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mmu_circUtrn_327
Basic information of circular RNA
PanCircBase ID:
mmu_circUtrn_327
mm39_Chr. Position ID:
chr10|12516670|12519355|-
Gene name:
Utrn
Transcript:
ENSMUST00000076817.5
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
47,46
Exon/intron offsets:
0,2476
Genomic length:
2685
Exon/intron sizes in nt:
1,18,209
Flanking exon/introns:
chr10:12512545-12516670|chr10:12519355-12524886
Splice length:
327
Other database IDs:
circAtlas: mmu-Utrn_0107
Human Ortholog IDs:
Mature spliced Sequence:
CTCATCCCAACGTCCAAAAGGTGGTGCTAGTATCATCTGCATCAGATGCTCCTCTGCGTGGCGGCCTGGAAATCTCGGTTCCTGCTGATTTGGATAAAACCATCACAGAACTGGCTGACTGGCTGGTATTGATCGACCAAATGCTGAAGTCCAACATTGTCACTGTGGGGGACGTGAAAGAGATCAATAAGACAGTTTCCCGGATGAAAATCACAAAGGCTGATTTAGAACAACGCCATCCTCAGCTTGATTGTGTATTTACCTTGGCCCAAAATTTGAAAAACAAAGCTTCCAGTTCAGATGTGAGGACAGCAATCACAGAAAAAT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACGCCATCCTCAGCTTGATT
59.75
AGGAACCGAGATTTCCAGGC
59.75
178
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AACGCCATCCTCAGCTTGAT
59.75
AGGAACCGAGATTTCCAGGC
59.75
179
PCR template sequence:
GAACAACGCCATCCTCAGCTTGATTGTGTATTTACCTTGGCCCAAAATTTGAAAAACAAAGCTTCCAGTTCAGATGTGAGGACAGCAATCACAGAAAAATCTCATCCCAACGTCCAAAAGGTGGTGCTAGTATCATCTGCATCAGATGCTCCTCTGCGTGGCGGCCTGGAAATCTCGGTTCCTGCTGATTTGGATAAAAC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
3
Interacting miRNAs (#binding sites)
mmu-miR-29a-3p(1), mmu-miR-298-5p(1), mmu-miR-214-3p(1)
siRNAs for circular RNA silencing
Junction sequence
ATCACAGAAAAATCTCATCCCAACGT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCUTRN_327_ORF_1
1.0459
0.218129349
0.782519474
513
ORF sequence:
ATGCTGAAGTCCAACATTGTCACTGTGGGGGACGTGAAAGAGATCAATAAGACAGTTTCCCGGATGAAAATCACAAAGGCTGATTTAGAACAACGCCATCCTCAGCTTGATTGTGTATTTACCTTGGCCCAAAATTTGAAAAACAAAGCTTCCAGTTCAGATGTGAGGACAGCAATCACAGAAAAATCTCATCCCAACGTCCAAAAGGTGGTGCTAGTATCATCTGCATCAGATGCTCCTCTGCGTGGCGGCCTGGAAATCTCGGTTCCTGCTGATTTGGATAAAACCATCACAGAACTGGCTGACTGGCTGGTATTGATCGACCAAATGCTGAAGTCCAACATTGTCACTGTGGGGGACGTGAAAGAGATCAATAAGACAGTTTCCCGGATGAAAATCACAAAGGCTGATTTAGAACAACGCCATCCTCAGCTTGATTGTGTATTTACCTTGGCCCAAAATTTGAAAAACAAAGCTTCCAGTTCAGATGTGAGGACAGCAATCACAGAAAAA
Peptide sequence:
MLKSNIVTVGDVKEINKTVSRMKITKADLEQRHPQLDCVFTLAQNLKNKASSSDVRTAITEKSHPNVQKVVLVSSASDAPLRGGLEISVPADLDKTITELADWLVLIDQMLKSNIVTVGDVKEINKTVSRMKITKADLEQRHPQLDCVFTLAQNLKNKASSSDVRTAITEK
IRESfinder result
IRESfinder score
0.598382171
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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