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mmu_circFam193a_736
Basic information of circular RNA
PanCircBase ID:
mmu_circFam193a_736
mm39_Chr. Position ID:
chr5|34593794|34600798|+
Gene name:
Fam193a
Transcript:
ENSMUST00000180376.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
7,8,9,10,11
Exon/intron offsets:
0,2860,3670,3897,6850
Genomic length:
7004
Exon/intron sizes in nt:
1,48,78,11,32,43,154
Flanking exon/introns:
chr5:34588600-34593794|chr5:34600798-34600922
Splice length:
736
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GCTAGGAACCACCACACACGACACCTGCACTGAAGACATGTACAGCACCTTGCTGCAGAGGTACCAGCGTTCTGAGGAAGAGTTGCGCAAAGTTGCTGAGGAGTGGCTGGAGTGTCAGAAGAGGATCGATGCCTATGTGGATGAGCAGATGACAATGAAAACCAAACAGCGCATGTTAACAGAAGACTGGGAGATTTTTAAACAAAGGAGATTAATTGAAGAACAGTTGACTAATAAGAAAGTGGTTACTGGAGAGAACAACTTCACAGATACCAGGAGGCACATGTTGTCATCTCGGTTGAGCATGCCTGACTGTCCCAACTGCAACTACAGGCGAAGATGTGCTTGTGATGACTGCAGCCTCTCACACATCCTTACTTGTGGTATCATGGACACCCCGGTCACTGATGACATCCACATTCACCAGCTACCACTCCAAGTGGATTCTGCTCCCGACTATCTGTCTGAGATGCGCCCACCTAGTGTGTCATCAGCAAGCTCAGGGTCAGGTTCCAGCTCTCCCATCACAATTCAGCAACATCCTAGACTCATCCTCACAGACAATGGCTCTGCACCAACTTTTTGTAGTGATGATGAAGACGTCGCACCATTGTCAGCTAAGTTTGCTGACATTTATCCGTTGACCAACTACGATGATACCAATGTGGTAGCCAACATGAATGGAATCCACAGCGAACTGAATGGTGGTGGGGAAAACATGGCCCTGAAAGATGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGCGAACTGAATGGTGGTGG
60.61
GCAACTTTGCGCAACTCTTC
58.88
141
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGCGAACTGAATGGTGGTGG
60.61
CAACTTTGCGCAACTCTTCCT
59.67
140
PCR template sequence:
TCCGTTGACCAACTACGATGATACCAATGTGGTAGCCAACATGAATGGAATCCACAGCGAACTGAATGGTGGTGGGGAAAACATGGCCCTGAAAGATGAGGCTAGGAACCACCACACACGACACCTGCACTGAAGACATGTACAGCACCTTGCTGCAGAGGTACCAGCGTTCTGAGGAAGAGTTGCGCAAAGTTGCTGAG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
6
Interacting miRNAs (#binding sites)
mmu-miR-335-3p(2), mmu-miR-143-3p(1), mmu-miR-138-5p(1), mmu-miR-382-5p(1), mmu-miR-1187(1), mmu-miR-574-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CCTGAAAGATGAGGCTAGGAACCACC
siRNA sets
TTCCTAGCCTCATCTTTCA, GTTCCTAGCCTCATCTTTC, CCTAGCCTCATCTTTCAGG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCFAM193A_736_ORF_1
0.9544
0.281927888
0.952451816
741
ORF sequence:
ATGAGGCTAGGAACCACCACACACGACACCTGCACTGAAGACATGTACAGCACCTTGCTGCAGAGGTACCAGCGTTCTGAGGAAGAGTTGCGCAAAGTTGCTGAGGAGTGGCTGGAGTGTCAGAAGAGGATCGATGCCTATGTGGATGAGCAGATGACAATGAAAACCAAACAGCGCATGTTAACAGAAGACTGGGAGATTTTTAAACAAAGGAGATTAATTGAAGAACAGTTGACTAATAAGAAAGTGGTTACTGGAGAGAACAACTTCACAGATACCAGGAGGCACATGTTGTCATCTCGGTTGAGCATGCCTGACTGTCCCAACTGCAACTACAGGCGAAGATGTGCTTGTGATGACTGCAGCCTCTCACACATCCTTACTTGTGGTATCATGGACACCCCGGTCACTGATGACATCCACATTCACCAGCTACCACTCCAAGTGGATTCTGCTCCCGACTATCTGTCTGAGATGCGCCCACCTAGTGTGTCATCAGCAAGCTCAGGGTCAGGTTCCAGCTCTCCCATCACAATTCAGCAACATCCTAGACTCATCCTCACAGACAATGGCTCTGCACCAACTTTTTGTAGTGATGATGAAGACGTCGCACCATTGTCAGCTAAGTTTGCTGACATTTATCCGTTGACCAACTACGATGATACCAATGTGGTAGCCAACATGAATGGAATCCACAGCGAACTGAATGGTGGTGGGGAAAACATGGCCCTGAAAGATGAG
Peptide sequence:
MRLGTTTHDTCTEDMYSTLLQRYQRSEEELRKVAEEWLECQKRIDAYVDEQMTMKTKQRMLTEDWEIFKQRRLIEEQLTNKKVVTGENNFTDTRRHMLSSRLSMPDCPNCNYRRRCACDDCSLSHILTCGIMDTPVTDDIHIHQLPLQVDSAPDYLSEMRPPSVSSASSGSGSSSPITIQQHPRLILTDNGSAPTFCSDDEDVAPLSAKFADIYPLTNYDDTNVVANMNGIHSELNGGGENMALKDE
IRESfinder result
IRESfinder score
0.417640929
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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