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mmu_ciRbm17_2435
Basic information of circular RNA
PanCircBase ID:
mmu_ciRbm17_2435
mm39_Chr. Position ID:
chr2|11602994|11605429|-
Gene name:
Rbm17
Transcript:
ENSMUST00000040314.12
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
2
Exon/intron offsets:
0
Genomic length:
2435
Exon/intron sizes in nt:
2435
Flanking exon/introns:
chr2:11602979-11605429
Splice length:
2435
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAAGAACAGGCCCAGGGCAGGAGAGGGCAAGTCCGCTGAGTTCCTTTAAGCTTGCTCTTTGCCCCCTTGCTGGATACGTAGAAAAGAGTGGGTGGGCGAGGGGTGGAGAGCTGATTGCCTCTCCTGGCTCTTGGAAACAGCAGGACCATTCATGGAGTGGGAATTAAAAAAAGCCATGAGACTGGCTTTAGACTGGAGCATGCCTGAGACTGACTGCAAACTGTTTACAGATGCTGTTTTCATACCCCTAGTCCTAATAGTCTGGGACTTCTGGCCTAGGCTGGGTCCCAGCTAGTTTATTGTAAGAAGTTTGGAATTGAGCTTTGCAGAATAATCAGAGCCACCCCAACATGCATACAAACATATATACATACATGTTAAGTAAATTTTATTTGGTTGGGTTAATAATCGTGTACACTATGAAAGGCTCTGATGTTTGTGAACATACCCAGGATATATAGTTATAGGTGGGAATTGCTGTGTTGTATACCTGTTAGACTTGGCATTGTCTTGGAGACAGTGCAGCTTTTTCTTTTTCTTTGTTTCTGTTTGTTTTCAACATAAGATTTCAGTATGTGGCTTTGAACTGTCTGTGTCGACCAAGGTGGCCCCAGTTTCACAGAGGTCTGCCTGTCTCTGCCTACCAAGTGCTGGGAATATCACCCCACCCAACTATGCGTATATTTTAATGTCAGCTATTAGCAAATATCTTGAGATTGCAAATAGATTTTGTGGGGGTGGGGTTGTTGAGACAGGGTTTCTCTGTTTAGCCCTGGCTGTCCTGGAACTCACTTTGTAGACCAGGGTGGCCTCGAACTCAGAAATCTGCCTGCCTCTGCCTCTGAAGTGCTGGGATAAAAGGCGTGTGCCACCACGCCTGGCCAGCAAGTAGATTTTAATTTGTCAAAATGGACCATTACTTTAGAATTCATCTGCTAACCTTCTGACCTGAATCTTGAGGCTTCTCTATGTGGTTGATTCTTATGAGGAAGTGAAGTTGCACTGTATTGGTTCTCTTGGGCTCTTCAGTGCCTTTCTCAGAGTACTAGCCACGCTTGTAAAAATACTTGGTAGAGAAAATGTACCTGTATCTGAAAGGTGAAGGTATGGTTTCATTTGTATTTCATTTTTGAAACTACAAATTAAATTTTAAAATGAGCAAATAAGTGATTGTCATAACCCTACTGTGGGAAGTTAGGGTTTATATTGTGATTTTTTTTTTTTTTTATGATTCCTGGATGATATGTTGTTTGCTTAAAGCACCGTTAAAGTCCAGAGAGCTCAGACTTCCTGATAAGAGTGAAAGTTTGTACCCTTTAAATACTGAGAATTTAAACTTTCATGACAACCTCTAGTCCACACGGATGGCCATGGCATCTTAGCAACCTGAGAATTTGGTGTTGCTCACCAGCTTGCTGAGATATTCTTTTTTTTTTTTTTTTTTTAAGTTTTTTGTTGTTTTGTTTTTCTAGACAGTTTCTCTGTGTAGTCCTGGCTGCCCTGGAACTCACTCTGTAGACCAGGCTGGCCTCCAACTCAGATATCTGCCTGCCTCCGCCTCCCCGGTGCTGGGATTAATGGCGTGCACCACCACACCCGGCTGGGATATTCTTGTCTATAAGCTTTAACCTTAATCTGAACAGGTTTTGGATATGCGAGAACATAGAGGTATAAGTTAAGGAGACATGTAGAATAAGCAGCATTTGTAATAACAGTGTCCCAGAGAAAATGGAGATGGTATCAGAGAAGGGGGACTGCTGAAGATGGAGAAATCAGAAGTACATTTAGGAAACTGGCAGGGGTGGTGAAATGGCTCGGTGAGTGAAGGCTGATGACCTGAGTTTGATCCCTAGAACCCCATGGTGGAAGGAGAGAGACCCAGGCCTCACACAGATGTATGCTTACCCAATCATGCATGCATACATACATATTAAATAATTTTTATTTGGTTGGGGTAATCATTCTAAACGAAGTAGGGTAGAACTCACCCTCTGGAGACAGAGAGGTGGATCTTAAGGCTAGCCATAAAGTGGTCACATGCACTGTAGACTTTATAGAAAAGTAGAGGAAATCTGTGCTTTTAAAAAAGGGGAAAAGGGGGATGAAGAGGCAGCTCAGTTGGTAGAGTGTTTGCCTAGTTTTCAGGAAGTCCTCTGTTAAATCCCCTGTGCGTAAACTGGGTCTGGTGATGAACAACACTCAGCAGTATGAGGGAAGAGGTCAGGCATCCAAGTTCAGCATCAGCTATGTAGGGCACTGGAGGCTAGCCTGGGTTCTATAAGACCCTCAGAAAATAGTCAAAACACTGATTGTATTAGACTTCTACTGTTTAAGGCTCATTTTATCATAGCCAAAAATTTGTTACAGAGACCAGAAAAGGTGACTTTGTTGCAAGTAGCATGAATTTTAATTTGAAAGTTTGGTGTGTTTTTCT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGGTGACTTTGTTGCAAGTAGC
59.38
CGCCCACCCACTCTTTTCTA
59.68
156
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACAGAGACCAGAAAAGGTGACT
58.96
TATCCAGCAAGGGGGCAAAG
60.03
148
PCR template sequence:
GCTCATTTTATCATAGCCAAAAATTTGTTACAGAGACCAGAAAAGGTGACTTTGTTGCAAGTAGCATGAATTTTAATTTGAAAGTTTGGTGTGTTTTTCTGTAAGAACAGGCCCAGGGCAGGAGAGGGCAAGTCCGCTGAGTTCCTTTAAGCTTGCTCTTTGCCCCCTTGCTGGATACGTAGAAAAGAGTGGGTGGGCGA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
23
Interacting miRNAs (#binding sites)
mmu-miR-148a-3p(2), mmu-miR-709(2), mmu-miR-30b-5p(2), mmu-miR-297a-5p(2), mmu-miR-466a-5p(2), mmu-miR-1187(2), mmu-miR-466p-5p(2), mmu-miR-3065-5p(2), mmu-miR-135a-5p(1), mmu-miR-205-5p(1), mmu-miR-152-3p(1), mmu-miR-148b-3p(1), mmu-miR-30c-5p(1), mmu-miR-298-5p(1), mmu-miR-339-5p(1), mmu-miR-139-5p(1), mmu-miR-495-3p(1), mmu-miR-136-5p(1), mmu-miR-301b-3p(1), mmu-miR-301a-3p(1), mmu-miR-452-3p(1), mmu-miR-188-3p(1), mmu-miR-350-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GGTGTGTTTTTCTGTAAGAACAGGCC
siRNA sets
NA
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
0.80538736
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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