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mmu_circXrcc5_760
Basic information of circular RNA
PanCircBase ID:
mmu_circXrcc5_760
mm39_Chr. Position ID:
chr1|72358157|72378256|+
Gene name:
Xrcc5
Transcript:
ENSMUST00000027379.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
6,7,8,9,10,11
Exon/intron offsets:
0,6075,7217,10927,15637,19961
Genomic length:
20099
Exon/intron sizes in nt:
19,21,15,13,91,13,63,100
Flanking exon/introns:
chr1:72354740-72358157|chr1:72378256-72379147
Splice length:
760
Other database IDs:
CIRCpedia: MMU_CIRCpedia_214323, circAtlas: mmu-Xrcc5_0033
Human Ortholog IDs:
Mature spliced Sequence:
TTTGCCTTTTCCAATCGACAAGAATGGCGAGCCTGGCGAGAGAGGGGACCTGGACTCTGGCTTGGACCACCTCAAACCCTCCTTCCCTCAAAAAGGACTTACTGAGCAGCAAAAGGAAGGCATCCGCATGGTGACAAGGGTGATGCTGTCCTTAGAAGGCGAAGACGGGCTGGATGAAATTTATTCCTTCAGTGAGAGTCTACGACAACTGTGCGTCTTTAAGAAGATTGAGAGGCGTTCCATGCCCTGGCCCTGCCAACTGACCATTGGCCCCAACTTGTCTATAAAGATTGTAGCCTATAAATCGATTGTACAGGAGAAATTTAAGAAGAGTTGGGTAGTTGTGGACGCAAGAACGCTAAAGAAGGAAGATATACAAAAAGAGACTGTTTATTGCCTAAATGACGATGATGAAACTGAAGTTTCCAAAGAGGACACTATTCAAGGGTACCGCTACGGAAGTGATATCATTCCTTTTTCTAAAGTGGATGAGGAACAAATGAAATATAAATCTGAGGGGAAGTGCTTCTCTGTTTTGGGATTTTGTAAATCTTCTCAGGTTCATAGAAGATTCTTCATGGGACATCAAGTTCTAAAGGTCTTTGCAGCAAAGGATGATGAGGCGGCAGCTGTTGCCCTTTCCTCTCTCGTTCATGCTTTGGATGAGTTAAACATGGTCGCCATCGTCCGATATGCTTATGACAAAAGATCTAATCCTCAAGTTGGTGTAGCCTTCCCTTACATTAAGGACGCCTATGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CGCCATCGTCCGATATGCTT
60.67
GGAAGGAGGGTTTGAGGTGG
59.96
168
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CGCCATCGTCCGATATGCTT
60.67
GGGAAGGAGGGTTTGAGGTG
59.96
169
PCR template sequence:
GGATGAGTTAAACATGGTCGCCATCGTCCGATATGCTTATGACAAAAGATCTAATCCTCAAGTTGGTGTAGCCTTCCCTTACATTAAGGACGCCTATGAGTTTGCCTTTTCCAATCGACAAGAATGGCGAGCCTGGCGAGAGAGGGGACCTGGACTCTGGCTTGGACCACCTCAAACCCTCCTTCCCTCAAAAAGGACTT
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-212-3p(1), mmu-miR-690(1)
siRNAs for circular RNA silencing
Junction sequence
GGACGCCTATGAGTTTGCCTTTTCCA
siRNA sets
AAAGGCAAACTCATAGGCG, AAGGCAAACTCATAGGCGT, AAAAGGCAAACTCATAGGC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCXRCC5_760_ORF_1
1.0576
0.21522488
0.956419005
765
ORF sequence:
ATGAGTTTGCCTTTTCCAATCGACAAGAATGGCGAGCCTGGCGAGAGAGGGGACCTGGACTCTGGCTTGGACCACCTCAAACCCTCCTTCCCTCAAAAAGGACTTACTGAGCAGCAAAAGGAAGGCATCCGCATGGTGACAAGGGTGATGCTGTCCTTAGAAGGCGAAGACGGGCTGGATGAAATTTATTCCTTCAGTGAGAGTCTACGACAACTGTGCGTCTTTAAGAAGATTGAGAGGCGTTCCATGCCCTGGCCCTGCCAACTGACCATTGGCCCCAACTTGTCTATAAAGATTGTAGCCTATAAATCGATTGTACAGGAGAAATTTAAGAAGAGTTGGGTAGTTGTGGACGCAAGAACGCTAAAGAAGGAAGATATACAAAAAGAGACTGTTTATTGCCTAAATGACGATGATGAAACTGAAGTTTCCAAAGAGGACACTATTCAAGGGTACCGCTACGGAAGTGATATCATTCCTTTTTCTAAAGTGGATGAGGAACAAATGAAATATAAATCTGAGGGGAAGTGCTTCTCTGTTTTGGGATTTTGTAAATCTTCTCAGGTTCATAGAAGATTCTTCATGGGACATCAAGTTCTAAAGGTCTTTGCAGCAAAGGATGATGAGGCGGCAGCTGTTGCCCTTTCCTCTCTCGTTCATGCTTTGGATGAGTTAAACATGGTCGCCATCGTCCGATATGCTTATGACAAAAGATCTAATCCTCAAGTTGGTGTAGCCTTCCCTTACATTAAGGACGCCTATGAG
Peptide sequence:
MSLPFPIDKNGEPGERGDLDSGLDHLKPSFPQKGLTEQQKEGIRMVTRVMLSLEGEDGLDEIYSFSESLRQLCVFKKIERRSMPWPCQLTIGPNLSIKIVAYKSIVQEKFKKSWVVVDARTLKKEDIQKETVYCLNDDDETEVSKEDTIQGYRYGSDIIPFSKVDEEQMKYKSEGKCFSVLGFCKSSQVHRRFFMGHQVLKVFAAKDDEAAAVALSSLVHALDELNMVAIVRYAYDKRSNPQVGVAFPYIKDAYE
IRESfinder result
IRESfinder score
0.513872531
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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