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mmu_circVps8_970
Basic information of circular RNA
PanCircBase ID:
mmu_circVps8_970
mm39_Chr. Position ID:
chr16|21372824|21400448|+
Gene name:
Vps8
Transcript:
ENSMUST00000096192.12
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
9
Exon/intron indexes:
35,36,37,38,39,40,41,42,43
Exon/intron offsets:
0,5259,6123,9055,13894,14314,20892,22550,27458
Genomic length:
27624
Exon/intron sizes in nt:
148,90,43,104,85,83,81,170,166
Flanking exon/introns:
chr16:21362064-21372824|chr16:21400448-21426917
Splice length:
970
Other database IDs:
circAtlas: hsa-VPS8_0079, CIRCpedia: HSA_CIRCpedia_44770
Human Ortholog IDs:
Mature spliced Sequence:
GGAAGGTGTTCATGTCAATCAGGAGTTGCTGCAGATCCCGCCTCACATTACAGAGCAGTTCATTGAGCTGCTGTGCCAGTTCAGTCCTGACCAAGTCATACAGACACTGCAGGTCCTTGAGTGCTACCGTCTGGAGGAAACGATTCAGATTACACAAAAGTATCAACTCCATGAAGTCACTGCGTATCTGCTGGAGAAGAAAGGGGATGCACACGGCGCCTTCCTGCTGCTGCTGGAGAGACTGCAGAGCAGGCTGCAAGAGATGACACGGCAGGACGAAAATACCAAGGAGGACATCCTGCTGAAAGGTGTTGAAGATACCATGGTAGAGACAATTGCTCTTTGCCAGAGAAATTCACAGAATTTGAATCAGCAGCAACGAGAGGCTCTATGGTTTCCACTGTTGGAGGCAATGATGACACCACAGAAGCTGTCCAGCTCGGCTGCTGCTCCTCATCCGCACTGTGAAGCTCTGAAGTCTTTGACCATGCAAGTCCTAAACAGCATGGCAGCGTTCATCGCCCTCCCGTCCATCCTACAGAGAATCTTGCAGGACCCAATTTATGGAAAAGGAAAGCTTGGAGAAATCCAGGGCCTTATTCTGGGGATGCTGGACACCTTCAACTATGAGCAAACCTTGCTAGAAACAACAGCCAGCCTCCTGAACCAAGATCTCCATTGGTCACTGTGTAACCTGAGAGCATCAGTATCCAGAGGACTCAATCCCAAGCAGGATTACTGTTCTATATGTTTACAGCAGTACAAAAGACGCCAAGAAATGGCTGATGAAATTATTGTCTTTAGCTGTGGCCATTTGTATCATTCATTCTGTCTCCAAAGTAAGGAATGCACCCTAGAGGTTGAGGGTCAGACGAGATGGGCGTGTCACAAATGCAGCTCAAGTAATAAAGCGGGCAAACTCAGTGAAAATCCTTCTGAAAACAAGAAAGGACGGATAACCTCGTCTCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCGGGCAAACTCAGTGAAAA
59.62
GTCAGGACTGAACTGGCACA
59.89
151
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCGGGCAAACTCAGTGAAAA
59.62
TTGGTCAGGACTGAACTGGC
59.89
154
PCR template sequence:
GACGAGATGGGCGTGTCACAAATGCAGCTCAAGTAATAAAGCGGGCAAACTCAGTGAAAATCCTTCTGAAAACAAGAAAGGACGGATAACCTCGTCTCAGGGAAGGTGTTCATGTCAATCAGGAGTTGCTGCAGATCCCGCCTCACATTACAGAGCAGTTCATTGAGCTGCTGTGCCAGTTCAGTCCTGACCAAGTCATA
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-324-5p(2), mmu-miR-322-5p(1), mmu-miR-128-3p(1), mmu-miR-758-3p(1), mmu-miR-207(1), mmu-miR-452-3p(1)
siRNAs for circular RNA silencing
Junction sequence
AACCTCGTCTCAGGGAAGGTGTTCAT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCVPS8_970_ORF_1
0.5992
0.083369971
0.852219607
774
ORF sequence:
ATGACACGGCAGGACGAAAATACCAAGGAGGACATCCTGCTGAAAGGTGTTGAAGATACCATGGTAGAGACAATTGCTCTTTGCCAGAGAAATTCACAGAATTTGAATCAGCAGCAACGAGAGGCTCTATGGTTTCCACTGTTGGAGGCAATGATGACACCACAGAAGCTGTCCAGCTCGGCTGCTGCTCCTCATCCGCACTGTGAAGCTCTGAAGTCTTTGACCATGCAAGTCCTAAACAGCATGGCAGCGTTCATCGCCCTCCCGTCCATCCTACAGAGAATCTTGCAGGACCCAATTTATGGAAAAGGAAAGCTTGGAGAAATCCAGGGCCTTATTCTGGGGATGCTGGACACCTTCAACTATGAGCAAACCTTGCTAGAAACAACAGCCAGCCTCCTGAACCAAGATCTCCATTGGTCACTGTGTAACCTGAGAGCATCAGTATCCAGAGGACTCAATCCCAAGCAGGATTACTGTTCTATATGTTTACAGCAGTACAAAAGACGCCAAGAAATGGCTGATGAAATTATTGTCTTTAGCTGTGGCCATTTGTATCATTCATTCTGTCTCCAAAGTAAGGAATGCACCCTAGAGGTTGAGGGTCAGACGAGATGGGCGTGTCACAAATGCAGCTCAAGTAATAAAGCGGGCAAACTCAGTGAAAATCCTTCTGAAAACAAGAAAGGACGGATAACCTCGTCTCAGGGAAGGTGTTCATGTCAATCAGGAGTTGCTGCAGATCCCGCCTCACATTACAGAGCAGTTCATTGA
Peptide sequence:
MTRQDENTKEDILLKGVEDTMVETIALCQRNSQNLNQQQREALWFPLLEAMMTPQKLSSSAAAPHPHCEALKSLTMQVLNSMAAFIALPSILQRILQDPIYGKGKLGEIQGLILGMLDTFNYEQTLLETTASLLNQDLHWSLCNLRASVSRGLNPKQDYCSICLQQYKRRQEMADEIIVFSCGHLYHSFCLQSKECTLEVEGQTRWACHKCSSSNKAGKLSENPSENKKGRITSSQGRCSCQSGVAADPASHYRAVH
IRESfinder result
IRESfinder score
0.510885082
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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