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mmu_circRrp1b_513
Basic information of circular RNA
PanCircBase ID:
mmu_circRrp1b_513
mm39_Chr. Position ID:
chr17|32268399|32271801|+
Gene name:
Rrp1b
Transcript:
ENSMUST00000081339.13
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
5,6,7,8,9
Exon/intron offsets:
0,523,1720,2257,3313
Genomic length:
3402
Exon/intron sizes in nt:
62,130,65,167,89
Flanking exon/introns:
chr17:32267612-32268399|chr17:32271801-32272830
Splice length:
513
Other database IDs:
circAtlas: mmu-Rrp1b_0002
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_350207
Human Ortholog IDs:
Mature spliced Sequence:
CTGATCCGCCTGGTCCTGAGGCAGTCCTTTGAAGTTCTCAAGCGGAATGCCTGGGAAGAAAGCCAAATCACACTGTTTTTGGACATCCTGATGAAGGAGATCCTGAGTCCTGAGAGTCAGTCTCCCAATGGCGTGAGAACCCACTTGATTGATGTGTACTTGGAGGAGCTTACCACAGTGGGAGGGGCGGAGCTCTTAGCGGACCAGAACCTCAAGTTAATCGATCCATTCTGCAGAATTGCTGCCAAGACTAAGGACCACACGCTGGTACAGACTGTAGCGAGGGGTGTTTTTGAAGTCATTGTAGATCAGTCTGCCTGTGTACCTCAAGAGTCTGTGGAGGAGCGGAAAACCAAAGAGGATGGCAGTGGCTTCCCTACGAAGGCGTTGGCCTGTAGGAAGGCAGTCAGTGGGAAGAAGGCTGCACTAGACGAATGCCTCAGAGACGGAGTCATTGGCAGCAGAGAAAGAGACATCTGTGCAGCCTTGAAAGATTCAGGGTCACCTCTCCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CGAATGCCTCAGAGACGGAG
60.25
TTTGGCTTTCTTCCCAGGCA
60.11
149
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CGAATGCCTCAGAGACGGAG
60.25
TGGCTTTCTTCCCAGGCATT
59.89
147
PCR template sequence:
GAAGAAGGCTGCACTAGACGAATGCCTCAGAGACGGAGTCATTGGCAGCAGAGAAAGAGACATCTGTGCAGCCTTGAAAGATTCAGGGTCACCTCTCCAGCTGATCCGCCTGGTCCTGAGGCAGTCCTTTGAAGTTCTCAAGCGGAATGCCTGGGAAGAAAGCCAAATCACACTGTTTTTGGACATCCTGATGAAGGAGA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
2
Interacting miRNAs (#binding sites)
mmu-miR-9-5p(1), mmu-miR-1904(1)
siRNAs for circular RNA silencing
Junction sequence
GTCACCTCTCCAGCTGATCCGCCTGG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCRRP1B_513_ORF_1
1.105
0.285271108
0.991063598
936
ORF sequence:
ATGAAGGAGATCCTGAGTCCTGAGAGTCAGTCTCCCAATGGCGTGAGAACCCACTTGATTGATGTGTACTTGGAGGAGCTTACCACAGTGGGAGGGGCGGAGCTCTTAGCGGACCAGAACCTCAAGTTAATCGATCCATTCTGCAGAATTGCTGCCAAGACTAAGGACCACACGCTGGTACAGACTGTAGCGAGGGGTGTTTTTGAAGTCATTGTAGATCAGTCTGCCTGTGTACCTCAAGAGTCTGTGGAGGAGCGGAAAACCAAAGAGGATGGCAGTGGCTTCCCTACGAAGGCGTTGGCCTGTAGGAAGGCAGTCAGTGGGAAGAAGGCTGCACTAGACGAATGCCTCAGAGACGGAGTCATTGGCAGCAGAGAAAGAGACATCTGTGCAGCCTTGAAAGATTCAGGGTCACCTCTCCAGCTGATCCGCCTGGTCCTGAGGCAGTCCTTTGAAGTTCTCAAGCGGAATGCCTGGGAAGAAAGCCAAATCACACTGTTTTTGGACATCCTGATGAAGGAGATCCTGAGTCCTGAGAGTCAGTCTCCCAATGGCGTGAGAACCCACTTGATTGATGTGTACTTGGAGGAGCTTACCACAGTGGGAGGGGCGGAGCTCTTAGCGGACCAGAACCTCAAGTTAATCGATCCATTCTGCAGAATTGCTGCCAAGACTAAGGACCACACGCTGGTACAGACTGTAGCGAGGGGTGTTTTTGAAGTCATTGTAGATCAGTCTGCCTGTGTACCTCAAGAGTCTGTGGAGGAGCGGAAAACCAAAGAGGATGGCAGTGGCTTCCCTACGAAGGCGTTGGCCTGTAGGAAGGCAGTCAGTGGGAAGAAGGCTGCACTAGACGAATGCCTCAGAGACGGAGTCATTGGCAGCAGAGAAAGAGACATCTGTGCAGCCTTGAAAGATTCAGGGTCACCTCTCCAG
Peptide sequence:
MKEILSPESQSPNGVRTHLIDVYLEELTTVGGAELLADQNLKLIDPFCRIAAKTKDHTLVQTVARGVFEVIVDQSACVPQESVEERKTKEDGSGFPTKALACRKAVSGKKAALDECLRDGVIGSRERDICAALKDSGSPLQLIRLVLRQSFEVLKRNAWEESQITLFLDILMKEILSPESQSPNGVRTHLIDVYLEELTTVGGAELLADQNLKLIDPFCRIAAKTKDHTLVQTVARGVFEVIVDQSACVPQESVEERKTKEDGSGFPTKALACRKAVSGKKAALDECLRDGVIGSRERDICAALKDSGSPLQ
IRESfinder result
IRESfinder score
0.496751517
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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