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mmu_circPum1_357
Basic information of circular RNA
PanCircBase ID:
mmu_circPum1_357
mm39_Chr. Position ID:
chr4|130428352|130446662|+
Gene name:
Pum1
Transcript:
ENSMUST00000030315.13
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
3,4,5
Exon/intron offsets:
0,17112,18131
Genomic length:
18310
Exon/intron sizes in nt:
69,109,179
Flanking exon/introns:
chr4:130396609-130428352|chr4:130446662-130455308
Splice length:
357
Other database IDs:
CIRCpedia: MMU_CIRCpedia_7551, circAtlas: mmu-Pum1_0009
circBase: hsa_circ_0011257, circAtlas: hsa-PUM1_0007, CIRCpedia: HSA_CIRCpedia_31333
Human Ortholog IDs:
Mature spliced Sequence:
GTACGCTCTATGGATGAATTGAATCATGATTTTCAAGCACTTGCTCTGGAAGGGAGAGCTATGGGCGAGCAGCTCTTGCCAGGTAAAAAGTTTTGGGAAACAGATGAATCCAGCAAAGATGGACCAAAAGGAATATTCCTGGGTGATCAATGGCGAGACAGTGCCTGGGGAACATCAGATCATTCAGTTTCCCAGCCAATCATGGTGCAGAGAAGACCTGGTCAGAGTTTCCATGTGAACAGTGAGGTCAATTCTGTACTGTCCCCACGGTCGGAGAGTGGGGGACTAGGCGTTAGCATGGTGGAGTATGTGTTGAGCTCATCCCCGGGCGACTCCTGTCTAAGAAAAGGAGGATTT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACTAGGCGTTAGCATGGTGG
59.82
CAAGAGCTGCTCGCCCATAG
60.88
151
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACTAGGCGTTAGCATGGTGG
59.82
CTGCTCGCCCATAGCTCTC
60.01
145
PCR template sequence:
ACTGTCCCCACGGTCGGAGAGTGGGGGACTAGGCGTTAGCATGGTGGAGTATGTGTTGAGCTCATCCCCGGGCGACTCCTGTCTAAGAAAAGGAGGATTTGTACGCTCTATGGATGAATTGAATCATGATTTTCAAGCACTTGCTCTGGAAGGGAGAGCTATGGGCGAGCAGCTCTTGCCAGGTAAAAAGTTTTGGGAAA
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-31-5p(1), mmu-miR-101a-3p(1)
siRNAs for circular RNA silencing
Junction sequence
AAAAGGAGGATTTGTACGCTCTATGG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCPUM1_357_ORF_1
0.5809
0.092458029
0.783462372
705
ORF sequence:
ATGGATGAATTGAATCATGATTTTCAAGCACTTGCTCTGGAAGGGAGAGCTATGGGCGAGCAGCTCTTGCCAGGTAAAAAGTTTTGGGAAACAGATGAATCCAGCAAAGATGGACCAAAAGGAATATTCCTGGGTGATCAATGGCGAGACAGTGCCTGGGGAACATCAGATCATTCAGTTTCCCAGCCAATCATGGTGCAGAGAAGACCTGGTCAGAGTTTCCATGTGAACAGTGAGGTCAATTCTGTACTGTCCCCACGGTCGGAGAGTGGGGGACTAGGCGTTAGCATGGTGGAGTATGTGTTGAGCTCATCCCCGGGCGACTCCTGTCTAAGAAAAGGAGGATTTGTACGCTCTATGGATGAATTGAATCATGATTTTCAAGCACTTGCTCTGGAAGGGAGAGCTATGGGCGAGCAGCTCTTGCCAGGTAAAAAGTTTTGGGAAACAGATGAATCCAGCAAAGATGGACCAAAAGGAATATTCCTGGGTGATCAATGGCGAGACAGTGCCTGGGGAACATCAGATCATTCAGTTTCCCAGCCAATCATGGTGCAGAGAAGACCTGGTCAGAGTTTCCATGTGAACAGTGAGGTCAATTCTGTACTGTCCCCACGGTCGGAGAGTGGGGGACTAGGCGTTAGCATGGTGGAGTATGTGTTGAGCTCATCCCCGGGCGACTCCTGTCTAAGAAAAGGAGGATTT
Peptide sequence:
MDELNHDFQALALEGRAMGEQLLPGKKFWETDESSKDGPKGIFLGDQWRDSAWGTSDHSVSQPIMVQRRPGQSFHVNSEVNSVLSPRSESGGLGVSMVEYVLSSSPGDSCLRKGGFVRSMDELNHDFQALALEGRAMGEQLLPGKKFWETDESSKDGPKGIFLGDQWRDSAWGTSDHSVSQPIMVQRRPGQSFHVNSEVNSVLSPRSESGGLGVSMVEYVLSSSPGDSCLRKGGF
IRESfinder result
IRESfinder score
0.498897107
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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