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mmu_circRad21_563
Basic information of circular RNA
PanCircBase ID:
mmu_circRad21_563
mm39_Chr. Position ID:
chr15|51835141|51837339|-
Gene name:
Rad21
Transcript:
ENSMUST00000022927.11
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
8,7,6,5
Exon/intron offsets:
0,456,1340,2091
Genomic length:
2198
Exon/intron sizes in nt:
123,126,207,107
Flanking exon/introns:
chr15:51833540-51835141|chr15:51837339-51839494
Splice length:
563
Other database IDs:
circAtlas: mmu-Rad21_0009
circAtlas: hsa-RAD21_0016
Human Ortholog IDs:
Mature spliced Sequence:
TGATATTGACGTCGCCCAGCAGTTCAGCCTGAACCAAAGCAGAGTAGAAGAGATAACCATGAGAGAAGAAGTCGGAAACATCAGTATCCTACAGGAAAATGACTTTGGTGACTTCGGAATGGATGACCGTGAAATAATGAGAGAAGGCAGTGCTTTCGAGGATGACGACATGTTAGTGAGCACCAGCGCTTCCAACCTTCTCCTCGAGCCAGAGCAGAGCACCAGCAACCTGAATGAAAAGATGAATCACTTAGAGTACGAAGACCAGTACAAAGATGACAATTTTGGAGAAGGAAATGATGGCGGTATATTAGATGACAAACTTATAAGTAATAATGATGGTGGCATCTTTGACGATCCCCCTGCCTTGTCTGAGGCAGGGGTCATGTTGCCAGAGCAACCTGCACATGATGACATGGATGAAGATGACAATGGCTCACTGGGTGGGCCGGATAGTCCCGACTCTGTGGATCCTGTCGAACCGATGCCAACTATGACTGATCAGACAACTCTCGTCCCAAACGAGGAAGAAGCTTTTGCGTTGGAGCCCATTGATATAACTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CTGTGGATCCTGTCGAACCG
60.46
TCTGCTTTGGTTCAGGCTGA
59.53
142
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GTGGATCCTGTCGAACCGAT
59.54
TCTGCTTTGGTTCAGGCTGA
59.53
140
PCR template sequence:
TCTGTGGATCCTGTCGAACCGATGCCAACTATGACTGATCAGACAACTCTCGTCCCAAACGAGGAAGAAGCTTTTGCGTTGGAGCCCATTGATATAACTGTGATATTGACGTCGCCCAGCAGTTCAGCCTGAACCAAAGCAGAGTAGAAGAGATAACCATGAGAGAAGAAGTCGGAAACATCAGTATCCTACAGGAAAAT
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-9-5p(1), mmu-miR-138-5p(1), mmu-miR-224-5p(1), mmu-miR-335-3p(1)
siRNAs for circular RNA silencing
Junction sequence
ATTGATATAACTGTGATATTGACGTC
siRNA sets
AATATCACAGTTATATCAA, CAATATCACAGTTATATCA, ATATCACAGTTATATCAAT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCRAD21_563_ORF_1
1.2377
0.355858143
0.913912897
537
ORF sequence:
ATGAGAGAAGAAGTCGGAAACATCAGTATCCTACAGGAAAATGACTTTGGTGACTTCGGAATGGATGACCGTGAAATAATGAGAGAAGGCAGTGCTTTCGAGGATGACGACATGTTAGTGAGCACCAGCGCTTCCAACCTTCTCCTCGAGCCAGAGCAGAGCACCAGCAACCTGAATGAAAAGATGAATCACTTAGAGTACGAAGACCAGTACAAAGATGACAATTTTGGAGAAGGAAATGATGGCGGTATATTAGATGACAAACTTATAAGTAATAATGATGGTGGCATCTTTGACGATCCCCCTGCCTTGTCTGAGGCAGGGGTCATGTTGCCAGAGCAACCTGCACATGATGACATGGATGAAGATGACAATGGCTCACTGGGTGGGCCGGATAGTCCCGACTCTGTGGATCCTGTCGAACCGATGCCAACTATGACTGATCAGACAACTCTCGTCCCAAACGAGGAAGAAGCTTTTGCGTTGGAGCCCATTGATATAACTGTGATATTGACGTCGCCCAGCAGTTCAGCCTGA
Peptide sequence:
MREEVGNISILQENDFGDFGMDDREIMREGSAFEDDDMLVSTSASNLLLEPEQSTSNLNEKMNHLEYEDQYKDDNFGEGNDGGILDDKLISNNDGGIFDDPPALSEAGVMLPEQPAHDDMDEDDNGSLGGPDSPDSVDPVEPMPTMTDQTTLVPNEEEAFALEPIDITVILTSPSSSA
IRESfinder result
IRESfinder score
0.170118003
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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