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mmu_ciVwa5b2_2349
Basic information of circular RNA
PanCircBase ID:
mmu_ciVwa5b2_2349
mm39_Chr. Position ID:
chr16|20417023|20419372|+
Gene name:
Vwa5b2
Transcript:
ENSMUST00000096197.11
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
15
Exon/intron offsets:
0
Genomic length:
2349
Exon/intron sizes in nt:
2349
Flanking exon/introns:
chr16:20417023-20419377
Splice length:
2349
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAGGACTGGGCTGGGGTATCCCAGGCGGGCCTGGAGGGCGGAAGTCCTTGTATCTTACCCGTTCCCTGTCTTTGCTAAGAATCCTATAGGCCCCTAGAGCCCCATAGAGAATGCCTTGGGATTCTCCCAGAGACGGTTGTCCTGTAAAGTGTTTACACATGGTTTTCTTTTACAATTTTTAAAAATTACATTTACTTGTGTGTGTGTGTGTGTCTGTGTACATACATATGTGTGCTCTCAGTAGTATGTAATGTGGAGGTCAGAGGACAACTTGTGGGAGTTGGTTCTTTCCACCTACCATGTGGGTCATAAGGCTTGAATTTAGGTTGTCAGGCTTGGTGGACGTGTCTAGACCTACTTCACACAGCCCCTAAGAGAAAGCACCATCTTGGCTGGAAAGATGGCTCAACAAATAGTTCAGAGCACTTGCTCCTCTAGAGAACCCAGATTTGGTTCCCAGCATCACATGGTGGCACACAACTATCCATGACTCCAGTTCGCCTGCATGATGTGTACCCCATGTGTGCTTAGTGCCCTTGGAGGTCAAAGGGAGGCATCTGATCTCCTGGAACTGGAGTTACAGATGGTTGTGAGCGATCATGTGGGTGCTGGAAACCAAACCTGGGTCTTCTATGAAAACCTCTCAACCTCTGAGCCATCTCTCCAGTCATAAATGATGTCATAGGTTGTTGTGAAGAGAACTTGACAAGATAGCTGGCACACAGTAGGGCTTTGTGATCTTTCTGTTATTTGTTTATTTATTTAGTGAAAATCTCTCTCTAGGGGAACTATGCAGAACTACCTCGTTATTTTGCTTCTGAGGGCTACATAGCAGACTCTATCTTTGCCAGGTAGTCAGAAAGCTCAGGGCCAAATCTGAAGCTGAACTTTAAGCAGCTTTATTACCCAACAAGGCTAACACGTTGGCTTCTTACTTTTTAAATTTTTTTATGTATGAATGGTTTCCCTGCACCTATGTATTTGCCCCATGTGTGAGCTGGGAATTGAACTTGGGACCTTGAGAAGAGCAGTCAGTGCTCTTAACCGCTGAGCTATCTCTCCAGCCCCTATTTTAAATTTTTAATTAAGATATAGTTACATCACTTCTCCAATCCCTCCCCTGTCCCCCCTTTCTTTCAAATTGATGGCCTCTCTTTATTATTGTTACATGCTGCTTGTGTGGATGCGATTTCAGGGCTGACCACTTTGTGTTGGGTGAACAGTTAGGAGCGCATCCCAGGGAGAGGCTAACTCTATCCTCTCTCTGCAGTCATTAGTTGCCTGTGGTTCTTTGTCTAGGAGTGGGGACTGGTGTGACATCTCCCTTCTACATTAGCAGAATTGATCATTGGTATTGTCATTGCTCTGGTCTTGTTTGGGAGCCACGTTGAGGTATAGCTTTCCTGTCCTTTTTAGGAGACACAATCTTACAACATATTTTTAATTCTTTATTTTAAAGATTTATTTATTTATTATATGTGAGTACATTGTAGCTGTCTTCACACTCCAGAAGAAGGTGTCAGATCTCTTTACAGATGGTTGTGAGCCACCATGTGGTTGCTGGGAATTGAACTCGGGACCTTTGGAAGAGCAGTCAGTGCTCTTACCAGCTGAGCCATCTCTCCAGCCCCCATATTTTTAATCCTTAAAAACTATTTAGGTGCCGGGCGTGGTGGTACACGCCTTTAATCCCAGCACTCGGGAGTCAGAGGCAAGCGGATTTATGAGTTCAAGGCCAGCCTGGTCTACAAAGTGAGTTCCAGGACAGCCAGGGCTATACAGAGAAACCCTGTCTCAAAAAACCAAAAAGACAAAAAACAAAAACAAAACAAGAACAAAACACACAAACCTATTTAGGCTCAGGAGATGGCTCAGTGTGTTAAGGTGCTGCATCCAAGCCTGATGACTTGAGTTCAATCCCTGGGACTCACAGGGTAGGAGAGAACCAACTCCTGCAAGTTGTCTCTTGACCTCCACAAATGAGCTATGGCGCTCGTGCACACACACACACACACACACGCGCGCACACACACACACACATGCATTTTTACTTAGCTGAGTGTGGGTGGGTGCATGCATGCCACAGGACATACATGTGGAGGTCAGAGGACAACTTTGTACACTCCATTCTGCCTTTCTACTTTCCATTGGTTCCAGGGTTCAAACACAAGGAGGCAGGTTTGCATGGCAAGTGCCTTTAGCCACTGAGCCACTTTGTTGACCCTTATTTCTTACTGGCTTTTCACTTCTGGACTATTTATTAGCTTTTACTTTCTATGACCCATCTTTAAGTTATGCTTGCAGAAAGATATTATAAAATTAGCATACTCCTCCCTCAATACCTTTTC
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACCCATCTTTAAGTTATGCTTGCA
58.98
GCAAAGACAGGGAACGGGTA
59.96
145
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GACCCATCTTTAAGTTATGCTTGCA
59.87
GCAAAGACAGGGAACGGGTA
59.96
146
PCR template sequence:
CTGGACTATTTATTAGCTTTTACTTTCTATGACCCATCTTTAAGTTATGCTTGCAGAAAGATATTATAAAATTAGCATACTCCTCCCTCAATACCTTTTCGTAGGACTGGGCTGGGGTATCCCAGGCGGGCCTGGAGGGCGGAAGTCCTTGTATCTTACCCGTTCCCTGTCTTTGCTAAGAATCCTATAGGCCCCTAGAG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
44
Interacting miRNAs (#binding sites)
mmu-miR-297a-5p(3), mmu-miR-122-5p(2), mmu-miR-24-3p(2), mmu-miR-466a-5p(2), mmu-miR-1187(2), mmu-miR-466p-5p(2), mmu-miR-466b-3p(2), mmu-miR-574-5p(2), mmu-let-7a-5p(1), mmu-miR-16-5p(1), mmu-miR-15a-5p(1), mmu-miR-103-3p(1), mmu-let-7e-5p(1), mmu-let-7b-5p(1), mmu-miR-30e-5p(1), mmu-let-7c-5p(1), mmu-miR-211-5p(1), mmu-miR-204-5p(1), mmu-miR-30a-5p(1), mmu-miR-30c-5p(1), mmu-miR-196a-5p(1), mmu-miR-185-5p(1), mmu-miR-10a-5p(1), mmu-miR-381-3p(1), mmu-let-7d-5p(1), mmu-miR-503-5p(1), mmu-miR-30b-5p(1), mmu-miR-153-3p(1), mmu-miR-501-3p(1), mmu-miR-511-3p(1), mmu-miR-541-5p(1), mmu-miR-107-3p(1), mmu-miR-466d-3p(1), mmu-miR-98-5p(1), mmu-miR-29b-2-5p(1), mmu-miR-377-3p(1), mmu-miR-190b-5p(1), mmu-miR-669d-5p(1), mmu-miR-3087-3p(1), mmu-miR-3065-5p(1), mmu-miR-3470b(1), mmu-miR-350-3p(1), mmu-miR-1904(1), mmu-miR-7a-1-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TCAATACCTTTTCGTAGGACTGGGCT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIVWA5B2_2349_ORF_5
0.7744
-0.217275863
0.02270997
144
ORF sequence:
ATGCTTGCAGAAAGATATTATAAAATTAGCATACTCCTCCCTCAATACCTTTTCGTAGGACTGGGCTGGGGTATCCCAGGCGGGCCTGGAGGGCGGAAGTCCTTGTATCTTACCCGTTCCCTGTCTTTGCTAAGAATCCTATAG
Peptide sequence:
MLAERYYKISILLPQYLFVGLGWGIPGGPGGRKSLYLTRSLSLLRIL
IRESfinder result
IRESfinder score
0.841809254
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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