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mmu_circCc2d2a_373
Basic information of circular RNA
PanCircBase ID:
mmu_circCc2d2a_373
mm39_Chr. Position ID:
chr5|43823391|43828646|+
Gene name:
Cc2d2a
Transcript:
ENSMUST00000048150.15
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
2,3,4
Exon/intron offsets:
0,2596,5171
Genomic length:
5255
Exon/intron sizes in nt:
228,61,84
Flanking exon/introns:
chr5:43819901-43823391|chr5:43828646-43831033
Splice length:
373
Other database IDs:
CIRCpedia: MMU_CIRCpedia_20138, circAtlas: mmu-Cc2d2a_0009
Human Ortholog IDs:
Mature spliced Sequence:
CATCCTAGCGAGGCTTTGAAGGACTCCAGAATGTGCCCATGAAAAATGGATCCGAATAGCAATTGAGCCATTCATTTGACAAACACACATGAACTGTCCGTCTACTGAGTGGCCTGGGCAAAGGCTCTGGGGATAAACAATACACAAAGTACTGCTCCTGCTCTCTGGAAGCTCTATTCTAATGGTGATGGAGAGATGCTGACATATAATTACGAATGCTGATTGGTGTCAGGAAGCCATCACGGACAAGATGAATACCAACGACGAAAAAATGAAAATAATTTCAGAGGACTTCACTGGAGATGGTGTGGACACAGAGGCGGGAAGACGGAAGAAGAATTCAAAGGTGCGAAGACAGCAGAGAAAGAAAAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCGGGAAGACGGAAGAAGAA
60.04
CGGACAGTTCATGTGTGTTTGT
59.65
154
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCGGGAAGACGGAAGAAGAA
60.04
CGGACAGTTCATGTGTGTTTG
58.01
154
PCR template sequence:
GAAAATAATTTCAGAGGACTTCACTGGAGATGGTGTGGACACAGAGGCGGGAAGACGGAAGAAGAATTCAAAGGTGCGAAGACAGCAGAGAAAGAAAAAGCATCCTAGCGAGGCTTTGAAGGACTCCAGAATGTGCCCATGAAAAATGGATCCGAATAGCAATTGAGCCATTCATTTGACAAACACACATGAACTGTCCG
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-135a-5p(1), mmu-miR-127-3p(1), mmu-miR-466a-5p(1), mmu-miR-1187(1), mmu-miR-466p-5p(1), mmu-miR-335-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GAGAAAGAAAAAGCATCCTAGCGAGG
siRNA sets
CTAGGATGCTTTTTCTTTC, TAGGATGCTTTTTCTTTCT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCCC2D2A_373_ORF_1
0.5999
0.227457833
0.116672555
165
ORF sequence:
ATGAATACCAACGACGAAAAAATGAAAATAATTTCAGAGGACTTCACTGGAGATGGTGTGGACACAGAGGCGGGAAGACGGAAGAAGAATTCAAAGGTGCGAAGACAGCAGAGAAAGAAAAAGCATCCTAGCGAGGCTTTGAAGGACTCCAGAATGTGCCCATGA
Peptide sequence:
MNTNDEKMKIISEDFTGDGVDTEAGRRKKNSKVRRQQRKKKHPSEALKDSRMCP
IRESfinder result
IRESfinder score
0.494953649
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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