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mmu_circCol27a1_315
Basic information of circular RNA
PanCircBase ID:
mmu_circCol27a1_315
mm39_Chr. Position ID:
chr4|63239666|63242903|+
Gene name:
Col27a1
Transcript:
ENSMUST00000036300.13
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
49,50,51,52,53
Exon/intron offsets:
0,2018,2489,3001,3201
Genomic length:
3237
Exon/intron sizes in nt:
108,54,63,54,36
Flanking exon/introns:
chr4:63237794-63239666|chr4:63242903-63243008
Splice length:
315
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GGTGAAAGTGGGTTACCTGGGCAACTGGGTCCCCCTGGAAAACGAGGGACAGAAGGTGGAACAGGGCTTCCTGGGAACCAGGGGGAGCCAGGATCCAAAGGCCAGCCGGGTGACTCTGGCGAGATGGGCTTCCCAGGAGTGGCTGGCCTCTTTGGACCCAAGGGCCCCCCTGGAGACATTGGCTTCAAAGGCATCCAAGGTCCTCGGGGGCCTCCTGGCTTGATGGGAAAGGAAGGTATCATTGGCCCCCCCGGAATGCTGGGACCTTCTGGACTCCCGGGTCCCAAAGGTGACAGAGGCAGCCGAGGAGACTTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGAAGGTATCATTGGCCCCC
60.18
CCTGTTCCACCTTCTGTCCC
59.96
150
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGAAGGTATCATTGGCCCCC
60.18
CCCTGTTCCACCTTCTGTCC
59.96
151
PCR template sequence:
TGGCTTGATGGGAAAGGAAGGTATCATTGGCCCCCCCGGAATGCTGGGACCTTCTGGACTCCCGGGTCCCAAAGGTGACAGAGGCAGCCGAGGAGACTTGGGTGAAAGTGGGTTACCTGGGCAACTGGGTCCCCCTGGAAAACGAGGGACAGAAGGTGGAACAGGGCTTCCTGGGAACCAGGGGGAGCCAGGATCCAAAG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
2
Interacting miRNAs (#binding sites)
mmu-miR-149-5p(1), mmu-miR-351-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CCGAGGAGACTTGGGTGAAAGTGGGT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCCOL27A1_315_ORF_1
1.1726
0.237609277
0.825338581
507
ORF sequence:
ATGGGCTTCCCAGGAGTGGCTGGCCTCTTTGGACCCAAGGGCCCCCCTGGAGACATTGGCTTCAAAGGCATCCAAGGTCCTCGGGGGCCTCCTGGCTTGATGGGAAAGGAAGGTATCATTGGCCCCCCCGGAATGCTGGGACCTTCTGGACTCCCGGGTCCCAAAGGTGACAGAGGCAGCCGAGGAGACTTGGGTGAAAGTGGGTTACCTGGGCAACTGGGTCCCCCTGGAAAACGAGGGACAGAAGGTGGAACAGGGCTTCCTGGGAACCAGGGGGAGCCAGGATCCAAAGGCCAGCCGGGTGACTCTGGCGAGATGGGCTTCCCAGGAGTGGCTGGCCTCTTTGGACCCAAGGGCCCCCCTGGAGACATTGGCTTCAAAGGCATCCAAGGTCCTCGGGGGCCTCCTGGCTTGATGGGAAAGGAAGGTATCATTGGCCCCCCCGGAATGCTGGGACCTTCTGGACTCCCGGGTCCCAAAGGTGACAGAGGCAGCCGAGGAGACTTG
Peptide sequence:
MGFPGVAGLFGPKGPPGDIGFKGIQGPRGPPGLMGKEGIIGPPGMLGPSGLPGPKGDRGSRGDLGESGLPGQLGPPGKRGTEGGTGLPGNQGEPGSKGQPGDSGEMGFPGVAGLFGPKGPPGDIGFKGIQGPRGPPGLMGKEGIIGPPGMLGPSGLPGPKGDRGSRGDL
IRESfinder result
IRESfinder score
0.509338754
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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