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mmu_ciRbm6_1235
Basic information of circular RNA
PanCircBase ID:
mmu_ciRbm6_1235
mm39_Chr. Position ID:
chr9|107665571|107666806|-
Gene name:
Rbm6
Transcript:
ENSMUST00000035201.13
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
11
Exon/intron offsets:
0
Genomic length:
1235
Exon/intron sizes in nt:
1235
Flanking exon/introns:
chr9:107665571-107666806
Splice length:
1235
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAAGGCCTCATTCCAATTTTAGGGAAGAAATTGTTCCTCCTGGATAAGAGACAGATAGTAGGGCATTGTGACTTCCAGCATGAGCTGTCTCAGGTACATACTTATACATTTTCTTTTTCTGTAGTGTGCTTTATTCTAATTATAGAATAGTTTTCATTTTTAAATAGTATGCCAGCCTGGACATGATGTTGTAAGCCTTTAATCCCAGCACTCAGGAGGCAGAGGCAGGTGAATCTGTCTGAGTACAATGCCAGCCTAAATTTCATAGCAAACTCCAGGCCAGCTAAGTGTCCATTGCAAGACCCTGTGTCTAAATGCATGCATACATACATAAATACATAGATAAGTATAAAATATTCCTGAATGCTTTAGGCTTTGACTGCCTGCTATCTTTATGGGCCAGAAAAGTTGGTATAGTTTGGGGTTTATGAGTGCTTTGTTTTATTTTTATTTATATATATACATACATACACACACACACATACATTTTTTTTTTTTGAAGCAGAATCTCACATTATACCCCATACTGGCCTGGAACTCACTGTGTGGCCCAGAGTAGCCTCAGTCTTGTGAAGGCAAAGGGTACAGCCAGAAGCTAGCACACCTGGTTGATGTGTTTAAATGTGCAGGATAAAAAGCCTCTCCGTAGATCTTCATATGTTACTATCCTAAGTCAATGTATGTAGTCTCCCATTGTCCTAGCCTCAGTCATCCTGGAATGTCTGATTCAGTTACTCTTCCTTCTTCATCTTTTTTTTTTTTTTTAAAGATTTATTTATTATTATATGTAAGTACACTGTAGCTGTCTTCAGACACACCAGAAGAGGGAGTCAGATCTTGTTACGGATGGTTGTGAGCCACCATGTGGTTGCTGGGATTTGAACTCTGGACCTTCGGAAGAGCAGTCGGGTGCTCTTACTCACTGAGCCATCTCACCAGCCCTTCCTTCTTCATCTTGACCAAAATGTGATACCTGGGAGATAACTTATCAGAGTGATGAGTTTATAGAATGACTTAGCACCTCTACTAAGTTGATTGTTTTGCTCCAATAAGTTGTTTTGCAGGAATCCCACTGTTGTTTCTGTCAGGTATCTGGAGCAGCTAACCTGCTTGCTATCTAGGTTGGTTTATTTTTCTGCACAATGAGGAAGAATTTCAGTGAATCTGTATGATTGGGCATTCCCTAGGTAGCTTTTGGTAACAGGCTTTTGATATGTCATATTTTGTATTGCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGCATTCCCTAGGTAGCTTTTG
59.05
TGCTGGAAGTCACAATGCCC
60.9
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGCATTCCCTAGGTAGCTTT
56.97
TGCTGGAAGTCACAATGCCC
60.9
140
PCR template sequence:
TCTGCACAATGAGGAAGAATTTCAGTGAATCTGTATGATTGGGCATTCCCTAGGTAGCTTTTGGTAACAGGCTTTTGATATGTCATATTTTGTATTGCAGGTAAGGCCTCATTCCAATTTTAGGGAAGAAATTGTTCCTCCTGGATAAGAGACAGATAGTAGGGCATTGTGACTTCCAGCATGAGCTGTCTCAGGTACAT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
10
Interacting miRNAs (#binding sites)
mmu-miR-297a-5p(3), mmu-miR-466a-5p(3), mmu-miR-466p-5p(3), mmu-miR-1187(2), mmu-miR-326-3p(1), mmu-miR-138-5p(1), mmu-miR-139-5p(1), mmu-miR-24-3p(1), mmu-miR-574-5p(1), mmu-miR-296-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TTTTGTATTGCAGGTAAGGCCTCATT
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
0.86521412
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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