCTCCACGTGACCTTCCCCAAAGAGTGGAAAACCAGCGACCTGTACCAGCTCTTCAGCGCCTTCGGTAACATTCAGATATCCTGGATTGATGATACATCAGCCTTCGTTTCTCTCAGCCAGCCAGAACAAGTACAAATTGCCGTTAATACCAGCAAGTACGCTGAAAGTTATCGGATCCAGACCTATGCTGAGTATGTGGGAAAGAAGCAGAAAGGCAAGCAGGTCAAGAGGAAGTGGACAGAAGACAGTTGGAAGGAGGTGGACAGAAAGCGGCCCCACATGCAGGGCCCCTGTTACCACAGCAACAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AAGGAGGTGGACAGAAAGCG
59.96
GGTCACGTGGAGAACATGGT
59.97
147
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AAGGAGGTGGACAGAAAGCG
59.96
TCACGTGGAGAACATGGTCC
59.68
145
PCR template sequence:
AGAAAGGCAAGCAGGTCAAGAGGAAGTGGACAGAAGACAGTTGGAAGGAGGTGGACAGAAAGCGGCCCCACATGCAGGGCCCCTGTTACCACAGCAACAGGTTATTTCTTATGAGGGTCATGGATATTCCCTATTTAAACTTGGAAGGGCCAGACTTGCAGCCTAAGCGGGACCATGTTCTCCACGTGACCTTCCCCAAA
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-194-5p(1), mmu-miR-188-3p(1)
siRNAs for circular RNA silencing
Junction sequence
ACCACAGCAACAGGTTATTTCTTATG
siRNA sets
TAAGAAATAACCTGTTGCT, AAGAAATAACCTGTTGCTG, ATAAGAAATAACCTGTTGC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCPARN_387_ORF_1
0.9646
0.326241734
0.966602113
762
ORF sequence:
ATGAGGGTCATGGATATTCCCTATTTAAACTTGGAAGGGCCAGACTTGCAGCCTAAGCGGGACCATGTTCTCCACGTGACCTTCCCCAAAGAGTGGAAAACCAGCGACCTGTACCAGCTCTTCAGCGCCTTCGGTAACATTCAGATATCCTGGATTGATGATACATCAGCCTTCGTTTCTCTCAGCCAGCCAGAACAAGTACAAATTGCCGTTAATACCAGCAAGTACGCTGAAAGTTATCGGATCCAGACCTATGCTGAGTATGTGGGAAAGAAGCAGAAAGGCAAGCAGGTCAAGAGGAAGTGGACAGAAGACAGTTGGAAGGAGGTGGACAGAAAGCGGCCCCACATGCAGGGCCCCTGTTACCACAGCAACAGGTTATTTCTTATGAGGGTCATGGATATTCCCTATTTAAACTTGGAAGGGCCAGACTTGCAGCCTAAGCGGGACCATGTTCTCCACGTGACCTTCCCCAAAGAGTGGAAAACCAGCGACCTGTACCAGCTCTTCAGCGCCTTCGGTAACATTCAGATATCCTGGATTGATGATACATCAGCCTTCGTTTCTCTCAGCCAGCCAGAACAAGTACAAATTGCCGTTAATACCAGCAAGTACGCTGAAAGTTATCGGATCCAGACCTATGCTGAGTATGTGGGAAAGAAGCAGAAAGGCAAGCAGGTCAAGAGGAAGTGGACAGAAGACAGTTGGAAGGAGGTGGACAGAAAGCGGCCCCACATGCAGGGCCCCTGTTACCACAGCAAC
Peptide sequence:
MRVMDIPYLNLEGPDLQPKRDHVLHVTFPKEWKTSDLYQLFSAFGNIQISWIDDTSAFVSLSQPEQVQIAVNTSKYAESYRIQTYAEYVGKKQKGKQVKRKWTEDSWKEVDRKRPHMQGPCYHSNRLFLMRVMDIPYLNLEGPDLQPKRDHVLHVTFPKEWKTSDLYQLFSAFGNIQISWIDDTSAFVSLSQPEQVQIAVNTSKYAESYRIQTYAEYVGKKQKGKQVKRKWTEDSWKEVDRKRPHMQGPCYHSN
IRESfinder result
IRESfinder score
0.552008365
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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