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mmu_circFbxo21_856
Basic information of circular RNA
PanCircBase ID:
mmu_circFbxo21_856
mm39_Chr. Position ID:
chr5|118124163|118133567|+
Gene name:
Fbxo21
Transcript:
ENSMUST00000202447.4
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
4,5,6,7,8,9
Exon/intron offsets:
0,2679,3025,4704,8383,9271
Genomic length:
9404
Exon/intron sizes in nt:
1,22,14,71,37,13,71,80,000
Flanking exon/introns:
chr5:118117900-118124163|chr5:118133567-118138381
Splice length:
856
Other database IDs:
circAtlas: hsa-SCAF8_0001
Human Ortholog IDs:
Mature spliced Sequence:
GAAAGCTTTGACCTGGAAATACTACGCAAAGAAAATTCTCTACTACCTGCGGCAGCAGAAAATCCTCAATAACCTCAAGGCGTTCCTGCAGCAGCCCGACGATTACGAGTCCTATCTCGAAGGTGCCGTTTACATCGACCAGTACTGCAACCCACTCTCCGACATCAGCTTCAGAGACATCCAGGCCCAGATCCACAGCATTGTGGAGCTTGTGTGCAAAACCCTCCGTGGCATCAACAGCCGCCACCCCAGCCTGACCTTCAGGGCAGGTGAGTCCTCTATGATAATGGAGATAGAACTTCAGAGCCAAGTGCTGGACGCTATCAACTATGTCCTGTATGACCAGCTGAAGTTCAAAGGGAACCGCATGGACTACTATAATGCCTTGAACCTCTACATGCACCAGGTGTTGACCCGCAGAACAGGAATCCCCATCAGCATGTCTCTGCTCTACCTGACCGTCGCCCGGCAGCTGGGGGTTCCCCTGGAGCCTGTCAACTTCCCAAGCCACTTCCTGCTGCGGTGGTGCCAAGGTGCAGAAGGGGCAACCCTGGACATCTTTGACTACATCTACATAGATGCTTTTGGGAAGGGCAAGCAGCTGACAGTGAAAGAGTGTGAGTACCTGATTGGCCAGCACGTGACGGCAGCACTCTACGGCGTGGTGAATGTGAAGAAGGTGCTACAGCGGATGGTGGGCAACTTGCTGAGCCTGGGCAAGAGGGAAGGCATTGACCAGTCCTACCAGCTCCTCAGAGACTCCTTGGACCTGTACCTGGCGATGTACCCGGACCAGGTGCAGCTCCTGCTCCTCCAAGCCAGACTCTACTTCCACCTGGGCATCTGGCCAGAGAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CTGTACCTGGCGATGTACCC
59.9
GCAGGAACGCCTTGAGGTTA
60.32
176
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCTGTACCTGGCGATGTACC
59.9
GCAGGAACGCCTTGAGGTTA
60.32
177
PCR template sequence:
AGACTCCTTGGACCTGTACCTGGCGATGTACCCGGACCAGGTGCAGCTCCTGCTCCTCCAAGCCAGACTCTACTTCCACCTGGGCATCTGGCCAGAGAAGGAAAGCTTTGACCTGGAAATACTACGCAAAGAAAATTCTCTACTACCTGCGGCAGCAGAAAATCCTCAATAACCTCAAGGCGTTCCTGCAGCAGCCCGAC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
11
Interacting miRNAs (#binding sites)
mmu-miR-23b-3p(1), mmu-miR-181a-5p(1), mmu-miR-211-5p(1), mmu-miR-181b-5p(1), mmu-miR-136-5p(1), mmu-miR-22-3p(1), mmu-miR-96-5p(1), mmu-miR-325-3p(1), mmu-miR-484(1), mmu-miR-1904(1), mmu-miR-181d-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CTGGCCAGAGAAGGAAAGCTTTGACC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCFBXO21_856_ORF_1
1.3251
0.45783498
0.976550348
648
ORF sequence:
ATGATAATGGAGATAGAACTTCAGAGCCAAGTGCTGGACGCTATCAACTATGTCCTGTATGACCAGCTGAAGTTCAAAGGGAACCGCATGGACTACTATAATGCCTTGAACCTCTACATGCACCAGGTGTTGACCCGCAGAACAGGAATCCCCATCAGCATGTCTCTGCTCTACCTGACCGTCGCCCGGCAGCTGGGGGTTCCCCTGGAGCCTGTCAACTTCCCAAGCCACTTCCTGCTGCGGTGGTGCCAAGGTGCAGAAGGGGCAACCCTGGACATCTTTGACTACATCTACATAGATGCTTTTGGGAAGGGCAAGCAGCTGACAGTGAAAGAGTGTGAGTACCTGATTGGCCAGCACGTGACGGCAGCACTCTACGGCGTGGTGAATGTGAAGAAGGTGCTACAGCGGATGGTGGGCAACTTGCTGAGCCTGGGCAAGAGGGAAGGCATTGACCAGTCCTACCAGCTCCTCAGAGACTCCTTGGACCTGTACCTGGCGATGTACCCGGACCAGGTGCAGCTCCTGCTCCTCCAAGCCAGACTCTACTTCCACCTGGGCATCTGGCCAGAGAAGGAAAGCTTTGACCTGGAAATACTACGCAAAGAAAATTCTCTACTACCTGCGGCAGCAGAAAATCCTCAATAA
Peptide sequence:
MIMEIELQSQVLDAINYVLYDQLKFKGNRMDYYNALNLYMHQVLTRRTGIPISMSLLYLTVARQLGVPLEPVNFPSHFLLRWCQGAEGATLDIFDYIYIDAFGKGKQLTVKECEYLIGQHVTAALYGVVNVKKVLQRMVGNLLSLGKREGIDQSYQLLRDSLDLYLAMYPDQVQLLLLQARLYFHLGIWPEKESFDLEILRKENSLLPAAAENPQ
IRESfinder result
IRESfinder score
0.392315882
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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