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mmu_circRars_642
Basic information of circular RNA
PanCircBase ID:
mmu_circRars_642
mm39_Chr. Position ID:
chr11|35715222|35719640|-
Gene name:
Rars
Transcript:
ENSMUST00000018992.4
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
7,6,5,4,3
Exon/intron offsets:
0,1591,2081,2962,4229
Genomic length:
4418
Exon/intron sizes in nt:
12,11,22,10,11,09,189
Flanking exon/introns:
chr11:35712052-35715222|chr11:35719640-35723998
Splice length:
642
Other database IDs:
circAtlas: mmu-Rars_0004
circBase: hsa_circ_0128542, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_118278
Human Ortholog IDs:
Mature spliced Sequence:
AGTCTTCAGGAAGAAAGGAGAAAACCAACTAAAAACATGATTAACATCAACAGCCGCCTGCAGGAAGTCTTTGGCTGTGCCATTAGGGCTGCATATCCAGACTTGGAGAACCCTCCCCTGATCGTGACACCAAGTCAGCAGCCCAAGTTTGGAGACTATCAGTGTAATAGTGCCATGGGTATTTCTCAGATGCTCAAGGCAAAGGAACAGAAAGTCAGTCCCAGAGAAATCGCAGAAAACATTACCAAACACCTGCCGAACAATAAATATATTGACAAAGTTGAAATTGCGGGTCCTGGTTTCATTAATGTGCACCTGAGAAAAGACTTTGTGTCAGAACAGCTAACCAGTCTCCTAGTGAATGGAGTCCAGCTGCCTGTGCTTGGAGACAAGGAGAAGGTTATAGTTGACTTTTCCTCTCCCAACATAGCTAAGGAGATGCATGTTGGCCACCTCAGGTCAACCATCATAGGAGAGAGCATGAGCCGCCTCTTTGAATTTGCAGGATACGATGTGCTAAGGTTAAACCATGTAGGAGATTGGGGAACCCAGTTTGGCATGCTCATCGCTCACCTGCAAGATAAATTTCCGGATTATCTGACAGTTTCACCTCCTATTGGGGATCTGCAGGCCTTTTATAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCAGTTTGGCATGCTCATCG
59.9
ACAGCCAAAGACTTCCTGCA
59.82
172
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CTCATCGCTCACCTGCAAGA
60.11
ACAGCCAAAGACTTCCTGCA
59.82
159
PCR template sequence:
GGGAACCCAGTTTGGCATGCTCATCGCTCACCTGCAAGATAAATTTCCGGATTATCTGACAGTTTCACCTCCTATTGGGGATCTGCAGGCCTTTTATAAGAGTCTTCAGGAAGAAAGGAGAAAACCAACTAAAAACATGATTAACATCAACAGCCGCCTGCAGGAAGTCTTTGGCTGTGCCATTAGGGCTGCATATCCAG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
4
Interacting miRNAs (#binding sites)
mmu-miR-183-5p(2), mmu-miR-136-5p(1), mmu-miR-207(1), mmu-miR-539-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GGCCTTTTATAAGAGTCTTCAGGAAG
siRNA sets
GAAGACTCTTATAAAAGGC, TGAAGACTCTTATAAAAGG, AAGACTCTTATAAAAGGCC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCRARS_642_ORF_1
1.1508
0.229896724
0.998901697
1248
ORF sequence:
ATGATTAACATCAACAGCCGCCTGCAGGAAGTCTTTGGCTGTGCCATTAGGGCTGCATATCCAGACTTGGAGAACCCTCCCCTGATCGTGACACCAAGTCAGCAGCCCAAGTTTGGAGACTATCAGTGTAATAGTGCCATGGGTATTTCTCAGATGCTCAAGGCAAAGGAACAGAAAGTCAGTCCCAGAGAAATCGCAGAAAACATTACCAAACACCTGCCGAACAATAAATATATTGACAAAGTTGAAATTGCGGGTCCTGGTTTCATTAATGTGCACCTGAGAAAAGACTTTGTGTCAGAACAGCTAACCAGTCTCCTAGTGAATGGAGTCCAGCTGCCTGTGCTTGGAGACAAGGAGAAGGTTATAGTTGACTTTTCCTCTCCCAACATAGCTAAGGAGATGCATGTTGGCCACCTCAGGTCAACCATCATAGGAGAGAGCATGAGCCGCCTCTTTGAATTTGCAGGATACGATGTGCTAAGGTTAAACCATGTAGGAGATTGGGGAACCCAGTTTGGCATGCTCATCGCTCACCTGCAAGATAAATTTCCGGATTATCTGACAGTTTCACCTCCTATTGGGGATCTGCAGGCCTTTTATAAGAGTCTTCAGGAAGAAAGGAGAAAACCAACTAAAAACATGATTAACATCAACAGCCGCCTGCAGGAAGTCTTTGGCTGTGCCATTAGGGCTGCATATCCAGACTTGGAGAACCCTCCCCTGATCGTGACACCAAGTCAGCAGCCCAAGTTTGGAGACTATCAGTGTAATAGTGCCATGGGTATTTCTCAGATGCTCAAGGCAAAGGAACAGAAAGTCAGTCCCAGAGAAATCGCAGAAAACATTACCAAACACCTGCCGAACAATAAATATATTGACAAAGTTGAAATTGCGGGTCCTGGTTTCATTAATGTGCACCTGAGAAAAGACTTTGTGTCAGAACAGCTAACCAGTCTCCTAGTGAATGGAGTCCAGCTGCCTGTGCTTGGAGACAAGGAGAAGGTTATAGTTGACTTTTCCTCTCCCAACATAGCTAAGGAGATGCATGTTGGCCACCTCAGGTCAACCATCATAGGAGAGAGCATGAGCCGCCTCTTTGAATTTGCAGGATACGATGTGCTAAGGTTAAACCATGTAGGAGATTGGGGAACCCAGTTTGGCATGCTCATCGCTCACCTGCAAGATAAATTTCCGGATTATCTGACAGTTTCACCTCCTATTGGGGATCTGCAGGCCTTTTATAAG
Peptide sequence:
MININSRLQEVFGCAIRAAYPDLENPPLIVTPSQQPKFGDYQCNSAMGISQMLKAKEQKVSPREIAENITKHLPNNKYIDKVEIAGPGFINVHLRKDFVSEQLTSLLVNGVQLPVLGDKEKVIVDFSSPNIAKEMHVGHLRSTIIGESMSRLFEFAGYDVLRLNHVGDWGTQFGMLIAHLQDKFPDYLTVSPPIGDLQAFYKSLQEERRKPTKNMININSRLQEVFGCAIRAAYPDLENPPLIVTPSQQPKFGDYQCNSAMGISQMLKAKEQKVSPREIAENITKHLPNNKYIDKVEIAGPGFINVHLRKDFVSEQLTSLLVNGVQLPVLGDKEKVIVDFSSPNIAKEMHVGHLRSTIIGESMSRLFEFAGYDVLRLNHVGDWGTQFGMLIAHLQDKFPDYLTVSPPIGDLQAFYK
IRESfinder result
IRESfinder score
0.671933173
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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