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mmu_circZfyve9_678
Basic information of circular RNA
PanCircBase ID:
mmu_circZfyve9_678
mm39_Chr. Position ID:
chr4|108499284|108517912|-
Gene name:
Zfyve9
Transcript:
ENSMUST00000106658.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
17,16,15,14,13
Exon/intron offsets:
0,2248,8096,14839,18477
Genomic length:
18628
Exon/intron sizes in nt:
1,77,10,61,63,81,151
Flanking exon/introns:
chr4:108496617-108499284|chr4:108517912-108531649
Splice length:
678
Other database IDs:
circAtlas: mmu-Zfyve9_0051
Human Ortholog IDs:
Mature spliced Sequence:
ATGATGAAAGCCATGAACAAATCCAATGAACATGTACTGGCAGGAGGTGCCTGCTTCAATGAAAAGGCAGATTCTCATCTTGTGTGTGTACAGAACGATGATGGAAACTATCAAACCCAGGCCATCAGTATTCACAATCAGCCCAGGAAAGTGACTGGCGCCAGTTTCTTTGTGTTCAGTGGCGCACTGAAATCCTCTTCAGGATACCTTGCCAAGTCCAGTATTGTAGAAGATGGAGTCATGGTCCAGATCACTGCGGAGAACATGGACTCCTTGAGGCAGGCACTGCGGGAGATGAAGGACTTTACCATCACTTGTGGGAAGGCGGATGCAGAGGACCCCCAGGAACAGATCCACATCCAGTGGGTGGACGATGACAAGACAGTTAACAAAGGTGTGGTGAGTCCTATAGATGGGAAGTCTATGGAATCTATAACAAACGTGAAAATATTCCATGGGTCAGAGTATAAAGCAAACGGAAAAGTCATCAGATGGACAGAGGTGTTTTTCCTGGAAAACGATGACCACCATAACTGCCTGAGTGACCCTGCAGATCACAGCAGACTGACTGAGCATGTCGCCAAGGCATTCTGCCTCGCCCTCTGCCCCCACCTGAAGCTTTTAAAAGAAGATGGAATGACAAAACTGGGACTCCGTGTGACGCTTGACTCAGATCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCCCCCACCTGAAGCTTTTA
60.25
GCCTTTTCATTGAAGCAGGCA
60
142
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCCCCCACCTGAAGCTTTTA
60.25
TGCCTTTTCATTGAAGCAGGC
60
143
PCR template sequence:
CGCCAAGGCATTCTGCCTCGCCCTCTGCCCCCACCTGAAGCTTTTAAAAGAAGATGGAATGACAAAACTGGGACTCCGTGTGACGCTTGACTCAGATCAGATGATGAAAGCCATGAACAAATCCAATGAACATGTACTGGCAGGAGGTGCCTGCTTCAATGAAAAGGCAGATTCTCATCTTGTGTGTGTACAGAACGATG
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-429-3p(1), mmu-miR-200b-3p(1), mmu-miR-200c-3p(1), mmu-miR-205-5p(1), mmu-miR-182-5p(1), mmu-miR-1199-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TGACTCAGATCAGATGATGAAAGCCA
siRNA sets
TTTCATCATCTGATCTGAG,TTCATCATCTGATCTGAGT,CTTTCATCATCTGATCTGA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCZFYVE9_678_ORF_1
1.2107
0.265554492
0.999609525
1356
ORF sequence:
ATGATGAAAGCCATGAACAAATCCAATGAACATGTACTGGCAGGAGGTGCCTGCTTCAATGAAAAGGCAGATTCTCATCTTGTGTGTGTACAGAACGATGATGGAAACTATCAAACCCAGGCCATCAGTATTCACAATCAGCCCAGGAAAGTGACTGGCGCCAGTTTCTTTGTGTTCAGTGGCGCACTGAAATCCTCTTCAGGATACCTTGCCAAGTCCAGTATTGTAGAAGATGGAGTCATGGTCCAGATCACTGCGGAGAACATGGACTCCTTGAGGCAGGCACTGCGGGAGATGAAGGACTTTACCATCACTTGTGGGAAGGCGGATGCAGAGGACCCCCAGGAACAGATCCACATCCAGTGGGTGGACGATGACAAGACAGTTAACAAAGGTGTGGTGAGTCCTATAGATGGGAAGTCTATGGAATCTATAACAAACGTGAAAATATTCCATGGGTCAGAGTATAAAGCAAACGGAAAAGTCATCAGATGGACAGAGGTGTTTTTCCTGGAAAACGATGACCACCATAACTGCCTGAGTGACCCTGCAGATCACAGCAGACTGACTGAGCATGTCGCCAAGGCATTCTGCCTCGCCCTCTGCCCCCACCTGAAGCTTTTAAAAGAAGATGGAATGACAAAACTGGGACTCCGTGTGACGCTTGACTCAGATCAGATGATGAAAGCCATGAACAAATCCAATGAACATGTACTGGCAGGAGGTGCCTGCTTCAATGAAAAGGCAGATTCTCATCTTGTGTGTGTACAGAACGATGATGGAAACTATCAAACCCAGGCCATCAGTATTCACAATCAGCCCAGGAAAGTGACTGGCGCCAGTTTCTTTGTGTTCAGTGGCGCACTGAAATCCTCTTCAGGATACCTTGCCAAGTCCAGTATTGTAGAAGATGGAGTCATGGTCCAGATCACTGCGGAGAACATGGACTCCTTGAGGCAGGCACTGCGGGAGATGAAGGACTTTACCATCACTTGTGGGAAGGCGGATGCAGAGGACCCCCAGGAACAGATCCACATCCAGTGGGTGGACGATGACAAGACAGTTAACAAAGGTGTGGTGAGTCCTATAGATGGGAAGTCTATGGAATCTATAACAAACGTGAAAATATTCCATGGGTCAGAGTATAAAGCAAACGGAAAAGTCATCAGATGGACAGAGGTGTTTTTCCTGGAAAACGATGACCACCATAACTGCCTGAGTGACCCTGCAGATCACAGCAGACTGACTGAGCATGTCGCCAAGGCATTCTGCCTCGCCCTCTGCCCCCACCTGAAGCTTTTAAAAGAAGATGGAATGACAAAACTGGGACTCCGTGTGACGCTTGACTCAGATCAG
Peptide sequence:
MMKAMNKSNEHVLAGGACFNEKADSHLVCVQNDDGNYQTQAISIHNQPRKVTGASFFVFSGALKSSSGYLAKSSIVEDGVMVQITAENMDSLRQALREMKDFTITCGKADAEDPQEQIHIQWVDDDKTVNKGVVSPIDGKSMESITNVKIFHGSEYKANGKVIRWTEVFFLENDDHHNCLSDPADHSRLTEHVAKAFCLALCPHLKLLKEDGMTKLGLRVTLDSDQMMKAMNKSNEHVLAGGACFNEKADSHLVCVQNDDGNYQTQAISIHNQPRKVTGASFFVFSGALKSSSGYLAKSSIVEDGVMVQITAENMDSLRQALREMKDFTITCGKADAEDPQEQIHIQWVDDDKTVNKGVVSPIDGKSMESITNVKIFHGSEYKANGKVIRWTEVFFLENDDHHNCLSDPADHSRLTEHVAKAFCLALCPHLKLLKEDGMTKLGLRVTLDSDQ
IRESfinder result
IRESfinder score
0.458595662
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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