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mmu_circRbm27_654
Basic information of circular RNA
PanCircBase ID:
mmu_circRbm27_654
mm39_Chr. Position ID:
chr18|42458969|42466462|+
Gene name:
Rbm27
Transcript:
ENSMUST00000046972.14
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
14,15,16,17,18
Exon/intron offsets:
0,1259,1449,6875,7304
Genomic length:
7493
Exon/intron sizes in nt:
1,20,75,16,51,05,189
Flanking exon/introns:
chr18:42457263-42458969|chr18:42466462-42470027
Splice length:
654
Other database IDs:
CIRCpedia: MMU_CIRCpedia_216751, circAtlas: mmu-Rbm27_0008
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_153651
Human Ortholog IDs:
Mature spliced Sequence:
GTATTTTCTACTCCAGGCCATCCAAAAACAATTTACAGCTCTTCAAACTTAAAGGCACCTTCAAAACTTTGTTCAGGGTCTAAATCTCATGATGTTCAAGAAGTTCTTAAGAAGAAACAGGAAGCAATGAAGTTACAGCAAGACATGAGGAAAAAGAAACAAGAAATGTTGGAAAAGCAGATAGAATGCCAGAAGATGCTGATTTCTAAACTAGAAAAGAACAAAAACATGAAACCAGAAGAAAGAGCAAATATAATGAAGACCTTGAAAGAACTGGGAGAGAAGATCTCACAATTGAAAGATGAATTAAAAACATCTTCTACAGTCTCCACACCGTCCAAAGTAAAGACAAAAACAGAGGCCCAGAAGGAGTTGTTGGACACAGAGTTGGACCTCCACAAGAGGCTCTCTTCAGGAGAAGATACAACAGAATTACGTAAAAAGCTCAGTCAGTTACAAGTTGAGGCTGCAAGATTAGGTATTTTACCTGTGGGGAGAGGAAAGACCATATCCTCTCAAGGCCGAGGAAGAGGCAGGGGTCGAGGAAGAGGGAGGGGCTCACTGAATCACATGGTGGTGGATCACCGCCCCAAAGCTCTCCCAGGTGGAGGATTCATTGAGGAGGAAAAAGATGAGTTGCTTCAGCATTTCTCA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCAAAGCTCTCCCAGGTGG
60
TGAACAAAGTTTTGAAGGTGCCT
59.49
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCCAAAGCTCTCCCAGGTG
60
TGAACAAAGTTTTGAAGGTGCCT
59.49
141
PCR template sequence:
GGGCTCACTGAATCACATGGTGGTGGATCACCGCCCCAAAGCTCTCCCAGGTGGAGGATTCATTGAGGAGGAAAAAGATGAGTTGCTTCAGCATTTCTCAGTATTTTCTACTCCAGGCCATCCAAAAACAATTTACAGCTCTTCAAACTTAAAGGCACCTTCAAAACTTTGTTCAGGGTCTAAATCTCATGATGTTCAAG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
4
Interacting miRNAs (#binding sites)
mmu-miR-18a-5p(1), mmu-miR-431-5p(1), mmu-miR-29b-1-5p(1), mmu-miR-207(1)
siRNAs for circular RNA silencing
Junction sequence
TCAGCATTTCTCAGTATTTTCTACTC
siRNA sets
AGAAAATACTGAGAAATGC, AAAATACTGAGAAATGCTG, GAAAATACTGAGAAATGCT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCRBM27_654_ORF_1
0.7757
0.09258452
0.99380047
1182
ORF sequence:
ATGAAGTTACAGCAAGACATGAGGAAAAAGAAACAAGAAATGTTGGAAAAGCAGATAGAATGCCAGAAGATGCTGATTTCTAAACTAGAAAAGAACAAAAACATGAAACCAGAAGAAAGAGCAAATATAATGAAGACCTTGAAAGAACTGGGAGAGAAGATCTCACAATTGAAAGATGAATTAAAAACATCTTCTACAGTCTCCACACCGTCCAAAGTAAAGACAAAAACAGAGGCCCAGAAGGAGTTGTTGGACACAGAGTTGGACCTCCACAAGAGGCTCTCTTCAGGAGAAGATACAACAGAATTACGTAAAAAGCTCAGTCAGTTACAAGTTGAGGCTGCAAGATTAGGTATTTTACCTGTGGGGAGAGGAAAGACCATATCCTCTCAAGGCCGAGGAAGAGGCAGGGGTCGAGGAAGAGGGAGGGGCTCACTGAATCACATGGTGGTGGATCACCGCCCCAAAGCTCTCCCAGGTGGAGGATTCATTGAGGAGGAAAAAGATGAGTTGCTTCAGCATTTCTCAGTATTTTCTACTCCAGGCCATCCAAAAACAATTTACAGCTCTTCAAACTTAAAGGCACCTTCAAAACTTTGTTCAGGGTCTAAATCTCATGATGTTCAAGAAGTTCTTAAGAAGAAACAGGAAGCAATGAAGTTACAGCAAGACATGAGGAAAAAGAAACAAGAAATGTTGGAAAAGCAGATAGAATGCCAGAAGATGCTGATTTCTAAACTAGAAAAGAACAAAAACATGAAACCAGAAGAAAGAGCAAATATAATGAAGACCTTGAAAGAACTGGGAGAGAAGATCTCACAATTGAAAGATGAATTAAAAACATCTTCTACAGTCTCCACACCGTCCAAAGTAAAGACAAAAACAGAGGCCCAGAAGGAGTTGTTGGACACAGAGTTGGACCTCCACAAGAGGCTCTCTTCAGGAGAAGATACAACAGAATTACGTAAAAAGCTCAGTCAGTTACAAGTTGAGGCTGCAAGATTAGGTATTTTACCTGTGGGGAGAGGAAAGACCATATCCTCTCAAGGCCGAGGAAGAGGCAGGGGTCGAGGAAGAGGGAGGGGCTCACTGAATCACATGGTGGTGGATCACCGCCCCAAAGCTCTCCCAGGTGGAGGATTCATTGAGGAGGAAAAAGATGAGTTGCTTCAGCATTTCTCA
Peptide sequence:
MKLQQDMRKKKQEMLEKQIECQKMLISKLEKNKNMKPEERANIMKTLKELGEKISQLKDELKTSSTVSTPSKVKTKTEAQKELLDTELDLHKRLSSGEDTTELRKKLSQLQVEAARLGILPVGRGKTISSQGRGRGRGRGRGRGSLNHMVVDHRPKALPGGGFIEEEKDELLQHFSVFSTPGHPKTIYSSSNLKAPSKLCSGSKSHDVQEVLKKKQEAMKLQQDMRKKKQEMLEKQIECQKMLISKLEKNKNMKPEERANIMKTLKELGEKISQLKDELKTSSTVSTPSKVKTKTEAQKELLDTELDLHKRLSSGEDTTELRKKLSQLQVEAARLGILPVGRGKTISSQGRGRGRGRGRGRGSLNHMVVDHRPKALPGGGFIEEEKDELLQHFS
IRESfinder result
IRESfinder score
0.562532277
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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