top of page
mmu_circRrp12_391
Basic information of circular RNA
PanCircBase ID:
mmu_circRrp12_391
mm39_Chr. Position ID:
chr19|41879522|41883816|-
Gene name:
Rrp12
Transcript:
ENSMUST00000038677.5
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
4,3,2
Exon/intron offsets:
0,1454,4064
Genomic length:
4294
Exon/intron sizes in nt:
77,84,230
Flanking exon/introns:
chr19:41878613-41879522|chr19:41883816-41884377
Splice length:
391
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GAAAGAGCGACCTGACTGTTGATGCTGTGAAGTTGCATAATGAGCTGCAGTCGGGGACCCTGAGCCTGGGCAAAAGCCAAGCCCCTGAGACGACCATGGACCAAGATCCAGAGGTGGCTTTCACCGAGAAGTCCTCGGGCACGTTTCTGAGTGGCTTGTCTGACTGTACAAATGTCACTTTCAGCAAAGTGCAGCGCTTCTGGGAATCCAACTCAGCTGCTCACAAGGAGATCTGCGCTGTGCTGGCTGCTGTTACAGAGGTGATTCGATCCCAGGGAGGCAAGGAGACGGAGACCGAGTACTTTGCTGCTCTGATGACAACAATGGAAGCAGTGGAGTCCCCAGAGTCACTGGCTGCCGTTGCATACCTATTGAACCTTGTCCTGAAGCG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AATGGAAGCAGTGGAGTCCC
59.67
TCTCAGGGGCTTGGCTTTTG
60.54
159
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AATGGAAGCAGTGGAGTCCC
59.67
GTCTCAGGGGCTTGGCTTTT
60.54
160
PCR template sequence:
AGACCGAGTACTTTGCTGCTCTGATGACAACAATGGAAGCAGTGGAGTCCCCAGAGTCACTGGCTGCCGTTGCATACCTATTGAACCTTGTCCTGAAGCGGAAAGAGCGACCTGACTGTTGATGCTGTGAAGTTGCATAATGAGCTGCAGTCGGGGACCCTGAGCCTGGGCAAAAGCCAAGCCCCTGAGACGACCATGGA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
6
Interacting miRNAs (#binding sites)
mmu-miR-15a-5p(1), mmu-miR-322-5p(1), mmu-miR-15b-5p(1), mmu-miR-326-3p(1), mmu-miR-194-5p(1), mmu-miR-484(1)
siRNAs for circular RNA silencing
Junction sequence
TTGTCCTGAAGCGGAAAGAGCGACCT
siRNA sets
GTCGCTCTTTCCGCTTCAG, TCGCTCTTTCCGCTTCAGG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCRRP12_391_ORF_1
0.9667
0.378408675
0.593450236
318
ORF sequence:
ATGGACCAAGATCCAGAGGTGGCTTTCACCGAGAAGTCCTCGGGCACGTTTCTGAGTGGCTTGTCTGACTGTACAAATGTCACTTTCAGCAAAGTGCAGCGCTTCTGGGAATCCAACTCAGCTGCTCACAAGGAGATCTGCGCTGTGCTGGCTGCTGTTACAGAGGTGATTCGATCCCAGGGAGGCAAGGAGACGGAGACCGAGTACTTTGCTGCTCTGATGACAACAATGGAAGCAGTGGAGTCCCCAGAGTCACTGGCTGCCGTTGCATACCTATTGAACCTTGTCCTGAAGCGGAAAGAGCGACCTGACTGTTGA
Peptide sequence:
MDQDPEVAFTEKSSGTFLSGLSDCTNVTFSKVQRFWESNSAAHKEICAVLAAVTEVIRSQGGKETETEYFAALMTTMEAVESPESLAAVAYLLNLVLKRKERPDC
IRESfinder result
IRESfinder score
0.374872531
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page