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mmu_circRars_877
Basic information of circular RNA
PanCircBase ID:
mmu_circRars_877
mm39_Chr. Position ID:
chr11|35710700|35719640|-
Gene name:
Rars
Transcript:
ENSMUST00000018992.4
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
9,8,7,6,5,4,3
Exon/intron offsets:
0,1222,4522,6113,6603,7484,8751
Genomic length:
8940
Exon/intron sizes in nt:
10,51,30,12,11,22,10,10,00,000
Flanking exon/introns:
chr11:35708355-35710700|chr11:35719640-35723998
Splice length:
877
Other database IDs:
circAtlas: mmu-Rars_0007
circBase: hsa_circ_0128543, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_137052
Human Ortholog IDs:
Mature spliced Sequence:
AGTCTTCAGGAAGAAAGGAGAAAACCAACTAAAAACATGATTAACATCAACAGCCGCCTGCAGGAAGTCTTTGGCTGTGCCATTAGGGCTGCATATCCAGACTTGGAGAACCCTCCCCTGATCGTGACACCAAGTCAGCAGCCCAAGTTTGGAGACTATCAGTGTAATAGTGCCATGGGTATTTCTCAGATGCTCAAGGCAAAGGAACAGAAAGTCAGTCCCAGAGAAATCGCAGAAAACATTACCAAACACCTGCCGAACAATAAATATATTGACAAAGTTGAAATTGCGGGTCCTGGTTTCATTAATGTGCACCTGAGAAAAGACTTTGTGTCAGAACAGCTAACCAGTCTCCTAGTGAATGGAGTCCAGCTGCCTGTGCTTGGAGACAAGGAGAAGGTTATAGTTGACTTTTCCTCTCCCAACATAGCTAAGGAGATGCATGTTGGCCACCTCAGGTCAACCATCATAGGAGAGAGCATGAGCCGCCTCTTTGAATTTGCAGGATACGATGTGCTAAGGTTAAACCATGTAGGAGATTGGGGAACCCAGTTTGGCATGCTCATCGCTCACCTGCAAGATAAATTTCCGGATTATCTGACAGTTTCACCTCCTATTGGGGATCTGCAGGCCTTTTATAAGGAATCTAAGAAGAGGTTTGATGCTGATGAGGAGTTTAAGAAGCGAGCCTATCAGTGTGTCGTTTTGCTGCAGAGTAAAAACCCAGATATCATGAAAGCCTGGAACCTCATCTGTGACGTGTCCCGGGAAGAGTTTAAGAAAATCTATGATGCATTGGACATCACTTTAATAGAGAGAGGAGAATCCTTCTATCAAGATAGGATGAAGGACATTGTAAAGGAATTTGAAGATAAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGATGCATTGGACATCACTT
55.31
ACAGCCAAAGACTTCCTGCA
59.82
167
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGATGCATTGGACATCACTT
55.31
AGCCAAAGACTTCCTGCAGG
60.25
165
PCR template sequence:
AAGAAAATCTATGATGCATTGGACATCACTTTAATAGAGAGAGGAGAATCCTTCTATCAAGATAGGATGAAGGACATTGTAAAGGAATTTGAAGATAAAGAGTCTTCAGGAAGAAAGGAGAAAACCAACTAAAAACATGATTAACATCAACAGCCGCCTGCAGGAAGTCTTTGGCTGTGCCATTAGGGCTGCATATCCAG
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-183-5p(2), mmu-miR-205-5p(1), mmu-miR-148b-3p(1), mmu-miR-136-5p(1), mmu-miR-207(1), mmu-miR-539-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TTTGAAGATAAAGAGTCTTCAGGAAG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCRARS_877_ORF_1
1.2485
0.262499703
0.988000023
873
ORF sequence:
ATGATTAACATCAACAGCCGCCTGCAGGAAGTCTTTGGCTGTGCCATTAGGGCTGCATATCCAGACTTGGAGAACCCTCCCCTGATCGTGACACCAAGTCAGCAGCCCAAGTTTGGAGACTATCAGTGTAATAGTGCCATGGGTATTTCTCAGATGCTCAAGGCAAAGGAACAGAAAGTCAGTCCCAGAGAAATCGCAGAAAACATTACCAAACACCTGCCGAACAATAAATATATTGACAAAGTTGAAATTGCGGGTCCTGGTTTCATTAATGTGCACCTGAGAAAAGACTTTGTGTCAGAACAGCTAACCAGTCTCCTAGTGAATGGAGTCCAGCTGCCTGTGCTTGGAGACAAGGAGAAGGTTATAGTTGACTTTTCCTCTCCCAACATAGCTAAGGAGATGCATGTTGGCCACCTCAGGTCAACCATCATAGGAGAGAGCATGAGCCGCCTCTTTGAATTTGCAGGATACGATGTGCTAAGGTTAAACCATGTAGGAGATTGGGGAACCCAGTTTGGCATGCTCATCGCTCACCTGCAAGATAAATTTCCGGATTATCTGACAGTTTCACCTCCTATTGGGGATCTGCAGGCCTTTTATAAGGAATCTAAGAAGAGGTTTGATGCTGATGAGGAGTTTAAGAAGCGAGCCTATCAGTGTGTCGTTTTGCTGCAGAGTAAAAACCCAGATATCATGAAAGCCTGGAACCTCATCTGTGACGTGTCCCGGGAAGAGTTTAAGAAAATCTATGATGCATTGGACATCACTTTAATAGAGAGAGGAGAATCCTTCTATCAAGATAGGATGAAGGACATTGTAAAGGAATTTGAAGATAAAGAGTCTTCAGGAAGAAAGGAGAAAACCAACTAA
Peptide sequence:
MININSRLQEVFGCAIRAAYPDLENPPLIVTPSQQPKFGDYQCNSAMGISQMLKAKEQKVSPREIAENITKHLPNNKYIDKVEIAGPGFINVHLRKDFVSEQLTSLLVNGVQLPVLGDKEKVIVDFSSPNIAKEMHVGHLRSTIIGESMSRLFEFAGYDVLRLNHVGDWGTQFGMLIAHLQDKFPDYLTVSPPIGDLQAFYKESKKRFDADEEFKKRAYQCVVLLQSKNPDIMKAWNLICDVSREEFKKIYDALDITLIERGESFYQDRMKDIVKEFEDKESSGRKEKTN
IRESfinder result
IRESfinder score
0.680225619
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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