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mmu_circGtf2ird1_319
Basic information of circular RNA
PanCircBase ID:
mmu_circGtf2ird1_319
mm39_Chr. Position ID:
chr5|134419675|134424654|-
Gene name:
Gtf2ird1
Transcript:
ENSMUST00000111244.5
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
11,10,9
Exon/intron offsets:
0,1573,4795
Genomic length:
4979
Exon/intron sizes in nt:
1,09,26,184
Flanking exon/introns:
chr5:134418565-134419675|chr5:134424654-134430964
Splice length:
319
Other database IDs:
CIRCpedia: MMU_CIRCpedia_213061
Human Ortholog IDs:
Mature spliced Sequence:
CGGAAGCCCTGGGCCTGGACCACATGGTCCCTGTGCCCTATAGGAAGATTGCCTGTGACCCCGAGGCTGTGGAAATTGTGGGTATTCCAGACAAGATCCCCTTCAAGCGACCCTGTACTTACGGAGTGCCGAAGCTGAAGAGGATTCTGGAGGAGCGACACAGCATTCACTTCATTATCAAGAGAATGTTCGATGAGCGCATTTTCACAGGGAACAAGTTTACCAAAGACCCCATGAAGCTGGAGCCAGCTAGCCCACCAGAAGACACTTCCACAGAAGTCTGTAGGGACAGCATGCTGGACCTGGCTGGGACTGCTTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CAGCTAGCCCACCAGAAGAC
60.11
ACCCACAATTTCCACAGCCT
59.81
156
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCTAGCCCACCAGAAGACAC
60.39
ACCCACAATTTCCACAGCCT
59.81
154
PCR template sequence:
TTACCAAAGACCCCATGAAGCTGGAGCCAGCTAGCCCACCAGAAGACACTTCCACAGAAGTCTGTAGGGACAGCATGCTGGACCTGGCTGGGACTGCTTGCGGAAGCCCTGGGCCTGGACCACATGGTCCCTGTGCCCTATAGGAAGATTGCCTGTGACCCCGAGGCTGTGGAAATTGTGGGTATTCCAGACAAGATCCC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
2
Interacting miRNAs (#binding sites)
mmu-miR-9-5p(1), mmu-miR-149-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CTGGGACTGCTTGCGGAAGCCCTGGG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCGTF2IRD1_319_ORF_1
1.1043
0.315658918
0.630066195
339
ORF sequence:
ATGGTCCCTGTGCCCTATAGGAAGATTGCCTGTGACCCCGAGGCTGTGGAAATTGTGGGTATTCCAGACAAGATCCCCTTCAAGCGACCCTGTACTTACGGAGTGCCGAAGCTGAAGAGGATTCTGGAGGAGCGACACAGCATTCACTTCATTATCAAGAGAATGTTCGATGAGCGCATTTTCACAGGGAACAAGTTTACCAAAGACCCCATGAAGCTGGAGCCAGCTAGCCCACCAGAAGACACTTCCACAGAAGTCTGTAGGGACAGCATGCTGGACCTGGCTGGGACTGCTTGCGGAAGCCCTGGGCCTGGACCACATGGTCCCTGTGCCCTATAG
Peptide sequence:
MVPVPYRKIACDPEAVEIVGIPDKIPFKRPCTYGVPKLKRILEERHSIHFIIKRMFDERIFTGNKFTKDPMKLEPASPPEDTSTEVCRDSMLDLAGTACGSPGPGPHGPCAL
IRESfinder result
IRESfinder score
0.547376925
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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