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mmu_circRrp1b_227
Basic information of circular RNA
PanCircBase ID:
mmu_circRrp1b_227
mm39_Chr. Position ID:
chr17|32264902|32267612|+
Gene name:
Rrp1b
Transcript:
ENSMUST00000081339.13
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
2,3,4
Exon/intron offsets:
0,1745,2624
Genomic length:
2710
Exon/intron sizes in nt:
83,58,86
Flanking exon/introns:
chr17:32255578-32264902|chr17:32267612-32268399
Splice length:
227
Other database IDs:
CIRCpedia: MMU_CIRCpedia_212569, circAtlas: mmu-Rrp1b_0001
circBase: hsa_circ_0116118, circAtlas: hsa-RRP1B_0003, CIRCpedia: HSA_CIRCpedia_35647
Human Ortholog IDs:
Mature spliced Sequence:
GAAGTTTCAGTCAAGAAGAACTCTTAAAAATATGGAAAGGACTCTTCTACTGCATGTGGGTGCAGGACGAGCCCCTTCTGCAGGAGGAGCTAGCGAACATTATTTCCCAACTCATCCACGTTGTAAACAGCTTGGAGGCTCAGTACCTGTTTATTCAGACCTTCTGGCAGACCATGAATCGAGAGTGGCAAGGGATAGACAAGCTGCAGCTGGACAAGTACTACATG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGAATCGAGAGTGGCAAGGG
59.75
GCTAGCTCCTCCTGCAGAAG
59.9
147
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCAGACCTTCTGGCAGACCA
60.47
GCTAGCTCCTCCTGCAGAAG
59.9
167
PCR template sequence:
CAGCTTGGAGGCTCAGTACCTGTTTATTCAGACCTTCTGGCAGACCATGAATCGAGAGTGGCAAGGGATAGACAAGCTGCAGCTGGACAAGTACTACATGGAAGTTTCAGTCAAGAAGAACTCTTAAAAATATGGAAAGGACTCTTCTACTGCATGTGGGTGCAGGACGAGCCCCTTCTGCAGGAGGAGCTAGCGAACAT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
1
Interacting miRNAs (#binding sites)
mmu-miR-298-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CAAGTACTACATGGAAGTTTCAGTCA
siRNA sets
GAAACTTCCATGTAGTACT, ACTGAAACTTCCATGTAGT, AACTTCCATGTAGTACTTG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCRRP1B_227_ORF_1
1.0325
0.122452573
0.554659886
423
ORF sequence:
ATGGAAAGGACTCTTCTACTGCATGTGGGTGCAGGACGAGCCCCTTCTGCAGGAGGAGCTAGCGAACATTATTTCCCAACTCATCCACGTTGTAAACAGCTTGGAGGCTCAGTACCTGTTTATTCAGACCTTCTGGCAGACCATGAATCGAGAGTGGCAAGGGATAGACAAGCTGCAGCTGGACAAGTACTACATGGAAGTTTCAGTCAAGAAGAACTCTTAAAAATATGGAAAGGACTCTTCTACTGCATGTGGGTGCAGGACGAGCCCCTTCTGCAGGAGGAGCTAGCGAACATTATTTCCCAACTCATCCACGTTGTAAACAGCTTGGAGGCTCAGTACCTGTTTATTCAGACCTTCTGGCAGACCATGAATCGAGAGTGGCAAGGGATAGACAAGCTGCAGCTGGACAAGTACTACATG
Peptide sequence:
MERTLLLHVGAGRAPSAGGASEHYFPTHPRCKQLGGSVPVYSDLLADHESRVARDRQAAAGQVLHGSFSQEELLKIWKGLFYCMWVQDEPLLQEELANIISQLIHVVNSLEAQYLFIQTFWQTMNREWQGIDKLQLDKYYM
IRESfinder result
IRESfinder score
0.612687788
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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