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mmu_circZcchc8_404
Basic information of circular RNA
PanCircBase ID:
mmu_circZcchc8_404
mm39_Chr. Position ID:
chr5|123847444|123857595|-
Gene name:
Zcchc8
Transcript:
ENSMUST00000031376.12
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
6,5,4,3,2
Exon/intron offsets:
0,4684,5243,7602,10110
Genomic length:
10151
Exon/intron sizes in nt:
104,78,106,75,41
Flanking exon/introns:
chr5:123847323-123847444|chr5:123857595-123858783
Splice length:
404
Other database IDs:
circAtlas: mmu-Zcchc8_0012
Human Ortholog IDs:
Mature spliced Sequence:
CAAGAACTTAAAAGAAAGTTGAACATTCTGACAAGACCCAGTGGTATACTGGTGAGCAATACTAAGATAGATGGACCGTTACTACAAATTCTATTTATGAACAATGCTATCTCAAAGCAATACCACCAAGAAATAGAGGAGTTTGTATCAAACTTAGTAAAACGATTTGAGGAACAGCAAAAAAATGACGTGGAAAAGACTTCCTTCAGCCTTTTACCCCAGCCGTCCAGTGTTATGTTGGAAGAGGACCATAAAGTGGAAGAATCATGTGCCGTTAAAAACAACAAGGAAGCTTTTAGTGTTGTAGGAAGTGTCCTGTATTTTACTAATTTTTGCCTTGATAAATTGGGGCAACCGCTACTAAATGAAAACCCTCAGCTTACGGAAGGATGGGAAATACCCAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGCCTTGATAAATTGGGGCAAC
59.76
ACGGTCCATCTATCTTAGTATTGCT
59.22
150
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGCCTTGATAAATTGGGGCA
57.76
ACGGTCCATCTATCTTAGTATTGCT
59.22
150
PCR template sequence:
TAGGAAGTGTCCTGTATTTTACTAATTTTTGCCTTGATAAATTGGGGCAACCGCTACTAAATGAAAACCCTCAGCTTACGGAAGGATGGGAAATACCCAACAAGAACTTAAAAGAAAGTTGAACATTCTGACAAGACCCAGTGGTATACTGGTGAGCAATACTAAGATAGATGGACCGTTACTACAAATTCTATTTATGA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
1
Interacting miRNAs (#binding sites)
mmu-miR-137-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GGGAAATACCCAACAAGAACTTAAAA
siRNA sets
TTTTAAGTTCTTGTTGGGT, GTTCTTGTTGGGTATTTCC, TAAGTTCTTGTTGGGTATT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCZCCHC8_404_ORF_1
0.9876
-0.005219763
0.392326368
417
ORF sequence:
ATGGGAAATACCCAACAAGAACTTAAAAGAAAGTTGAACATTCTGACAAGACCCAGTGGTATACTGGTGAGCAATACTAAGATAGATGGACCGTTACTACAAATTCTATTTATGAACAATGCTATCTCAAAGCAATACCACCAAGAAATAGAGGAGTTTGTATCAAACTTAGTAAAACGATTTGAGGAACAGCAAAAAAATGACGTGGAAAAGACTTCCTTCAGCCTTTTACCCCAGCCGTCCAGTGTTATGTTGGAAGAGGACCATAAAGTGGAAGAATCATGTGCCGTTAAAAACAACAAGGAAGCTTTTAGTGTTGTAGGAAGTGTCCTGTATTTTACTAATTTTTGCCTTGATAAATTGGGGCAACCGCTACTAAATGAAAACCCTCAGCTTACGGAAGGATGGGAAATACCC
Peptide sequence:
MGNTQQELKRKLNILTRPSGILVSNTKIDGPLLQILFMNNAISKQYHQEIEEFVSNLVKRFEEQQKNDVEKTSFSLLPQPSSVMLEEDHKVEESCAVKNNKEAFSVVGSVLYFTNFCLDKLGQPLLNENPQLTEGWEIP
IRESfinder result
IRESfinder score
0.596864101
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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