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mmu_circSpast_934
Basic information of circular RNA
PanCircBase ID:
mmu_circSpast_934
mm39_Chr. Position ID:
chr17|74674242|74684115|+
Gene name:
Spast
Transcript:
ENSMUST00000224711.2
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
10
Exon/intron indexes:
5,6,7,8,9,10,11,12,13,14
Exon/intron offsets:
0,1580,1944,4182,5011,6036,6415,6875,7835,9793
Genomic length:
9873
Exon/intron sizes in nt:
188,134,94,75,72,76,92,80,43,80
Flanking exon/introns:
chr17:74666344-74674242|chr17:74684115-74688964
Splice length:
934
Other database IDs:
CIRCpedia: MMU_CIRCpedia_28700, circAtlas: mmu-Spast_0017
circBase: hsa_circ_0053415, circAtlas: hsa-SPAST_0036, CIRCpedia: HSA_CIRCpedia_122277
Human Ortholog IDs:
Mature spliced Sequence:
AAAGTGGAGCAGTTCCGAAGAGGAAAGACCCCTTAACACATGCTAGTAATTCATTGCCTCGATCAAAAACTGTCCTGAAAAGTGGCTCCGCAGGGCTCTCCGGTCACCACAGGGCGCCTAGTTGCAGTGGTTTGTCCATGGTTTCTGGAGCAAGACCGGGACCTGGTCCTGCAGCTACCACACATAAGGGTACTCCAAAACCAAATAGAACCAACAAACCTTCTACTCCCACAACTGCAGTTCGGAAAAAGAAAGACTTGAAAAATTTTAGGAATGTGGACAGCAATCTTGCTAACCTTATAATGAATGAAATTGTTGACAATGGGACAGCTGTTAAGTTTGATGACATAGCCGGGCAGGAGCTGGCAAAGCAAGCGCTGCAGGAGATTGTCATCCTTCCTTCTCTGCGGCCTGAGTTGTTCACAGGGCTCAGAGCTCCTGCTAGAGGCTTGTTACTCTTCGGTCCGCCAGGAAACGGAAAAACAATGCTGGCTAAAGCAGTAGCTGCAGAGTCTAATGCGACCTTTTTCAACATAAGTGCTGCCAGTTTAACTTCAAAATATGTGGGAGAAGGAGAGAAATTGGTGAGAGCTCTCTTTGCTGTGGCTCGAGAACTTCAACCATCTATAATTTTTATAGATGAAGTTGACAGTCTTTTGTGTGAGAGACGGGAAGGGGAGCACGACGCTAGCAGACGGCTAAAGACGGAATTTTTAATAGAATTTGACGGGGTGCAATCTGCTGGAGATGACAGAGTACTTGTAATGGGTGCAACTAACAGGCCCCAAGAGCTTGATGAAGCTGTTCTCAGGCGTTTCATTAAACGGGTATATGTGTCCTTACCAAATGAGGAGACAAGACTCCTTCTGCTTAAAAACCTGTTGTGTAAACAAGGAAGTCCACTGACCCAAAAAGAACTCGCACAGCTTGCTAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GAGACAAGACTCCTTCTGCT
56.58
CGGAGCCACTTTTCAGGACA
60.25
173
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GAGACAAGACTCCTTCTGCTT
57.32
CGGAGCCACTTTTCAGGACA
60.25
173
PCR template sequence:
TGTCCTTACCAAATGAGGAGACAAGACTCCTTCTGCTTAAAAACCTGTTGTGTAAACAAGGAAGTCCACTGACCCAAAAAGAACTCGCACAGCTTGCTAGAAAGTGGAGCAGTTCCGAAGAGGAAAGACCCCTTAACACATGCTAGTAATTCATTGCCTCGATCAAAAACTGTCCTGAAAAGTGGCTCCGCAGGGCTCTC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
9
Interacting miRNAs (#binding sites)
mmu-miR-32-5p(1), mmu-miR-25-3p(1), mmu-miR-384-3p(1), mmu-miR-342-3p(1), mmu-miR-377-3p(1), mmu-miR-466a-5p(1), mmu-miR-1187(1), mmu-miR-466p-5p(1), mmu-miR-338-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CACAGCTTGCTAGAAAGTGGAGCAGT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCSPAST_934_ORF_1
1.0846
0.048327537
0.953076172
843
ORF sequence:
ATGGTTTCTGGAGCAAGACCGGGACCTGGTCCTGCAGCTACCACACATAAGGGTACTCCAAAACCAAATAGAACCAACAAACCTTCTACTCCCACAACTGCAGTTCGGAAAAAGAAAGACTTGAAAAATTTTAGGAATGTGGACAGCAATCTTGCTAACCTTATAATGAATGAAATTGTTGACAATGGGACAGCTGTTAAGTTTGATGACATAGCCGGGCAGGAGCTGGCAAAGCAAGCGCTGCAGGAGATTGTCATCCTTCCTTCTCTGCGGCCTGAGTTGTTCACAGGGCTCAGAGCTCCTGCTAGAGGCTTGTTACTCTTCGGTCCGCCAGGAAACGGAAAAACAATGCTGGCTAAAGCAGTAGCTGCAGAGTCTAATGCGACCTTTTTCAACATAAGTGCTGCCAGTTTAACTTCAAAATATGTGGGAGAAGGAGAGAAATTGGTGAGAGCTCTCTTTGCTGTGGCTCGAGAACTTCAACCATCTATAATTTTTATAGATGAAGTTGACAGTCTTTTGTGTGAGAGACGGGAAGGGGAGCACGACGCTAGCAGACGGCTAAAGACGGAATTTTTAATAGAATTTGACGGGGTGCAATCTGCTGGAGATGACAGAGTACTTGTAATGGGTGCAACTAACAGGCCCCAAGAGCTTGATGAAGCTGTTCTCAGGCGTTTCATTAAACGGGTATATGTGTCCTTACCAAATGAGGAGACAAGACTCCTTCTGCTTAAAAACCTGTTGTGTAAACAAGGAAGTCCACTGACCCAAAAAGAACTCGCACAGCTTGCTAGAAAGTGGAGCAGTTCCGAAGAGGAAAGACCCCTTAACACATGCTAG
Peptide sequence:
MVSGARPGPGPAATTHKGTPKPNRTNKPSTPTTAVRKKKDLKNFRNVDSNLANLIMNEIVDNGTAVKFDDIAGQELAKQALQEIVILPSLRPELFTGLRAPARGLLLFGPPGNGKTMLAKAVAAESNATFFNISAASLTSKYVGEGEKLVRALFAVARELQPSIIFIDEVDSLLCERREGEHDASRRLKTEFLIEFDGVQSAGDDRVLVMGATNRPQELDEAVLRRFIKRVYVSLPNEETRLLLLKNLLCKQGSPLTQKELAQLARKWSSSEEERPLNTC
IRESfinder result
IRESfinder score
0.596777433
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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