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mmu_circCcdc88a_210
Basic information of circular RNA
PanCircBase ID:
mmu_circCcdc88a_210
mm39_Chr. Position ID:
chr11|29324506|29350292|+
Gene name:
Ccdc88a
Transcript:
ENSMUST00000040182.13
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
2,3
Exon/intron offsets:
0,25677
Genomic length:
25786
Exon/intron sizes in nt:
1,01,109
Flanking exon/introns:
chr11:29324410-29324506|chr11:29350292-29372539
Splice length:
210
Other database IDs:
circBase: hsa_circ_0054624
Human Ortholog IDs:
Mature spliced Sequence:
GTTAAAACGTTTGGACCTCTGGCTGCAGGAAATGGGACTAACCTGGATGAGTATGTGGCTTTAGTGGATGGGGTATTCTTGAACCAGGTCATGCTCCAAATTAATCCTAAGTCGGAGAGTCAACGAGTAAATAAAAAAGTCAACAATGATGCTTCCCTTAGAATTCACAATCTGTCCATTTTGGTGAAACAGATAAAATTTTATTATCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GTCGGAGAGTCAACGAGTAA
56.73
TAGTCCCATTTCCTGCAGCC
59.74
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GTCGGAGAGTCAACGAGTAA
56.73
CCCCATCCACTAAAGCCACA
59.67
173
PCR template sequence:
GTCGGAGAGTCAACGAGTAAATAAAAAAGTCAACAATGATGCTTCCCTTAGAATTCACAATCTGTCCATTTTGGTGAAACAGATAAAATTTTATTATCAGGTTAAAACGTTTGGACCTCTGGCTGCAGGAAATGGGACTAACCTGGATGAGTATGTGGCTTTAGTGGATGGGGTATTCTTGAACCAGGTCATGCTCCAAA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
NA
Interacting miRNAs (#binding sites)
NA
siRNAs for circular RNA silencing
Junction sequence
ATTTTATTATCAGGTTAAAACGTTTG
siRNA sets
AAACGTTTTAACCTGATAA, TTTAACCTGATAATAAAAT, TTTTAACCTGATAATAAAA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCCCDC88A_210_ORF_1
1.0976
0.039531281
0.33877379
330
ORF sequence:
ATGCTCCAAATTAATCCTAAGTCGGAGAGTCAACGAGTAAATAAAAAAGTCAACAATGATGCTTCCCTTAGAATTCACAATCTGTCCATTTTGGTGAAACAGATAAAATTTTATTATCAGGTTAAAACGTTTGGACCTCTGGCTGCAGGAAATGGGACTAACCTGGATGAGTATGTGGCTTTAGTGGATGGGGTATTCTTGAACCAGGTCATGCTCCAAATTAATCCTAAGTCGGAGAGTCAACGAGTAAATAAAAAAGTCAACAATGATGCTTCCCTTAGAATTCACAATCTGTCCATTTTGGTGAAACAGATAAAATTTTATTATCAG
Peptide sequence:
MLQINPKSESQRVNKKVNNDASLRIHNLSILVKQIKFYYQVKTFGPLAAGNGTNLDEYVALVDGVFLNQVMLQINPKSESQRVNKKVNNDASLRIHNLSILVKQIKFYYQ
IRESfinder result
IRESfinder score
0.749753293
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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