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mmu_circSpast_858
Basic information of circular RNA
PanCircBase ID:
mmu_circSpast_858
mm39_Chr. Position ID:
chr17|74675822|74694069|+
Gene name:
Spast
Transcript:
ENSMUST00000224711.2
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
11
Exon/intron indexes:
6,7,8,9,10,11,12,13,14,15,16
Exon/intron offsets:
0,364,2602,3431,4456,4835,5295,6255,8213,13142,18206
Genomic length:
18247
Exon/intron sizes in nt:
134,94,75,72,76,92,80,43,80,71,41
Flanking exon/introns:
chr17:74674430-74675822|chr17:74694069-74695184
Splice length:
858
Other database IDs:
circAtlas: hsa-SPAST_0111
Human Ortholog IDs:
Mature spliced Sequence:
GGTACTCCAAAACCAAATAGAACCAACAAACCTTCTACTCCCACAACTGCAGTTCGGAAAAAGAAAGACTTGAAAAATTTTAGGAATGTGGACAGCAATCTTGCTAACCTTATAATGAATGAAATTGTTGACAATGGGACAGCTGTTAAGTTTGATGACATAGCCGGGCAGGAGCTGGCAAAGCAAGCGCTGCAGGAGATTGTCATCCTTCCTTCTCTGCGGCCTGAGTTGTTCACAGGGCTCAGAGCTCCTGCTAGAGGCTTGTTACTCTTCGGTCCGCCAGGAAACGGAAAAACAATGCTGGCTAAAGCAGTAGCTGCAGAGTCTAATGCGACCTTTTTCAACATAAGTGCTGCCAGTTTAACTTCAAAATATGTGGGAGAAGGAGAGAAATTGGTGAGAGCTCTCTTTGCTGTGGCTCGAGAACTTCAACCATCTATAATTTTTATAGATGAAGTTGACAGTCTTTTGTGTGAGAGACGGGAAGGGGAGCACGACGCTAGCAGACGGCTAAAGACGGAATTTTTAATAGAATTTGACGGGGTGCAATCTGCTGGAGATGACAGAGTACTTGTAATGGGTGCAACTAACAGGCCCCAAGAGCTTGATGAAGCTGTTCTCAGGCGTTTCATTAAACGGGTATATGTGTCCTTACCAAATGAGGAGACAAGACTCCTTCTGCTTAAAAACCTGTTGTGTAAACAAGGAAGTCCACTGACCCAAAAAGAACTCGCACAGCTTGCTAGAATGACCGATGGATACTCTGGAAGTGATCTGACCGCTTTGGCCAAGGATGCAGCCCTGGGTCCTATCCGAGAACTGAAGCCAGAGCAGGTGAAGAATATGTCTGCCAGTGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCTGGAAGTGATCTGACCGC
59.47
CGAACTGCAGTTGTGGGAGT
60.53
152
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CTGGAAGTGATCTGACCGCT
59.47
CGAACTGCAGTTGTGGGAGT
60.53
151
PCR template sequence:
ATACTCTGGAAGTGATCTGACCGCTTTGGCCAAGGATGCAGCCCTGGGTCCTATCCGAGAACTGAAGCCAGAGCAGGTGAAGAATATGTCTGCCAGTGAGGGTACTCCAAAACCAAATAGAACCAACAAACCTTCTACTCCCACAACTGCAGTTCGGAAAAAGAAAGACTTGAAAAATTTTAGGAATGTGGACAGCAATC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
7
Interacting miRNAs (#binding sites)
mmu-miR-32-5p(1), mmu-miR-25-3p(1), mmu-miR-362-5p(1), mmu-miR-384-3p(1), mmu-miR-342-3p(1), mmu-miR-377-3p(1), mmu-miR-338-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GTCTGCCAGTGAGGGTACTCCAAAAC
siRNA sets
TTTGGAGTACCCTCACTGG,TTTTGGAGTACCCTCACTG,GTTTTGGAGTACCCTCACT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCSPAST_858_ORF_1
1.0773
0.134576047
0.999853885
1602
ORF sequence:
ATGAATGAAATTGTTGACAATGGGACAGCTGTTAAGTTTGATGACATAGCCGGGCAGGAGCTGGCAAAGCAAGCGCTGCAGGAGATTGTCATCCTTCCTTCTCTGCGGCCTGAGTTGTTCACAGGGCTCAGAGCTCCTGCTAGAGGCTTGTTACTCTTCGGTCCGCCAGGAAACGGAAAAACAATGCTGGCTAAAGCAGTAGCTGCAGAGTCTAATGCGACCTTTTTCAACATAAGTGCTGCCAGTTTAACTTCAAAATATGTGGGAGAAGGAGAGAAATTGGTGAGAGCTCTCTTTGCTGTGGCTCGAGAACTTCAACCATCTATAATTTTTATAGATGAAGTTGACAGTCTTTTGTGTGAGAGACGGGAAGGGGAGCACGACGCTAGCAGACGGCTAAAGACGGAATTTTTAATAGAATTTGACGGGGTGCAATCTGCTGGAGATGACAGAGTACTTGTAATGGGTGCAACTAACAGGCCCCAAGAGCTTGATGAAGCTGTTCTCAGGCGTTTCATTAAACGGGTATATGTGTCCTTACCAAATGAGGAGACAAGACTCCTTCTGCTTAAAAACCTGTTGTGTAAACAAGGAAGTCCACTGACCCAAAAAGAACTCGCACAGCTTGCTAGAATGACCGATGGATACTCTGGAAGTGATCTGACCGCTTTGGCCAAGGATGCAGCCCTGGGTCCTATCCGAGAACTGAAGCCAGAGCAGGTGAAGAATATGTCTGCCAGTGAGGGTACTCCAAAACCAAATAGAACCAACAAACCTTCTACTCCCACAACTGCAGTTCGGAAAAAGAAAGACTTGAAAAATTTTAGGAATGTGGACAGCAATCTTGCTAACCTTATAATGAATGAAATTGTTGACAATGGGACAGCTGTTAAGTTTGATGACATAGCCGGGCAGGAGCTGGCAAAGCAAGCGCTGCAGGAGATTGTCATCCTTCCTTCTCTGCGGCCTGAGTTGTTCACAGGGCTCAGAGCTCCTGCTAGAGGCTTGTTACTCTTCGGTCCGCCAGGAAACGGAAAAACAATGCTGGCTAAAGCAGTAGCTGCAGAGTCTAATGCGACCTTTTTCAACATAAGTGCTGCCAGTTTAACTTCAAAATATGTGGGAGAAGGAGAGAAATTGGTGAGAGCTCTCTTTGCTGTGGCTCGAGAACTTCAACCATCTATAATTTTTATAGATGAAGTTGACAGTCTTTTGTGTGAGAGACGGGAAGGGGAGCACGACGCTAGCAGACGGCTAAAGACGGAATTTTTAATAGAATTTGACGGGGTGCAATCTGCTGGAGATGACAGAGTACTTGTAATGGGTGCAACTAACAGGCCCCAAGAGCTTGATGAAGCTGTTCTCAGGCGTTTCATTAAACGGGTATATGTGTCCTTACCAAATGAGGAGACAAGACTCCTTCTGCTTAAAAACCTGTTGTGTAAACAAGGAAGTCCACTGACCCAAAAAGAACTCGCACAGCTTGCTAGAATGACCGATGGATACTCTGGAAGTGATCTGACCGCTTTGGCCAAGGATGCAGCCCTGGGTCCTATCCGAGAACTGAAGCCAGAGCAGGTGAAGAATATGTCTGCCAGTGAG
Peptide sequence:
MNEIVDNGTAVKFDDIAGQELAKQALQEIVILPSLRPELFTGLRAPARGLLLFGPPGNGKTMLAKAVAAESNATFFNISAASLTSKYVGEGEKLVRALFAVARELQPSIIFIDEVDSLLCERREGEHDASRRLKTEFLIEFDGVQSAGDDRVLVMGATNRPQELDEAVLRRFIKRVYVSLPNEETRLLLLKNLLCKQGSPLTQKELAQLARMTDGYSGSDLTALAKDAALGPIRELKPEQVKNMSASEGTPKPNRTNKPSTPTTAVRKKKDLKNFRNVDSNLANLIMNEIVDNGTAVKFDDIAGQELAKQALQEIVILPSLRPELFTGLRAPARGLLLFGPPGNGKTMLAKAVAAESNATFFNISAASLTSKYVGEGEKLVRALFAVARELQPSIIFIDEVDSLLCERREGEHDASRRLKTEFLIEFDGVQSAGDDRVLVMGATNRPQELDEAVLRRFIKRVYVSLPNEETRLLLLKNLLCKQGSPLTQKELAQLARMTDGYSGSDLTALAKDAALGPIRELKPEQVKNMSASE
IRESfinder result
IRESfinder score
0.490289184
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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