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mmu_circXrcc5_787
Basic information of circular RNA
PanCircBase ID:
mmu_circXrcc5_787
mm39_Chr. Position ID:
chr1|72373794|72396045|+
Gene name:
Xrcc5
Transcript:
ENSMUST00000027379.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
10,11,12,13,14,15,16
Exon/intron offsets:
0,4324,5353,8373,11592,19607,22181
Genomic length:
22251
Exon/intron sizes in nt:
63,138,91,134,197,94,70
Flanking exon/introns:
chr1:72369197-72373794|chr1:72396045-72420777
Splice length:
787
Other database IDs:
circAtlas: mmu-Xrcc5_0002
circAtlas: hsa-SCAF8_0001
Human Ortholog IDs:
Mature spliced Sequence:
GTTCATAGAAGATTCTTCATGGGACATCAAGTTCTAAAGGTCTTTGCAGCAAAGGATGATGAGGCGGCAGCTGTTGCCCTTTCCTCTCTCGTTCATGCTTTGGATGAGTTAAACATGGTCGCCATCGTCCGATATGCTTATGACAAAAGATCTAATCCTCAAGTTGGTGTAGCCTTCCCTTACATTAAGGACGCCTATGAGTGTTTAGTTTATGTGCAGCTGCCTTTCATGGAAGACTTGCGGCAATACATGTTTTCCTCGCTGAAAAACAATAAGAAGTGCACTCCCACAGAGGCCCAGCTGAGCGCTATTGATGATCTGATTGATTCCATGAGCTTGGTAAAGAAAAACGAGGAAGAAGACATTGTTGAAGATTTGTTTCCAACCTCCAAAATTCCAAATCCTGAATTTCAGCGATTGTACCAGTGTCTGCTGCATAGAGCCTTACATCTCCAGGAGCGGCTGCCCCCGATTCAGCAGCACATTTTGAATATGCTGGATCCCCCCACTGAGATGAAAGCAAAATGTGAGAGTCCACTCTCTAAAGTAAAGACCCTTTTCCCTCTCACAGAAGTCATCAAGAAAAAGAACCAAGTGACTGCTCAGGACGTTTTCCAAGACAATCATGAAGAGGGGCCCGCTGCTAAAAAATATAAAACTGAGAAAGAAGAAGATCACATCAGCATCTCCAGCCTGGCAGAAGGGAACATCACCAAGGTTGGAAGTGTGAATCCTGTTGAAAACTTCCGTTTCCTAGTAAGACAGAAGATTGCCAGCTTTGAGGAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGCAGAAGGGAACATCACCA
59.96
GAGAGGAAAGGGCAACAGCT
59.96
180
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGCAGAAGGGAACATCACCA
59.96
AGAGGAAAGGGCAACAGCTG
60.25
179
PCR template sequence:
TCCAGCCTGGCAGAAGGGAACATCACCAAGGTTGGAAGTGTGAATCCTGTTGAAAACTTCCGTTTCCTAGTAAGACAGAAGATTGCCAGCTTTGAGGAAGGTTCATAGAAGATTCTTCATGGGACATCAAGTTCTAAAGGTCTTTGCAGCAAAGGATGATGAGGCGGCAGCTGTTGCCCTTTCCTCTCTCGTTCATGCTT
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-296-5p(1), mmu-miR-503-5p(1), mmu-miR-191-5p(1), mmu-miR-676-3p(1), mmu-miR-690(1)
siRNAs for circular RNA silencing
Junction sequence
AGCTTTGAGGAAGGTTCATAGAAGAT
siRNA sets
ATCTTCTATGAACCTTCCT, TCTTCTATGAACCTTCCTC, CTTCTATGAACCTTCCTCA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCXRCC5_787_ORF_1
1.0486
0.232136063
0.961812568
777
ORF sequence:
ATGGGACATCAAGTTCTAAAGGTCTTTGCAGCAAAGGATGATGAGGCGGCAGCTGTTGCCCTTTCCTCTCTCGTTCATGCTTTGGATGAGTTAAACATGGTCGCCATCGTCCGATATGCTTATGACAAAAGATCTAATCCTCAAGTTGGTGTAGCCTTCCCTTACATTAAGGACGCCTATGAGTGTTTAGTTTATGTGCAGCTGCCTTTCATGGAAGACTTGCGGCAATACATGTTTTCCTCGCTGAAAAACAATAAGAAGTGCACTCCCACAGAGGCCCAGCTGAGCGCTATTGATGATCTGATTGATTCCATGAGCTTGGTAAAGAAAAACGAGGAAGAAGACATTGTTGAAGATTTGTTTCCAACCTCCAAAATTCCAAATCCTGAATTTCAGCGATTGTACCAGTGTCTGCTGCATAGAGCCTTACATCTCCAGGAGCGGCTGCCCCCGATTCAGCAGCACATTTTGAATATGCTGGATCCCCCCACTGAGATGAAAGCAAAATGTGAGAGTCCACTCTCTAAAGTAAAGACCCTTTTCCCTCTCACAGAAGTCATCAAGAAAAAGAACCAAGTGACTGCTCAGGACGTTTTCCAAGACAATCATGAAGAGGGGCCCGCTGCTAAAAAATATAAAACTGAGAAAGAAGAAGATCACATCAGCATCTCCAGCCTGGCAGAAGGGAACATCACCAAGGTTGGAAGTGTGAATCCTGTTGAAAACTTCCGTTTCCTAGTAAGACAGAAGATTGCCAGCTTTGAGGAAGGTTCATAG
Peptide sequence:
MGHQVLKVFAAKDDEAAAVALSSLVHALDELNMVAIVRYAYDKRSNPQVGVAFPYIKDAYECLVYVQLPFMEDLRQYMFSSLKNNKKCTPTEAQLSAIDDLIDSMSLVKKNEEEDIVEDLFPTSKIPNPEFQRLYQCLLHRALHLQERLPPIQQHILNMLDPPTEMKAKCESPLSKVKTLFPLTEVIKKKNQVTAQDVFQDNHEEGPAAKKYKTEKEEDHISISSLAEGNITKVGSVNPVENFRFLVRQKIASFEEGS
IRESfinder result
IRESfinder score
0.630648717
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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