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mmu_circXrcc5_770
Basic information of circular RNA
PanCircBase ID:
mmu_circXrcc5_770
mm39_Chr. Position ID:
chr1|72382167|72422928|+
Gene name:
Xrcc5
Transcript:
ENSMUST00000027379.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
13,14,15,16,17,18,19
Exon/intron offsets:
0,3219,11234,13808,38610,40349,40693
Genomic length:
40761
Exon/intron sizes in nt:
134,197,94,70,110,97,68
Flanking exon/introns:
chr1:72379238-72382167|chr1:72422928-72433054
Splice length:
770
Other database IDs:
CIRCpedia: MMU_CIRCpedia_37787, circAtlas: mmu-Xrcc5_0030
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_135375
Human Ortholog IDs:
Mature spliced Sequence:
AGGCCCAGCTGAGCGCTATTGATGATCTGATTGATTCCATGAGCTTGGTAAAGAAAAACGAGGAAGAAGACATTGTTGAAGATTTGTTTCCAACCTCCAAAATTCCAAATCCTGAATTTCAGCGATTGTACCAGTGTCTGCTGCATAGAGCCTTACATCTCCAGGAGCGGCTGCCCCCGATTCAGCAGCACATTTTGAATATGCTGGATCCCCCCACTGAGATGAAAGCAAAATGTGAGAGTCCACTCTCTAAAGTAAAGACCCTTTTCCCTCTCACAGAAGTCATCAAGAAAAAGAACCAAGTGACTGCTCAGGACGTTTTCCAAGACAATCATGAAGAGGGGCCCGCTGCTAAAAAATATAAAACTGAGAAAGAAGAAGATCACATCAGCATCTCCAGCCTGGCAGAAGGGAACATCACCAAGGTTGGAAGTGTGAATCCTGTTGAAAACTTCCGTTTCCTAGTAAGACAGAAGATTGCCAGCTTTGAGGAAGCGAGTCTCCAGTTAATAAGTCACATCGAACAATTTTTGGATACCAATGAAACACTGTATTTTATGAAAAGTATGGACTGCATCAAAGCTTTCCGGGAGGAGGCCATTCAGTTTTCAGAAGAACAGCGCTTCAACAGCTTCCTGGAAGCCCTTCGAGAGAAAGTGGAAATTAAGCAATTAAATCATTTCTGGGAAATTGTTGTTCAGGATGGAGTTACTCTGATCACCAAAGACGAAGGCCCAGGAAGCTCTATCACAGCTGAGGAAGCCACAAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AAAGACGAAGGCCCAGGAAG
59.96
TGGAAACAAATCTTCAACAATGTCT
57.89
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CAAAGACGAAGGCCCAGGAA
60.25
TGGAAACAAATCTTCAACAATGTCT
57.89
141
PCR template sequence:
ATTAAATCATTTCTGGGAAATTGTTGTTCAGGATGGAGTTACTCTGATCACCAAAGACGAAGGCCCAGGAAGCTCTATCACAGCTGAGGAAGCCACAAAGAGGCCCAGCTGAGCGCTATTGATGATCTGATTGATTCCATGAGCTTGGTAAAGAAAAACGAGGAAGAAGACATTGTTGAAGATTTGTTTCCAACCTCCAA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
8
Interacting miRNAs (#binding sites)
mmu-miR-9-5p(1), mmu-miR-296-5p(1), mmu-miR-503-5p(1), mmu-miR-191-5p(1), mmu-miR-676-3p(1), mmu-miR-382-5p(1), mmu-miR-383-5p(1), mmu-miR-384-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GGAAGCCACAAAGAGGCCCAGCTGAG
siRNA sets
TCAGCTGGGCCTCTTTGTG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCXRCC5_770_ORF_1
1.064
0.22552818
0.952147297
744
ORF sequence:
ATGAGCTTGGTAAAGAAAAACGAGGAAGAAGACATTGTTGAAGATTTGTTTCCAACCTCCAAAATTCCAAATCCTGAATTTCAGCGATTGTACCAGTGTCTGCTGCATAGAGCCTTACATCTCCAGGAGCGGCTGCCCCCGATTCAGCAGCACATTTTGAATATGCTGGATCCCCCCACTGAGATGAAAGCAAAATGTGAGAGTCCACTCTCTAAAGTAAAGACCCTTTTCCCTCTCACAGAAGTCATCAAGAAAAAGAACCAAGTGACTGCTCAGGACGTTTTCCAAGACAATCATGAAGAGGGGCCCGCTGCTAAAAAATATAAAACTGAGAAAGAAGAAGATCACATCAGCATCTCCAGCCTGGCAGAAGGGAACATCACCAAGGTTGGAAGTGTGAATCCTGTTGAAAACTTCCGTTTCCTAGTAAGACAGAAGATTGCCAGCTTTGAGGAAGCGAGTCTCCAGTTAATAAGTCACATCGAACAATTTTTGGATACCAATGAAACACTGTATTTTATGAAAAGTATGGACTGCATCAAAGCTTTCCGGGAGGAGGCCATTCAGTTTTCAGAAGAACAGCGCTTCAACAGCTTCCTGGAAGCCCTTCGAGAGAAAGTGGAAATTAAGCAATTAAATCATTTCTGGGAAATTGTTGTTCAGGATGGAGTTACTCTGATCACCAAAGACGAAGGCCCAGGAAGCTCTATCACAGCTGAGGAAGCCACAAAGAGGCCCAGCTGA
Peptide sequence:
MSLVKKNEEEDIVEDLFPTSKIPNPEFQRLYQCLLHRALHLQERLPPIQQHILNMLDPPTEMKAKCESPLSKVKTLFPLTEVIKKKNQVTAQDVFQDNHEEGPAAKKYKTEKEEDHISISSLAEGNITKVGSVNPVENFRFLVRQKIASFEEASLQLISHIEQFLDTNETLYFMKSMDCIKAFREEAIQFSEEQRFNSFLEALREKVEIKQLNHFWEIVVQDGVTLITKDEGPGSSITAEEATKRPS
IRESfinder result
IRESfinder score
0.64982268
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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