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mmu_circRcor3_366
Basic information of circular RNA
PanCircBase ID:
mmu_circRcor3_366
mm39_Chr. Position ID:
chr1|191807838|191810327|-
Gene name:
Rcor3
Transcript:
ENSMUST00000110849.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
7,6,5
Exon/intron offsets:
0,704,2327
Genomic length:
2489
Exon/intron sizes in nt:
79,125,162
Flanking exon/introns:
chr1:191804433-191807838|chr1:191810327-191812275
Splice length:
366
Other database IDs:
circBase: mmu_circ_0008570, CIRCpedia: MMU_CIRCpedia_12694, circAtlas: mmu-Rcor3_0011
Human Ortholog IDs:
Mature spliced Sequence:
GCGCTTGGCATGTTGTTCTGGCATAAACACAACATTGAGAAGTCCCTTGCGGACCTCCCTAACTTCACGCCCTTTCCGGATGAGTGGACAGTGGAAGACAAAGTCCTGTTTGAACAAGCCTTTAGTTTTCATGGGAAGAGCTTTCACAGGATTCAGCAAATGCTTCCAGATAAGACAATTGCAAGTCTTGTAAAGTATTACTATTCTTGGAAAAAAACTCGCTCAAGGACAAGTTTGATGGATCGCCAGGCTCGTAAACTAGCCAATAGACACAATCAGGGTGACAGTGATGATGACGTAGAAGAAGCTCACCCCATGGATGGAAACGACAGTGACTACGACCCAAAGAAAGAAGCCAAAAGAGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGAAGCTCACCCCATGGATG
59.45
GTCCACTCATCCGGAAAGGG
60.11
153
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GAAGAAGCTCACCCCATGGA
59.38
GTCCACTCATCCGGAAAGGG
60.11
155
PCR template sequence:
TAGACACAATCAGGGTGACAGTGATGATGACGTAGAAGAAGCTCACCCCATGGATGGAAACGACAGTGACTACGACCCAAAGAAAGAAGCCAAAAGAGAGGCGCTTGGCATGTTGTTCTGGCATAAACACAACATTGAGAAGTCCCTTGCGGACCTCCCTAACTTCACGCCCTTTCCGGATGAGTGGACAGTGGAAGACA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
1
Interacting miRNAs (#binding sites)
mmu-miR-499-5p(1)
siRNAs for circular RNA silencing
Junction sequence
AGCCAAAAGAGAGGCGCTTGGCATGT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCRCOR3_366_ORF_1
1.2225
0.212004565
0.956785543
723
ORF sequence:
ATGTTGTTCTGGCATAAACACAACATTGAGAAGTCCCTTGCGGACCTCCCTAACTTCACGCCCTTTCCGGATGAGTGGACAGTGGAAGACAAAGTCCTGTTTGAACAAGCCTTTAGTTTTCATGGGAAGAGCTTTCACAGGATTCAGCAAATGCTTCCAGATAAGACAATTGCAAGTCTTGTAAAGTATTACTATTCTTGGAAAAAAACTCGCTCAAGGACAAGTTTGATGGATCGCCAGGCTCGTAAACTAGCCAATAGACACAATCAGGGTGACAGTGATGATGACGTAGAAGAAGCTCACCCCATGGATGGAAACGACAGTGACTACGACCCAAAGAAAGAAGCCAAAAGAGAGGCGCTTGGCATGTTGTTCTGGCATAAACACAACATTGAGAAGTCCCTTGCGGACCTCCCTAACTTCACGCCCTTTCCGGATGAGTGGACAGTGGAAGACAAAGTCCTGTTTGAACAAGCCTTTAGTTTTCATGGGAAGAGCTTTCACAGGATTCAGCAAATGCTTCCAGATAAGACAATTGCAAGTCTTGTAAAGTATTACTATTCTTGGAAAAAAACTCGCTCAAGGACAAGTTTGATGGATCGCCAGGCTCGTAAACTAGCCAATAGACACAATCAGGGTGACAGTGATGATGACGTAGAAGAAGCTCACCCCATGGATGGAAACGACAGTGACTACGACCCAAAGAAAGAAGCCAAAAGAGAG
Peptide sequence:
MLFWHKHNIEKSLADLPNFTPFPDEWTVEDKVLFEQAFSFHGKSFHRIQQMLPDKTIASLVKYYYSWKKTRSRTSLMDRQARKLANRHNQGDSDDDVEEAHPMDGNDSDYDPKKEAKREALGMLFWHKHNIEKSLADLPNFTPFPDEWTVEDKVLFEQAFSFHGKSFHRIQQMLPDKTIASLVKYYYSWKKTRSRTSLMDRQARKLANRHNQGDSDDDVEEAHPMDGNDSDYDPKKEAKRE
IRESfinder result
IRESfinder score
0.477049099
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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