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mmu_circVps33a_492
Basic information of circular RNA
PanCircBase ID:
mmu_circVps33a_492
mm39_Chr. Position ID:
chr5|123696676|123703138|-
Gene name:
Vps33a
Transcript:
ENSMUST00000031388.13
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
7,6,5
Exon/intron offsets:
0,4812,6345
Genomic length:
6462
Exon/intron sizes in nt:
200,175,117
Flanking exon/introns:
chr5:123685191-123696676|chr5:123703138-123707482
Splice length:
492
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GAGTGCTACCTGGAAGGCGACCAGACCAGCCTGTACCACGCAGCCAAGGGGCTGATGACCCTGCAGGCGCTGTATGGAACTATCCCCCAGATCTTTGGGAAAGGAGAGTGTGCTCGGCAAGTGGCCAATATGATGGTCAGGATGAAGAGGGAGTTCACAGGAAGCCAGAACTCAGTGTTCCCCGTGTTTGATAACCTCTTGCTGCTTGATCGCAATGTGGATCTCCTGACGCCACTCGCCTCCCAGCTCACGTATGAAGGCCTCATCGATGAGATTTACGGCATTCAGAACAGTTATGTGAAGTTGCCTCCAGAGAAGTTTGCACCCAAGAAGCAGGGTGGCGGCAGTGGTGGGAAGGACCTTCCCACGGAGGCCAAGAAGCTTCAGCTCAACTCCGCAGAGGAGCTCTACGCCGAGATCCGAGACAAGAACTTCAACGCTGTGGGCTCTGTGCTCAGCAAGAAGGCGAAGATCATCTCTGCAGCGTTCGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCCGAGATCCGAGACAAGAA
59.54
TAGTTCCATACAGCGCCTGC
60.18
163
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CTCTACGCCGAGATCCGAGA
60.6
TAGTTCCATACAGCGCCTGC
60.18
169
PCR template sequence:
CTCCGCAGAGGAGCTCTACGCCGAGATCCGAGACAAGAACTTCAACGCTGTGGGCTCTGTGCTCAGCAAGAAGGCGAAGATCATCTCTGCAGCGTTCGAGGAGTGCTACCTGGAAGGCGACCAGACCAGCCTGTACCACGCAGCCAAGGGGCTGATGACCCTGCAGGCGCTGTATGGAACTATCCCCCAGATCTTTGGGA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
5
Interacting miRNAs (#binding sites)
mmu-miR-211-5p(1), mmu-miR-204-5p(1), mmu-miR-19a-3p(1), mmu-miR-127-5p(1), mmu-miR-324-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TGCAGCGTTCGAGGAGTGCTACCTGG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCVPS33A_492_ORF_1
1.2811
0.550249592
0.99771065
930
ORF sequence:
ATGACCCTGCAGGCGCTGTATGGAACTATCCCCCAGATCTTTGGGAAAGGAGAGTGTGCTCGGCAAGTGGCCAATATGATGGTCAGGATGAAGAGGGAGTTCACAGGAAGCCAGAACTCAGTGTTCCCCGTGTTTGATAACCTCTTGCTGCTTGATCGCAATGTGGATCTCCTGACGCCACTCGCCTCCCAGCTCACGTATGAAGGCCTCATCGATGAGATTTACGGCATTCAGAACAGTTATGTGAAGTTGCCTCCAGAGAAGTTTGCACCCAAGAAGCAGGGTGGCGGCAGTGGTGGGAAGGACCTTCCCACGGAGGCCAAGAAGCTTCAGCTCAACTCCGCAGAGGAGCTCTACGCCGAGATCCGAGACAAGAACTTCAACGCTGTGGGCTCTGTGCTCAGCAAGAAGGCGAAGATCATCTCTGCAGCGTTCGAGGAGTGCTACCTGGAAGGCGACCAGACCAGCCTGTACCACGCAGCCAAGGGGCTGATGACCCTGCAGGCGCTGTATGGAACTATCCCCCAGATCTTTGGGAAAGGAGAGTGTGCTCGGCAAGTGGCCAATATGATGGTCAGGATGAAGAGGGAGTTCACAGGAAGCCAGAACTCAGTGTTCCCCGTGTTTGATAACCTCTTGCTGCTTGATCGCAATGTGGATCTCCTGACGCCACTCGCCTCCCAGCTCACGTATGAAGGCCTCATCGATGAGATTTACGGCATTCAGAACAGTTATGTGAAGTTGCCTCCAGAGAAGTTTGCACCCAAGAAGCAGGGTGGCGGCAGTGGTGGGAAGGACCTTCCCACGGAGGCCAAGAAGCTTCAGCTCAACTCCGCAGAGGAGCTCTACGCCGAGATCCGAGACAAGAACTTCAACGCTGTGGGCTCTGTGCTCAGCAAGAAGGCGAAGATCATCTCTGCAGCGTTCGAG
Peptide sequence:
MTLQALYGTIPQIFGKGECARQVANMMVRMKREFTGSQNSVFPVFDNLLLLDRNVDLLTPLASQLTYEGLIDEIYGIQNSYVKLPPEKFAPKKQGGGSGGKDLPTEAKKLQLNSAEELYAEIRDKNFNAVGSVLSKKAKIISAAFEECYLEGDQTSLYHAAKGLMTLQALYGTIPQIFGKGECARQVANMMVRMKREFTGSQNSVFPVFDNLLLLDRNVDLLTPLASQLTYEGLIDEIYGIQNSYVKLPPEKFAPKKQGGGSGGKDLPTEAKKLQLNSAEELYAEIRDKNFNAVGSVLSKKAKIISAAFE
IRESfinder result
IRESfinder score
0.330167366
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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