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mmu_circVps8_1693
Basic information of circular RNA
PanCircBase ID:
mmu_circVps8_1693
mm39_Chr. Position ID:
chr16|21266004|21325571|+
Gene name:
Vps8
Transcript:
ENSMUST00000096191.11
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
19
Exon/intron indexes:
6,7,8,9,10,11,12,13,14,15,16,17,18,19,20,21,22,23,24
Exon/intron offsets:
0,1094,8974,10124,12486,13867,14123,16340,19159,22862,27993,29219,30231,30590,31139,48625,52933,57143,59515
Genomic length:
59567
Exon/intron sizes in nt:
33,55,125,87,68,154,60,108,81,171,75,36,91,47,90,47,223,90,52
Flanking exon/introns:
chr16:21262932-21266004|chr16:21325571-21330268
Splice length:
1693
Other database IDs:
circAtlas: mmu-Vps8_0053
Human Ortholog IDs:
Mature spliced Sequence:
GACAAAGTAGATGCTGGCTTGCCTACAGCAATTGCCGTGTCCAGTCTGATAGCGGTGGGAACGTCTCACGGACTGGCTTTAATATTTGATCAGAATCAAGCACTGCGGCTCTGCCTGGGTAGCACCAGTGTTGGAGGGCAGTATGGAGCCATCTCTGCCCTCAGCATCAACAATGACTGCTCAAGACTTCTTTGTGGCTTTGCTAAAGGGCAGATCACCATGTGGGATTTGGCCAGTGGAAAACTTCTCAGATCAATAACAGATGCTCATCCTCCAGGGACCGCAATCTTGCACATCAAGTTCACAGATGATCCAACTCTTGCGATTTGCAACGACAGTGGAGGCTCTGTTTTTGAACTAACATTTAAGAGAGTGATGGGCGTGCGAACGTGTGAGTCTCGGTGCCTATTCAGCGGCTCCAAGGGTGAGGTCTGCTGCATCGAGCCGCTGCACTCAAAGCCCGAGCTGAAAGACCATCCCATCACGCAGTTCTCACTGCTGGCCATGGCGTCCTTAACAAAGATATTGGTCATTGGGTTGAAACCATCCCTGAAAGTGTGGATGACTTTCCCCTATGGACGGATGGATCCTTCCAGTGTTCCGCTGCTGGCCTGGCACTTCGTGGCAGTGAATAACTCTGTGAATCCCATGCTCGCCTTCTGCAGAGGCGACATGGTTCACTTTCTCCTGGTTAAGAGAGATGAGTCGGGCGCAATACACGTCACCAAGCAAAAGCACCTTCACCTGTACTATGACCTGATCAACTTCACTTGGATCAACTCGCGCACAGTCGTGCTTTTAGACAGCGTGGAGAAGCTGCACGTGATTGATCGGCAGACGCAGGAGGAACTGGAGACAATGGAGATCTCGGAAGTCCAGCTGGTCTACAACAGCAGCCACTTCAAGTCATTGGCCACGGGAGGAAATGTTAGCCAGGCCCTGGCTTTGGTTGGAGAGAAGGCTTGCTACCAATCCATCAGTAGCTATGGAGGACAGATCTTCTATCTGGGGACCAAGTCTGTGTACGTGATGATGCTGAGAAGCTGGAGGGAGAGGATGGACCATCTCCTGAAACAGGATTGCCTTACGGAAGCCTTGGCCCTCGCGTGGTCTTTTCATGAAGGAAAGGCAAAAGCAGTAGTGGGGCTATCGGGGGATGTCAGCAAGAGGAAGGCTGTTGTTGCTGATCGGATGGTAGAGATCCTGTTCCATTATGCAGATCGGGCTCTGAAAAAGTGCCCGGACCAGGGGAAAATCCAAGTGATGGAGCAACACTTTCAGGATACGGTGCCAGTCATAGTGGACTACTGCCTTCTGCTCCAGCGAAAGGATCTTCTATTTGGTCAAATGTACGACAAATTAAGTGAAAATTCCGTCGCAAAAGGCGTGTTTTTGGAGTGCCTTGAGCCATATATCTTAAGTGATAAACTGGTGGGGATTACTCCCCAGGTCATGAAGGACTTAATTGTTCATTTCCAAGATAAAAAACTGCTGGAGAATGTGGAAGCCCTCATTGTCCACATGGACATCACCAGCCTCGACATTCAGCAGGTGGTCCTCATGTGTTGGGAGAATCGTCTGTATGACGCCATGGTCTATGTCTACAACCGAGGCATGAATGAGTTTATCAGTCCGATGGAGAAGCTTTTCAAAGTCATCGCCCCACCTCTGAATGCAGGGAAGACTCTTACAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACAACCGAGGCATGAATGAGT
60
CCACCGCTATCAGACTGGAC
59.9
148
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACAACCGAGGCATGAATGAGT
60
CGCTATCAGACTGGACACGG
60.25
144
PCR template sequence:
GTCTATGTCTACAACCGAGGCATGAATGAGTTTATCAGTCCGATGGAGAAGCTTTTCAAAGTCATCGCCCCACCTCTGAATGCAGGGAAGACTCTTACAGGACAAAGTAGATGCTGGCTTGCCTACAGCAATTGCCGTGTCCAGTCTGATAGCGGTGGGAACGTCTCACGGACTGGCTTTAATATTTGATCAGAATCAAG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
17
Interacting miRNAs (#binding sites)
mmu-miR-124-3p(1), mmu-miR-150-5p(1), mmu-miR-205-5p(1), mmu-miR-146a-5p(1), mmu-miR-138-5p(1), mmu-miR-503-5p(1), mmu-miR-136-5p(1), mmu-miR-199b-3p(1), mmu-miR-199a-3p(1), mmu-miR-370-3p(1), mmu-miR-324-3p(1), mmu-miR-29b-2-5p(1), mmu-miR-342-3p(1), mmu-miR-207(1), mmu-miR-188-3p(1), mmu-miR-193b-3p(1), mmu-miR-338-3p(1)
siRNAs for circular RNA silencing
Junction sequence
AAGACTCTTACAGGACAAAGTAGATG
siRNA sets
TCTACTTTGTCCTGTAAGA, CTACTTTGTCCTGTAAGAG, TTTGTCCTGTAAGAGTCTT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCVPS8_1693_ORF_1
1.2935
0.265658595
0.999973304
1713
ORF sequence:
ATGCAGGGAAGACTCTTACAGGACAAAGTAGATGCTGGCTTGCCTACAGCAATTGCCGTGTCCAGTCTGATAGCGGTGGGAACGTCTCACGGACTGGCTTTAATATTTGATCAGAATCAAGCACTGCGGCTCTGCCTGGGTAGCACCAGTGTTGGAGGGCAGTATGGAGCCATCTCTGCCCTCAGCATCAACAATGACTGCTCAAGACTTCTTTGTGGCTTTGCTAAAGGGCAGATCACCATGTGGGATTTGGCCAGTGGAAAACTTCTCAGATCAATAACAGATGCTCATCCTCCAGGGACCGCAATCTTGCACATCAAGTTCACAGATGATCCAACTCTTGCGATTTGCAACGACAGTGGAGGCTCTGTTTTTGAACTAACATTTAAGAGAGTGATGGGCGTGCGAACGTGTGAGTCTCGGTGCCTATTCAGCGGCTCCAAGGGTGAGGTCTGCTGCATCGAGCCGCTGCACTCAAAGCCCGAGCTGAAAGACCATCCCATCACGCAGTTCTCACTGCTGGCCATGGCGTCCTTAACAAAGATATTGGTCATTGGGTTGAAACCATCCCTGAAAGTGTGGATGACTTTCCCCTATGGACGGATGGATCCTTCCAGTGTTCCGCTGCTGGCCTGGCACTTCGTGGCAGTGAATAACTCTGTGAATCCCATGCTCGCCTTCTGCAGAGGCGACATGGTTCACTTTCTCCTGGTTAAGAGAGATGAGTCGGGCGCAATACACGTCACCAAGCAAAAGCACCTTCACCTGTACTATGACCTGATCAACTTCACTTGGATCAACTCGCGCACAGTCGTGCTTTTAGACAGCGTGGAGAAGCTGCACGTGATTGATCGGCAGACGCAGGAGGAACTGGAGACAATGGAGATCTCGGAAGTCCAGCTGGTCTACAACAGCAGCCACTTCAAGTCATTGGCCACGGGAGGAAATGTTAGCCAGGCCCTGGCTTTGGTTGGAGAGAAGGCTTGCTACCAATCCATCAGTAGCTATGGAGGACAGATCTTCTATCTGGGGACCAAGTCTGTGTACGTGATGATGCTGAGAAGCTGGAGGGAGAGGATGGACCATCTCCTGAAACAGGATTGCCTTACGGAAGCCTTGGCCCTCGCGTGGTCTTTTCATGAAGGAAAGGCAAAAGCAGTAGTGGGGCTATCGGGGGATGTCAGCAAGAGGAAGGCTGTTGTTGCTGATCGGATGGTAGAGATCCTGTTCCATTATGCAGATCGGGCTCTGAAAAAGTGCCCGGACCAGGGGAAAATCCAAGTGATGGAGCAACACTTTCAGGATACGGTGCCAGTCATAGTGGACTACTGCCTTCTGCTCCAGCGAAAGGATCTTCTATTTGGTCAAATGTACGACAAATTAAGTGAAAATTCCGTCGCAAAAGGCGTGTTTTTGGAGTGCCTTGAGCCATATATCTTAAGTGATAAACTGGTGGGGATTACTCCCCAGGTCATGAAGGACTTAATTGTTCATTTCCAAGATAAAAAACTGCTGGAGAATGTGGAAGCCCTCATTGTCCACATGGACATCACCAGCCTCGACATTCAGCAGGTGGTCCTCATGTGTTGGGAGAATCGTCTGTATGACGCCATGGTCTATGTCTACAACCGAGGCATGAATGAGTTTATCAGTCCGATGGAGAAGCTTTTCAAAGTCATCGCCCCACCTCTGAATGCAGGGAAGACTCTTACA
Peptide sequence:
MQGRLLQDKVDAGLPTAIAVSSLIAVGTSHGLALIFDQNQALRLCLGSTSVGGQYGAISALSINNDCSRLLCGFAKGQITMWDLASGKLLRSITDAHPPGTAILHIKFTDDPTLAICNDSGGSVFELTFKRVMGVRTCESRCLFSGSKGEVCCIEPLHSKPELKDHPITQFSLLAMASLTKILVIGLKPSLKVWMTFPYGRMDPSSVPLLAWHFVAVNNSVNPMLAFCRGDMVHFLLVKRDESGAIHVTKQKHLHLYYDLINFTWINSRTVVLLDSVEKLHVIDRQTQEELETMEISEVQLVYNSSHFKSLATGGNVSQALALVGEKACYQSISSYGGQIFYLGTKSVYVMMLRSWRERMDHLLKQDCLTEALALAWSFHEGKAKAVVGLSGDVSKRKAVVADRMVEILFHYADRALKKCPDQGKIQVMEQHFQDTVPVIVDYCLLLQRKDLLFGQMYDKLSENSVAKGVFLECLEPYILSDKLVGITPQVMKDLIVHFQDKKLLENVEALIVHMDITSLDIQQVVLMCWENRLYDAMVYVYNRGMNEFISPMEKLFKVIAPPLNAGKTLT
IRESfinder result
IRESfinder score
0.506216668
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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