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mmu_ciGramd3_2172
Basic information of circular RNA
PanCircBase ID:
mmu_ciGramd3_2172
mm39_Chr. Position ID:
chr18|56609741|56611913|+
Gene name:
Gramd3
Transcript:
ENSMUST00000237355.2
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
5
Exon/intron offsets:
0
Genomic length:
2172
Exon/intron sizes in nt:
2172
Flanking exon/introns:
chr18:56609741-56611920
Splice length:
2172
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAAGTCCTATTTCATTTAAACCTGCTTAATTGTTTTCTTTTTTAGATGCATATTTAAAAGGCTGGCTAAGGGAGCTGGAGACGAGGCTCGACAGTACCTGGGTTTAATTCCTAGCATTCACACGGCATCTCACAACTGTCTGTAACTCCAGTCCCAAGGAGCCAATGCCCTCTTTTGGCCTCTGAGGGCCCTAGGCATGAACATGGTGCACAGACATACATGTAGGCCAAACATGCATACACTTAAAAATAATATTTTAAAAAGCCTTTTGGGATTTGTTTTGTTTTGTTTTGTCTTTTGAGTTGTCTAAGAAATATGGAAGAAGGAAAGGACATTTCAAGGACTGGGTAACCAAGAAAAAAGTTTCTGGAAGTTATAGGTCACGTCATGACAGTAATGTCAGCTGCACTAACCCTTCCCTGAGACCTTAGAGCATTAAGGTAGAAGGAATAGCCAGCCCTCGTGATACGGAGTCATCCAGGAACGTTCCCCAAAGGTCCCCTTGCCATTTCCATTCATGCTGTAATGTTTGTGAGTGAGTCATCCTGAGATTTGGGACAACCAGCCTCGGGCAGGAAAGGCTGCCACAGGAGGCTAAACGAGAGCACAGTTCCCAGTGTACAGAAGTAGTCACGCCTGTGCTATGCGGAGCAGAGCACCATGGGCACACCCAAGCTGCTTCCCAGCATGACAGCTCAGCATGTGGCTCATCACGAGACCCACAACTCTAGCCTCTCTGCGTGTATACTTGCTAAGTCAAGAGGTTGGTTCCTACCATCTTCCCTCAAGTGAGACCATCCTCAGTGAGTCACTAGGTTCCTGGGAAGAGCGTTCATCTTTACACGCAAGTGACACCCGATTGCCGATTGGAGAGGTTTCTAAAACATCATGCTTGGTTTCTAGGGGGCAGTGGTAGACTTGGCCTCCCATTTTTACTCTTATTCTAAGTCTCTAAGACTTTGAATTGAAAACACATCTGAGACGCGCCCCCCCGCCTCGCTTTATTCTACTAAAGATGACTCTGGAGCTGGGCCGGGCAGTATGTGCCTCTGAGCCTAACACTCAAGAGACTAGAGAAGGAAGATGTCAAGTTCCAAGGCCACCCGGGTCTAAATCTTGAATTCCAGGCTAGCCTGGGCTGCACAGCAATATCTTATTTTAAAAAAAAAGTAGATAAAATAATAAAATAAGAGGTGATAGTGCAGGCAAATGTAGTACATTCACATATATCTGTAAGTACAAAAACATGTACAGACAAGAAAGTAAAAATATGATTAACATTTTTTTACATGCAGTGGATAAAGAGCACAGGAGTTATTTCCAAAGCAATGTCCCCCTCAAAAGAAGGGAAAGGAAGCTAGGCTTTTATTCTGGGAAATAATACTTAAACAGGAAATCATTTTTTGGAGGTGGGTATGTGTCTGAGCATGTTCATTTTAAGGTCATAATTAAAGAAAAGAAAAAAAAAGGATGGACTGGAGAGATGGCTCAGTGGGTAAGAGCACTGACTGCTCTTCCCAAAGTCCTGAGTTCAAACCCCAGCAACTACATGGCGGCTCACAACCACCTGTAATGATATCTGACGCCCTCTTCTGGTGCATCTGAAGACAGCTACAGTGTGCTTATTTATAATAATAAATCTTTGAGCCAGAGCCAGTAGGAACTGAGCAAGCGGGGTTGACCGGAGCGAGCACAGGTCCTAGATTCAATTCCCAACAACCAGATGAAGGCTCACAACCATCTGTACAGCTACAGTGTGTACCCATGTACAATGAATAAATAAATCTTTTAAAAGAAGGAGGAGGAGGAAGAAAAAAAGATGGCAGACACACTTCTGGGCATGCTTTTCACCCAAACTTACCAAGCACATGTTTGGGGGCCTTGCATAGTCAGTATCACAAAGATGGTGGGCAGGGCCATCTCTGACCATGCTAAGCTTTTCTTTTTTAGAAGTTTTAGGGGAAAAGCAAACAAAATAACAACAGCAAAACCAGACCATTTGAGGTTGCGCTGGTGCTGAAGACGCTTGCCTCTCTCGGTCACTAACAATGGAACTTTGGAGGAGGGTATATTTAGTGACCAAGATAAAGGCAAATGTTTATTTGAAATAGAAATCATGGGAATAATGGTGGTTTGCTGAGATTCTAAATCGGGCTGTTCTACCTCTCTGT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGGGAATAATGGTGGTTTGCTG
59.17
GTACTGTCGAGCCTCGTCTC
59.63
152
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGGGAATAATGGTGGTTTGCTG
59.17
CCTCGTCTCCAGCTCCCTTA
60.4
141
PCR template sequence:
TTTAGTGACCAAGATAAAGGCAAATGTTTATTTGAAATAGAAATCATGGGAATAATGGTGGTTTGCTGAGATTCTAAATCGGGCTGTTCTACCTCTCTGTGTAAGTCCTATTTCATTTAAACCTGCTTAATTGTTTTCTTTTTTAGATGCATATTTAAAAGGCTGGCTAAGGGAGCTGGAGACGAGGCTCGACAGTACCT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
16
Interacting miRNAs (#binding sites)
mmu-miR-216a-5p(2), mmu-miR-155-5p(1), mmu-let-7a-5p(1), mmu-let-7e-5p(1), mmu-miR-29a-3p(1), mmu-miR-130a-3p(1), mmu-miR-328-3p(1), mmu-miR-501-3p(1), mmu-miR-192-5p(1), mmu-miR-215-5p(1), mmu-miR-324-3p(1), mmu-miR-297a-5p(1), mmu-miR-98-5p(1), mmu-miR-5101(1), mmu-miR-540-3p(1), mmu-miR-7a-1-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TCTACCTCTCTGTGTAAGTCCTATTT
siRNA sets
AAATAGGACTTACACAGAG, ATAGGACTTACACAGAGAG, TAGGACTTACACAGAGAGG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
NA
NA
NA
NA
NA
ORF sequence:
NA
Peptide sequence:
NA
IRESfinder result
IRESfinder score
0.704395219
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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