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mmu_ciRbm5_1109
Basic information of circular RNA
PanCircBase ID:
mmu_ciRbm5_1109
mm39_Chr. Position ID:
chr9|107619926|107621035|-
Gene name:
Rbm5
Transcript:
ENSMUST00000182659.8
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
22
Exon/intron offsets:
0
Genomic length:
1109
Exon/intron sizes in nt:
1109
Flanking exon/introns:
chr9:107619897-107621035
Splice length:
1109
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTGAATACATGGATACTGTGTTTGGATGAGAATCCTGACATACCTGCCTTTAATACTTTGTTTTGTTTAGATGGAGTCTTGCTATGTTCACAGGTTGGCCCTGACCCCCTGGGCTCACGTCTTCCAAGTGGCTGCCACTCTAGGCCTGTACTGCCACACCAGGCTTTTATTTTGCTTTTGTGTTTAGCATTTAATTCTAAGTTCCTAAGCAAAATTGAAGGGTATATCAAAAGCACTTGTTGTCCAGCCATTGTACCTCTGTAAACTGGCCTGGCCTGCAGGTGGAATGGCCTGTATCTGCTGAGCCCCACAGTGGCTTTTAGTCAGGAAAAAATGTTTCCTTGTTTGTCCTGATAATATAAGCTTCCCTGAGTAATAATGAGGCACTGAATTCAGGAAAGCACTAATGATTTCCTAGTCGTGTAGAAGTGAGGAGTGGCCTGCAAATGATAAACAGGGCTGAGAACTAAGGTTTACTAGTCTGTCGTGCCTGTGGGGTTAGTGGTTGATGAGACAGGGCCAGACAGAATAGTAAGCACATATAGAGGCCTATACATTACAAATAATTTTTTAAAAAATGTTTGTTTATGTGTATGAGTATACTGTAGCTGTCTTCAGATGCACCAGAAGAGGGCATCGGATCCCATTACAGATGGTTGTGAGCCACCATGTGGTTGCTGGGATTTGAACTCAGGACCTCTGGAAGAGAGCAGTCAGTGCTCTCAACTGCTGAGACATTTCTCCAGCCCACATTAAAAGTACTTTAGACGTTTCTTGCCCCAGGATCAATGTGAGGTGTGTGTACTCAGAACTTTTGCTTTCCCCATGGATTATAATGCCAGCTCTCCGGGGTTTTCTGGGTGAGTCTCAGGAAGCGTCTTTAACACTTCTCTGTTTCTGGAATTAGACCCGTCCAAATGCTACCTGGGGATGGCCAGTTCTGGCCTCCTCATCTTTAGGACAGTACCAAGCAATGAGACCAAAAGTGGTAAAAGAAACAAAGGGATTTGGTTTTGAAGTCTAAATAGTCAGGCTCCAAGTTAAAAGGTACTACTGCAGGTTAACATCTGCATGTTTAAGACTATTGAAAGTTGAAATGAGGATACTCC
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CAGGCTCCAAGTTAAAAGGT
55.54
GGCCAACCTGTGAACATAGC
59.19
180
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCAGGCTCCAAGTTAAAAGGT
57.12
GCCAACCTGTGAACATAGCA
58.47
180
PCR template sequence:
GGTTTTGAAGTCTAAATAGTCAGGCTCCAAGTTAAAAGGTACTACTGCAGGTTAACATCTGCATGTTTAAGACTATTGAAAGTTGAAATGAGGATACTCCGTGAATACATGGATACTGTGTTTGGATGAGAATCCTGACATACCTGCCTTTAATACTTTGTTTTGTTTAGATGGAGTCTTGCTATGTTCACAGGTTGGCC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
12
Interacting miRNAs (#binding sites)
mmu-miR-23b-3p(1), mmu-miR-20a-5p(1), mmu-miR-211-5p(1), mmu-miR-204-5p(1), mmu-miR-328-3p(1), mmu-miR-23a-3p(1), mmu-miR-139-5p(1), mmu-miR-495-3p(1), mmu-miR-24-3p(1), mmu-miR-149-5p(1), mmu-miR-466d-3p(1), mmu-miR-466b-3p(1)
siRNAs for circular RNA silencing
Junction sequence
ATGAGGATACTCCGTGAATACATGGA
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
0.783091584
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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