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mmu_circCfap36_600
Basic information of circular RNA
PanCircBase ID:
mmu_circCfap36_600
mm39_Chr. Position ID:
chr11|29172743|29194160|-
Gene name:
Cfap36
Transcript:
ENSMUST00000020754.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
8,7,6,5,4,3
Exon/intron offsets:
0,3113,7164,7842,11614,21315
Genomic length:
21417
Exon/intron sizes in nt:
1,40,10,35,28,81,15,100
Flanking exon/introns:
chr11:29172583-29172743|chr11:29194160-29195085
Splice length:
600
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTTGAAAAGCTGTTAGAAAGTTACCTCAAAGAGATTGGAATTAATGAAGATCAGTTTCAAGAAGCGTGCACGTCCCCTCTGGCGAAGACGCGCACATCACAGGCCATTTTGCAGCCTGTGTTGGCAGCAGAAGATTTTACTATCTTTAAAGCAATGATGGTCCAGAAGAACATTGAAATGCAGCTTCAAGCCATCCGAATAATCCAGGAGAGGAATGGTGTGTTACCTGACTGCTTAACTGATGGTGCAGATGTGGTCAGTGACCTTGAACAGGAAGAGATGAAAATTCTAAGAGAGGTCCTCAGAAAATCAAAAGAAGAATATGACCAGGAGGAAGAAAGGAAACGAAAAAAGCAGTCATCAGAGGCTAAAATGGAAGAACTGCCAGTATACACGAGTGAAGCTGAAAAAATGAGTAATTCCCAAGGGGATGGTGAACACTTTGTACAGCCACCCTCAGAAGTTAAAGTGCATTTTGCTAATCAGTCAGTACAACCCTTGGCAAGAAAGATGGAGTTGTTGCCTGAAACTTCCTCCCTCACACAAAAAGGTTTGAAGATACCTGGCTTAGAGCATGCAAGCATGGAAGGACCAATAGCA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCCTGAAACTTCCTCCCTCA
59.31
ACGTGCACGCTTCTTGAAAC
59.97
152
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGCCTGAAACTTCCTCCCTC
59.31
ACGTGCACGCTTCTTGAAAC
59.97
153
PCR template sequence:
GGCAAGAAAGATGGAGTTGTTGCCTGAAACTTCCTCCCTCACACAAAAAGGTTTGAAGATACCTGGCTTAGAGCATGCAAGCATGGAAGGACCAATAGCAGTTGAAAAGCTGTTAGAAAGTTACCTCAAAGAGATTGGAATTAATGAAGATCAGTTTCAAGAAGCGTGCACGTCCCCTCTGGCGAAGACGCGCACATCAC
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-135a-5p(1), mmu-miR-324-5p(1), mmu-miR-136-5p(1), mmu-miR-335-3p(1)
siRNAs for circular RNA silencing
Junction sequence
AGGACCAATAGCAGTTGAAAAGCTGT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCCFAP36_600_ORF_1
1.0794
0.182886567
0.993563951
1047
ORF sequence:
ATGATGGTCCAGAAGAACATTGAAATGCAGCTTCAAGCCATCCGAATAATCCAGGAGAGGAATGGTGTGTTACCTGACTGCTTAACTGATGGTGCAGATGTGGTCAGTGACCTTGAACAGGAAGAGATGAAAATTCTAAGAGAGGTCCTCAGAAAATCAAAAGAAGAATATGACCAGGAGGAAGAAAGGAAACGAAAAAAGCAGTCATCAGAGGCTAAAATGGAAGAACTGCCAGTATACACGAGTGAAGCTGAAAAAATGAGTAATTCCCAAGGGGATGGTGAACACTTTGTACAGCCACCCTCAGAAGTTAAAGTGCATTTTGCTAATCAGTCAGTACAACCCTTGGCAAGAAAGATGGAGTTGTTGCCTGAAACTTCCTCCCTCACACAAAAAGGTTTGAAGATACCTGGCTTAGAGCATGCAAGCATGGAAGGACCAATAGCAGTTGAAAAGCTGTTAGAAAGTTACCTCAAAGAGATTGGAATTAATGAAGATCAGTTTCAAGAAGCGTGCACGTCCCCTCTGGCGAAGACGCGCACATCACAGGCCATTTTGCAGCCTGTGTTGGCAGCAGAAGATTTTACTATCTTTAAAGCAATGATGGTCCAGAAGAACATTGAAATGCAGCTTCAAGCCATCCGAATAATCCAGGAGAGGAATGGTGTGTTACCTGACTGCTTAACTGATGGTGCAGATGTGGTCAGTGACCTTGAACAGGAAGAGATGAAAATTCTAAGAGAGGTCCTCAGAAAATCAAAAGAAGAATATGACCAGGAGGAAGAAAGGAAACGAAAAAAGCAGTCATCAGAGGCTAAAATGGAAGAACTGCCAGTATACACGAGTGAAGCTGAAAAAATGAGTAATTCCCAAGGGGATGGTGAACACTTTGTACAGCCACCCTCAGAAGTTAAAGTGCATTTTGCTAATCAGTCAGTACAACCCTTGGCAAGAAAGATGGAGTTGTTGCCTGAAACTTCCTCCCTCACACAAAAAGGTTTGAAGATACCTGGCTTAGAGCATGCAAGCATGGAAGGACCAATAGCA
Peptide sequence:
MMVQKNIEMQLQAIRIIQERNGVLPDCLTDGADVVSDLEQEEMKILREVLRKSKEEYDQEEERKRKKQSSEAKMEELPVYTSEAEKMSNSQGDGEHFVQPPSEVKVHFANQSVQPLARKMELLPETSSLTQKGLKIPGLEHASMEGPIAVEKLLESYLKEIGINEDQFQEACTSPLAKTRTSQAILQPVLAAEDFTIFKAMMVQKNIEMQLQAIRIIQERNGVLPDCLTDGADVVSDLEQEEMKILREVLRKSKEEYDQEEERKRKKQSSEAKMEELPVYTSEAEKMSNSQGDGEHFVQPPSEVKVHFANQSVQPLARKMELLPETSSLTQKGLKIPGLEHASMEGPIA
IRESfinder result
IRESfinder score
0.511947818
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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