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mmu_circVps16_1462
Basic information of circular RNA
PanCircBase ID:
mmu_circVps16_1462
mm39_Chr. Position ID:
chr2|130281355|130284603|+
Gene name:
Vps16
Transcript:
ENSMUST00000028900.11
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
14
Exon/intron indexes:
9,10,11,12,13,14,15,16,17,18,19,20,21,22
Exon/intron offsets:
0,184,405,795,1016,1271,1464,1729,1959,2172,2358,2737,2899,3151
Genomic length:
3248
Exon/intron sizes in nt:
90,95,77,132,128,36,109,135,109,98,108,78,170,97
Flanking exon/introns:
chr2:130281021-130281355|chr2:130284603-130285215
Splice length:
1462
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTGTAGCCGTCCTCGGAGCAAGGAAAGGGCTGTTGTTGTGGCCTGGGAGAGGCGGCTGATGGTGGTGGGCAATGCGCCTGAAAGCATCCAGTTTGTGCTCGATGAGGACTCCTACTTAGTGCCTGAGCTTGATGGGGTCCGCATCTTCTCCCGAAGCACCCATGAGTTCCTGCATGAAGTCCCAGTGGCCAGTGAAGAGATCTTCAAAATTGCCTCAATGGCCCCTGGAGCACTGCTGTTAGAGGCCCAGAAGGAATATGAGAAAGAGAGCCAGAAAGCAGATGAGTACCTGCGGGAGATCCAGGAACTGGGCCAGCTGATCCAGGCTGTGCAGCAGTGCATTGAGGCTGCAGGACATGAGCACCAGCCAGACATGCAAAAGAGTCTGCTCAGGGCGGCTTCATTTGGAAAGTGTTTCCTTGACAGATTTCCACCTGACAGCTTCGTGCACATGTGTCAGGACCTTCGAGTGCTCAATGCTATTAGAGACTACCACATTGGGATCCCTCTCACCTACACCCAATACAAGCAGCTCACCATCCAGGTGCTGCTAGACAGGCTTGTGTTGCGGAGGCTTTATCCCCTGGCTATCCAGATATGCGAGTACCTGCGCCTTCCTGAAGTCCAGGGTGTCAGCAGGATCCTAGCCCACTGGGCCTGCTACAAGGTGCAGCAGAAAGATGTCTCAGATGAAGATGTAGCACGGGCTATTAATCAGAAGCTGGGTGACACGCCTGGTGTTTCATACTCTGACATTGCTGCGAGGGCCTATGGCTGTGGCCGCACTGAACTGGCCATTAAGCTGCTGGAGTATGAGCCACGCTCAGGGGAGCAGGTACCTCTTCTCCTAAAGATGAAGAGGAGCAAACTGGCACTGAGCAAGGCTATTGAGAGTGGAGACACTGACCTGGTGTTTACAGTGTTGCTGCACCTAAAGAATGAACTCAACCGAGGAGACTTTTTCATGACTCTCCGGAACCAACCCATGGCCCTGAGTTTGTATCGACAGTTCTGTAAGCATCAGGAGCTAGACACTCTGAAGGACCTTTACAATCAGGACGACAATCACCAGGAGTTGGGCAGCTTCCACATCAGAGCCAGCTATGCCGCTGAAGAGCGTATTGAAGGGCGAGTGGCAGCTCTGCAGACGGCAGCTGATGCCTTCTACAAAGCCAAGAATGAATTTGCAGCCAAGGCCACAGAGGATCAAATGAGGCTCCTGCGGATACAGCGACGCCTAGAGGATGAGCTAGGGGGCAGGTTCCTAGACCTATCTCTACACGACACTGTCACCACTCTTATCCTTGGAGGCCACAACAAGCGGGCAGAGCAGCTGGCACGTGACTTTCGCATCCCTGATAAGAGACTATGGTGGTTAAAGCTGGCTGCCCTGGCAGATTTGGAAGATTGGGAGGAGCTGGAGAAGTTTTCCAAAAGCAAGAAATCACCGATTGGTTACCTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGGGAGGAGCTGGAGAAGTT
60.18
GGATGCTTTCAGGCGCATTG
60.53
143
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TTGGGAGGAGCTGGAGAAGT
60.18
GGATGCTTTCAGGCGCATTG
60.53
144
PCR template sequence:
GAGACTATGGTGGTTAAAGCTGGCTGCCCTGGCAGATTTGGAAGATTGGGAGGAGCTGGAGAAGTTTTCCAAAAGCAAGAAATCACCGATTGGTTACCTGGTGTAGCCGTCCTCGGAGCAAGGAAAGGGCTGTTGTTGTGGCCTGGGAGAGGCGGCTGATGGTGGTGGGCAATGCGCCTGAAAGCATCCAGTTTGTGCTC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
14
Interacting miRNAs (#binding sites)
mmu-miR-16-5p(2), mmu-miR-22-3p(2), mmu-miR-15a-5p(1), mmu-miR-221-3p(1), mmu-miR-15b-5p(1), mmu-miR-222-3p(1), mmu-miR-149-5p(1), mmu-miR-351-5p(1), mmu-miR-125a-5p(1), mmu-miR-676-3p(1), mmu-miR-541-5p(1), mmu-miR-207(1), mmu-miR-673-5p(1), mmu-miR-1904(1)
siRNAs for circular RNA silencing
Junction sequence
GATTGGTTACCTGGTGTAGCCGTCCT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCVPS16_1462_ORF_1
1.2757
0.409059788
0.999864771
1410
ORF sequence:
ATGGTGGTGGGCAATGCGCCTGAAAGCATCCAGTTTGTGCTCGATGAGGACTCCTACTTAGTGCCTGAGCTTGATGGGGTCCGCATCTTCTCCCGAAGCACCCATGAGTTCCTGCATGAAGTCCCAGTGGCCAGTGAAGAGATCTTCAAAATTGCCTCAATGGCCCCTGGAGCACTGCTGTTAGAGGCCCAGAAGGAATATGAGAAAGAGAGCCAGAAAGCAGATGAGTACCTGCGGGAGATCCAGGAACTGGGCCAGCTGATCCAGGCTGTGCAGCAGTGCATTGAGGCTGCAGGACATGAGCACCAGCCAGACATGCAAAAGAGTCTGCTCAGGGCGGCTTCATTTGGAAAGTGTTTCCTTGACAGATTTCCACCTGACAGCTTCGTGCACATGTGTCAGGACCTTCGAGTGCTCAATGCTATTAGAGACTACCACATTGGGATCCCTCTCACCTACACCCAATACAAGCAGCTCACCATCCAGGTGCTGCTAGACAGGCTTGTGTTGCGGAGGCTTTATCCCCTGGCTATCCAGATATGCGAGTACCTGCGCCTTCCTGAAGTCCAGGGTGTCAGCAGGATCCTAGCCCACTGGGCCTGCTACAAGGTGCAGCAGAAAGATGTCTCAGATGAAGATGTAGCACGGGCTATTAATCAGAAGCTGGGTGACACGCCTGGTGTTTCATACTCTGACATTGCTGCGAGGGCCTATGGCTGTGGCCGCACTGAACTGGCCATTAAGCTGCTGGAGTATGAGCCACGCTCAGGGGAGCAGGTACCTCTTCTCCTAAAGATGAAGAGGAGCAAACTGGCACTGAGCAAGGCTATTGAGAGTGGAGACACTGACCTGGTGTTTACAGTGTTGCTGCACCTAAAGAATGAACTCAACCGAGGAGACTTTTTCATGACTCTCCGGAACCAACCCATGGCCCTGAGTTTGTATCGACAGTTCTGTAAGCATCAGGAGCTAGACACTCTGAAGGACCTTTACAATCAGGACGACAATCACCAGGAGTTGGGCAGCTTCCACATCAGAGCCAGCTATGCCGCTGAAGAGCGTATTGAAGGGCGAGTGGCAGCTCTGCAGACGGCAGCTGATGCCTTCTACAAAGCCAAGAATGAATTTGCAGCCAAGGCCACAGAGGATCAAATGAGGCTCCTGCGGATACAGCGACGCCTAGAGGATGAGCTAGGGGGCAGGTTCCTAGACCTATCTCTACACGACACTGTCACCACTCTTATCCTTGGAGGCCACAACAAGCGGGCAGAGCAGCTGGCACGTGACTTTCGCATCCCTGATAAGAGACTATGGTGGTTAAAGCTGGCTGCCCTGGCAGATTTGGAAGATTGGGAGGAGCTGGAGAAGTTTTCCAAAAGCAAGAAATCACCGATTGGTTACCTGGTGTAG
Peptide sequence:
MVVGNAPESIQFVLDEDSYLVPELDGVRIFSRSTHEFLHEVPVASEEIFKIASMAPGALLLEAQKEYEKESQKADEYLREIQELGQLIQAVQQCIEAAGHEHQPDMQKSLLRAASFGKCFLDRFPPDSFVHMCQDLRVLNAIRDYHIGIPLTYTQYKQLTIQVLLDRLVLRRLYPLAIQICEYLRLPEVQGVSRILAHWACYKVQQKDVSDEDVARAINQKLGDTPGVSYSDIAARAYGCGRTELAIKLLEYEPRSGEQVPLLLKMKRSKLALSKAIESGDTDLVFTVLLHLKNELNRGDFFMTLRNQPMALSLYRQFCKHQELDTLKDLYNQDDNHQELGSFHIRASYAAEERIEGRVAALQTAADAFYKAKNEFAAKATEDQMRLLRIQRRLEDELGGRFLDLSLHDTVTTLILGGHNKRAEQLARDFRIPDKRLWWLKLAALADLEDWEELEKFSKSKKSPIGYLV
IRESfinder result
IRESfinder score
0.383214687
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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