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mmu_circInvs_459
Basic information of circular RNA
PanCircBase ID:
mmu_circInvs_459
mm39_Chr. Position ID:
chr4|48385104|48392693|+
Gene name:
Invs
Transcript:
ENSMUST00000030029.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
5,6,7
Exon/intron offsets:
0,4854,7479
Genomic length:
7589
Exon/intron sizes in nt:
16,81,81,110
Flanking exon/introns:
chr4:48382278-48385104|chr4:48392693-48396234
Splice length:
459
Other database IDs:
circAtlas: mmu-Invs_0006
Human Ortholog IDs:
Mature spliced Sequence:
CAAACAGCTCTGCACTGGAGTGCCTACTACAACAACCCCGAGCACGCGAAGCTACTCATCAAGCACGACTCCAACATCGGGATTCCCGACGTGGAAGGCAAGATCCCACTCCACTGGGCAGCCAACCACAAAGACCCGAGTGCCGTGCACACAGTGAGATGTATCCTGGACGCTGCCCCGACAGAGTCTTTACTGAACTGGCAAGACTACGAGGGCCGCACACCTCTGCACTTTGCTGTCGCTGATGGAAACCTAACGGTGGTGGATGTCTTGACCTCCTATGAAAGCTGCAACATAACGTCTTACGATAACTTATTTCGAACCCCACTTCACTGGGCAGCCTTACTAGGTCATGCACAGATTGTCCATCTCCTTCTAGAAAGAAACAAGTCTGGAACGATCCCTTCGGACAGCCAGGGAGCAACACCCTTGCACTATGCAGCTCAGAGTAACTTTGCT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GATCCCTTCGGACAGCCAG
59.86
ATCCCGATGTTGGAGTCGTG
59.82
144
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GATCCCTTCGGACAGCCAG
59.86
CGATGTTGGAGTCGTGCTTG
59.56
140
PCR template sequence:
GATTGTCCATCTCCTTCTAGAAAGAAACAAGTCTGGAACGATCCCTTCGGACAGCCAGGGAGCAACACCCTTGCACTATGCAGCTCAGAGTAACTTTGCTCAAACAGCTCTGCACTGGAGTGCCTACTACAACAACCCCGAGCACGCGAAGCTACTCATCAAGCACGACTCCAACATCGGGATTCCCGACGTGGAAGGCA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
5
Interacting miRNAs (#binding sites)
mmu-miR-106b-5p(1), mmu-miR-298-5p(1), mmu-miR-153-3p(1), mmu-miR-301b-3p(1), mmu-miR-301a-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GAGTAACTTTGCTCAAACAGCTCTGC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCINVS_459_ORF_1
1.2492
0.008487336
0.166889199
180
ORF sequence:
ATGCAGCTCAGAGTAACTTTGCTCAAACAGCTCTGCACTGGAGTGCCTACTACAACAACCCCGAGCACGCGAAGCTACTCATCAAGCACGACTCCAACATCGGGATTCCCGACGTGGAAGGCAAGATCCCACTCCACTGGGCAGCCAACCACAAAGACCCGAGTGCCGTGCACACAGTGA
Peptide sequence:
MQLRVTLLKQLCTGVPTTTTPSTRSYSSSTTPTSGFPTWKARSHSTGQPTTKTRVPCTQ
IRESfinder result
IRESfinder score
0.486323117
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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