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mmu_circVps8_4193
Basic information of circular RNA
PanCircBase ID:
mmu_circVps8_4193
mm39_Chr. Position ID:
chr16|21253436|21426971|+
Gene name:
Vps8
Transcript:
ENSMUST00000096192.12
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
43
Exon/intron indexes:
2,3,4,5,6,7,8,9,10,11,12,13,14,15,16,17,18,19,20,21,22,23,24,25,26,27,28,29,30,31,32,33,34,35,36,37,38,39,40,41,42,43,44
Exon/intron offsets:
0,1066,7647,9402,12568,13662,21536,22692,25054,26435,26691,28908,31727,35430,40561,41787,42799,43158,43707,61193,65501,69711,72083,76832,82596,83426,87197,91690,92849,96593,97596,98376,108581,119388,124647,125511,128443,133282,133702,140280,141938,146846,173481
Genomic length:
173535
Exon/intron sizes in nt:
377,69,131,94,33,55,131,87,68,154,60,108,81,171,75,36,91,47,90,47,223,90,52,43,73,120,72,120,57,83,85,99,47,148,90,43,104,85,83,81,170,166,54
Flanking exon/introns:
chr16:21241975-21253436|chr16:21426971-21459428
Splice length:
4193
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GAACCCTTCAGCCACATCCTACTCTCCACCCCTTTCTTTTTGCCTGCAAACAGATGACCAAGTGGAATCTCATCAAGGGTGTCTCTGAAATGTCCAGCTGAGAAGATGTCTAGGTAACACCTGCCTCCCTACCAAAGAGATCATCGTTTGGATCTCTGCAATCCAAGGCCAAAAGCAAGAAACAGTTGCAAGGGGTTGGTTGAATTCAGCCATCGAAAGCAAATATGGAAACTGAACCAGACCAGGAGCATTTGGACCAGAACCCGTGCGCCAGGACTGTGGAAGAAGAGTTGAGCAAGTCTTTTAATTTAGAAGCTTCCCTTTCAAAATTCTCTTGCCTAGATCTGGATAAGGAGCTGGAGTTCAGAAGTGACCTGATCGATGACAAGGAGTTTGATATTCCTCAGGTGGATACCCCTCCAACTCTGGAAAGCATTCTTAATGAGACGGACGATGAAGATGAGTCTTTCGTTCTGGAGGACCCTACCTTGTTAAACGTTGACACCATCGACTCTCACTCTTACGATACCTCATCTGTGGCGAGCTCAGACAGCGGCGACAGGGCCAACCTAAAGAGGAAGAAGAAGTTGCCGGACTCTTTCTCGCTGCATGGGTCGGTTATGCGACATTCACTTCTAAAGGGGATATCTGCACAGATCGTGTCCGCAGCCGACAAAGTAGATGCTGGCTTGCCTACAGCAATTGCCGTGTCCAGTCTGATAGCGGTGGGAACGTCTCACGGACTGGCTTTAATATTTGCTTCAGATCAGAATCAAGCACTGCGGCTCTGCCTGGGTAGCACCAGTGTTGGAGGGCAGTATGGAGCCATCTCTGCCCTCAGCATCAACAATGACTGCTCAAGACTTCTTTGTGGCTTTGCTAAAGGGCAGATCACCATGTGGGATTTGGCCAGTGGAAAACTTCTCAGATCAATAACAGATGCTCATCCTCCAGGGACCGCAATCTTGCACATCAAGTTCACAGATGATCCAACTCTTGCGATTTGCAACGACAGTGGAGGCTCTGTTTTTGAACTAACATTTAAGAGAGTGATGGGCGTGCGAACGTGTGAGTCTCGGTGCCTATTCAGCGGCTCCAAGGGTGAGGTCTGCTGCATCGAGCCGCTGCACTCAAAGCCCGAGCTGAAAGACCATCCCATCACGCAGTTCTCACTGCTGGCCATGGCGTCCTTAACAAAGATATTGGTCATTGGGTTGAAACCATCCCTGAAAGTGTGGATGACTTTCCCCTATGGACGGATGGATCCTTCCAGTGTTCCGCTGCTGGCCTGGCACTTCGTGGCAGTGAATAACTCTGTGAATCCCATGCTCGCCTTCTGCAGAGGCGACATGGTTCACTTTCTCCTGGTTAAGAGAGATGAGTCGGGCGCAATACACGTCACCAAGCAAAAGCACCTTCACCTGTACTATGACCTGATCAACTTCACTTGGATCAACTCGCGCACAGTCGTGCTTTTAGACAGCGTGGAGAAGCTGCACGTGATTGATCGGCAGACGCAGGAGGAACTGGAGACAATGGAGATCTCGGAAGTCCAGCTGGTCTACAACAGCAGCCACTTCAAGTCATTGGCCACGGGAGGAAATGTTAGCCAGGCCCTGGCTTTGGTTGGAGAGAAGGCTTGCTACCAATCCATCAGTAGCTATGGAGGACAGATCTTCTATCTGGGGACCAAGTCTGTGTACGTGATGATGCTGAGAAGCTGGAGGGAGAGGATGGACCATCTCCTGAAACAGGATTGCCTTACGGAAGCCTTGGCCCTCGCGTGGTCTTTTCATGAAGGAAAGGCAAAAGCAGTAGTGGGGCTATCGGGGGATGTCAGCAAGAGGAAGGCTGTTGTTGCTGATCGGATGGTAGAGATCCTGTTCCATTATGCAGATCGGGCTCTGAAAAAGTGCCCGGACCAGGGGAAAATCCAAGTGATGGAGCAACACTTTCAGGATACGGTGCCAGTCATAGTGGACTACTGCCTTCTGCTCCAGCGAAAGGATCTTCTATTTGGTCAAATGTACGACAAATTAAGTGAAAATTCCGTCGCAAAAGGCGTGTTTTTGGAGTGCCTTGAGCCATATATCTTAAGTGATAAACTGGTGGGGATTACTCCCCAGGTCATGAAGGACTTAATTGTTCATTTCCAAGATAAAAAACTGCTGGAGAATGTGGAAGCCCTCATTGTCCACATGGACATCACCAGCCTCGACATTCAGCAGGTGGTCCTCATGTGTTGGGAGAATCGTCTGTATGACGCCATGGTCTATGTCTACAACCGAGGCATGAATGAGTTTATCAGTCCGATGGAGAAGCTTTTCAAAGTCATCGCCCCACCTCTGAATGCAGGGAAGACTCTTACAGATGAGCAAGTTGTTATGGGCAACAAGCTTCTGGTGTACATCAGCTGTTGCCTGGCAGGTCGTGCCTACCCTCTCGGTGACATTCCTGAAGATCTTGTTCCCTTGGTTAAAAACCAGGTTTTTGAGTTTCTGATTCGCCTGCATTCTGTAGAAGCATCCTCCGAGGAAGAAGTCTATCCTTATGTTCGGACTTTGCTACATTTTGACACAAGAGAATTTCTGAATGTGCTGGCACTGACCTTTGAAGACTTTAAAAATGATAAGCAAGCTGTGGAATACCAGCAGCGCATTGTGGATATTTTATTGAAGGTTATGGTGGAGAATTCAGATTTTACCCCGTCACAAGTGGGGTGTCTCTTTACGTTCCTCGCTCGTCAGCTCGCAAAGCCTGACAATACCTTGTTTGTGAACAGGACCCTCTTTGATCAAGTCCTCGAGTTCCTCTGTAGCCCCGACGATGACTCCCGCCACTCTGAAAGACAGCAGGTCCTTTTAGAATTGCTGCAGGCCGGAGGCATAGTTCAATTTGAAGAGAGTCGGCTCATCCGCATGGCAGAAAAGGCAGAATTCTATCAAATCTGTGAATTTATGTATGAGCGGGAACACCAGTATGACAAGATCATTGACTGCTACCTGCACGACCCATTGAGAGAGGAAGAAGTCTTCAATTATATCCACAACATCTTATCTATTCCTGGTCACAGTGCTGAGGAGAAGCAGTCTGTGTGGCAGAAAGCAATGAATCATATGGAGAACCAGCTTTTGCTTTTCAAATTTTTGAGGAGTCTTCTTGATCCAAGGGAAGGTGTTCATGTCAATCAGGAGTTGCTGCAGATCCCGCCTCACATTACAGAGCAGTTCATTGAGCTGCTGTGCCAGTTCAGTCCTGACCAAGTCATACAGACACTGCAGGTCCTTGAGTGCTACCGTCTGGAGGAAACGATTCAGATTACACAAAAGTATCAACTCCATGAAGTCACTGCGTATCTGCTGGAGAAGAAAGGGGATGCACACGGCGCCTTCCTGCTGCTGCTGGAGAGACTGCAGAGCAGGCTGCAAGAGATGACACGGCAGGACGAAAATACCAAGGAGGACATCCTGCTGAAAGGTGTTGAAGATACCATGGTAGAGACAATTGCTCTTTGCCAGAGAAATTCACAGAATTTGAATCAGCAGCAACGAGAGGCTCTATGGTTTCCACTGTTGGAGGCAATGATGACACCACAGAAGCTGTCCAGCTCGGCTGCTGCTCCTCATCCGCACTGTGAAGCTCTGAAGTCTTTGACCATGCAAGTCCTAAACAGCATGGCAGCGTTCATCGCCCTCCCGTCCATCCTACAGAGAATCTTGCAGGACCCAATTTATGGAAAAGGAAAGCTTGGAGAAATCCAGGGCCTTATTCTGGGGATGCTGGACACCTTCAACTATGAGCAAACCTTGCTAGAAACAACAGCCAGCCTCCTGAACCAAGATCTCCATTGGTCACTGTGTAACCTGAGAGCATCAGTATCCAGAGGACTCAATCCCAAGCAGGATTACTGTTCTATATGTTTACAGCAGTACAAAAGACGCCAAGAAATGGCTGATGAAATTATTGTCTTTAGCTGTGGCCATTTGTATCATTCATTCTGTCTCCAAAGTAAGGAATGCACCCTAGAGGTTGAGGGTCAGACGAGATGGGCGTGTCACAAATGCAGCTCAAGTAATAAAGCGGGCAAACTCAGTGAAAATCCTTCTGAAAACAAGAAAGGACGGATAACCTCGTCTCAGGTAAAAATGTCGCCCTCGTATCATCAGTCCAAAGGGGATCCTCCCGCCAGGAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CGCCCTCGTATCATCAGTCC
60.04
GCTGGACATTTCAGAGACACC
58.92
142
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CGCCCTCGTATCATCAGTCC
60.04
AGCTGGACATTTCAGAGACACC
60.29
143
PCR template sequence:
TGAAAATCCTTCTGAAAACAAGAAAGGACGGATAACCTCGTCTCAGGTAAAAATGTCGCCCTCGTATCATCAGTCCAAAGGGGATCCTCCCGCCAGGAAGGAACCCTTCAGCCACATCCTACTCTCCACCCCTTTCTTTTTGCCTGCAAACAGATGACCAAGTGGAATCTCATCAAGGGTGTCTCTGAAATGTCCAGCTG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
30
Interacting miRNAs (#binding sites)
mmu-miR-207(3), mmu-miR-324-5p(2), mmu-miR-124-3p(1), mmu-miR-1a-3p(1), mmu-miR-206-3p(1), mmu-miR-150-5p(1), mmu-miR-205-5p(1), mmu-miR-322-5p(1), mmu-miR-146a-5p(1), mmu-miR-328-3p(1), mmu-miR-138-5p(1), mmu-miR-339-5p(1), mmu-miR-128-3p(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-758-3p(1), mmu-miR-324-3p(1), mmu-miR-666-5p(1), mmu-miR-466d-3p(1), mmu-miR-29b-2-5p(1), mmu-miR-342-3p(1), mmu-miR-669d-5p(1), mmu-miR-452-3p(1), mmu-miR-188-3p(1), mmu-miR-193b-3p(1), mmu-miR-344-3p(1), mmu-miR-338-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TCCCGCCAGGAAGGAACCCTTCAGCC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCVPS8_4193_ORF_1
1.2295
0.245054407
1
4026
ORF sequence:
ATGGAAACTGAACCAGACCAGGAGCATTTGGACCAGAACCCGTGCGCCAGGACTGTGGAAGAAGAGTTGAGCAAGTCTTTTAATTTAGAAGCTTCCCTTTCAAAATTCTCTTGCCTAGATCTGGATAAGGAGCTGGAGTTCAGAAGTGACCTGATCGATGACAAGGAGTTTGATATTCCTCAGGTGGATACCCCTCCAACTCTGGAAAGCATTCTTAATGAGACGGACGATGAAGATGAGTCTTTCGTTCTGGAGGACCCTACCTTGTTAAACGTTGACACCATCGACTCTCACTCTTACGATACCTCATCTGTGGCGAGCTCAGACAGCGGCGACAGGGCCAACCTAAAGAGGAAGAAGAAGTTGCCGGACTCTTTCTCGCTGCATGGGTCGGTTATGCGACATTCACTTCTAAAGGGGATATCTGCACAGATCGTGTCCGCAGCCGACAAAGTAGATGCTGGCTTGCCTACAGCAATTGCCGTGTCCAGTCTGATAGCGGTGGGAACGTCTCACGGACTGGCTTTAATATTTGCTTCAGATCAGAATCAAGCACTGCGGCTCTGCCTGGGTAGCACCAGTGTTGGAGGGCAGTATGGAGCCATCTCTGCCCTCAGCATCAACAATGACTGCTCAAGACTTCTTTGTGGCTTTGCTAAAGGGCAGATCACCATGTGGGATTTGGCCAGTGGAAAACTTCTCAGATCAATAACAGATGCTCATCCTCCAGGGACCGCAATCTTGCACATCAAGTTCACAGATGATCCAACTCTTGCGATTTGCAACGACAGTGGAGGCTCTGTTTTTGAACTAACATTTAAGAGAGTGATGGGCGTGCGAACGTGTGAGTCTCGGTGCCTATTCAGCGGCTCCAAGGGTGAGGTCTGCTGCATCGAGCCGCTGCACTCAAAGCCCGAGCTGAAAGACCATCCCATCACGCAGTTCTCACTGCTGGCCATGGCGTCCTTAACAAAGATATTGGTCATTGGGTTGAAACCATCCCTGAAAGTGTGGATGACTTTCCCCTATGGACGGATGGATCCTTCCAGTGTTCCGCTGCTGGCCTGGCACTTCGTGGCAGTGAATAACTCTGTGAATCCCATGCTCGCCTTCTGCAGAGGCGACATGGTTCACTTTCTCCTGGTTAAGAGAGATGAGTCGGGCGCAATACACGTCACCAAGCAAAAGCACCTTCACCTGTACTATGACCTGATCAACTTCACTTGGATCAACTCGCGCACAGTCGTGCTTTTAGACAGCGTGGAGAAGCTGCACGTGATTGATCGGCAGACGCAGGAGGAACTGGAGACAATGGAGATCTCGGAAGTCCAGCTGGTCTACAACAGCAGCCACTTCAAGTCATTGGCCACGGGAGGAAATGTTAGCCAGGCCCTGGCTTTGGTTGGAGAGAAGGCTTGCTACCAATCCATCAGTAGCTATGGAGGACAGATCTTCTATCTGGGGACCAAGTCTGTGTACGTGATGATGCTGAGAAGCTGGAGGGAGAGGATGGACCATCTCCTGAAACAGGATTGCCTTACGGAAGCCTTGGCCCTCGCGTGGTCTTTTCATGAAGGAAAGGCAAAAGCAGTAGTGGGGCTATCGGGGGATGTCAGCAAGAGGAAGGCTGTTGTTGCTGATCGGATGGTAGAGATCCTGTTCCATTATGCAGATCGGGCTCTGAAAAAGTGCCCGGACCAGGGGAAAATCCAAGTGATGGAGCAACACTTTCAGGATACGGTGCCAGTCATAGTGGACTACTGCCTTCTGCTCCAGCGAAAGGATCTTCTATTTGGTCAAATGTACGACAAATTAAGTGAAAATTCCGTCGCAAAAGGCGTGTTTTTGGAGTGCCTTGAGCCATATATCTTAAGTGATAAACTGGTGGGGATTACTCCCCAGGTCATGAAGGACTTAATTGTTCATTTCCAAGATAAAAAACTGCTGGAGAATGTGGAAGCCCTCATTGTCCACATGGACATCACCAGCCTCGACATTCAGCAGGTGGTCCTCATGTGTTGGGAGAATCGTCTGTATGACGCCATGGTCTATGTCTACAACCGAGGCATGAATGAGTTTATCAGTCCGATGGAGAAGCTTTTCAAAGTCATCGCCCCACCTCTGAATGCAGGGAAGACTCTTACAGATGAGCAAGTTGTTATGGGCAACAAGCTTCTGGTGTACATCAGCTGTTGCCTGGCAGGTCGTGCCTACCCTCTCGGTGACATTCCTGAAGATCTTGTTCCCTTGGTTAAAAACCAGGTTTTTGAGTTTCTGATTCGCCTGCATTCTGTAGAAGCATCCTCCGAGGAAGAAGTCTATCCTTATGTTCGGACTTTGCTACATTTTGACACAAGAGAATTTCTGAATGTGCTGGCACTGACCTTTGAAGACTTTAAAAATGATAAGCAAGCTGTGGAATACCAGCAGCGCATTGTGGATATTTTATTGAAGGTTATGGTGGAGAATTCAGATTTTACCCCGTCACAAGTGGGGTGTCTCTTTACGTTCCTCGCTCGTCAGCTCGCAAAGCCTGACAATACCTTGTTTGTGAACAGGACCCTCTTTGATCAAGTCCTCGAGTTCCTCTGTAGCCCCGACGATGACTCCCGCCACTCTGAAAGACAGCAGGTCCTTTTAGAATTGCTGCAGGCCGGAGGCATAGTTCAATTTGAAGAGAGTCGGCTCATCCGCATGGCAGAAAAGGCAGAATTCTATCAAATCTGTGAATTTATGTATGAGCGGGAACACCAGTATGACAAGATCATTGACTGCTACCTGCACGACCCATTGAGAGAGGAAGAAGTCTTCAATTATATCCACAACATCTTATCTATTCCTGGTCACAGTGCTGAGGAGAAGCAGTCTGTGTGGCAGAAAGCAATGAATCATATGGAGAACCAGCTTTTGCTTTTCAAATTTTTGAGGAGTCTTCTTGATCCAAGGGAAGGTGTTCATGTCAATCAGGAGTTGCTGCAGATCCCGCCTCACATTACAGAGCAGTTCATTGAGCTGCTGTGCCAGTTCAGTCCTGACCAAGTCATACAGACACTGCAGGTCCTTGAGTGCTACCGTCTGGAGGAAACGATTCAGATTACACAAAAGTATCAACTCCATGAAGTCACTGCGTATCTGCTGGAGAAGAAAGGGGATGCACACGGCGCCTTCCTGCTGCTGCTGGAGAGACTGCAGAGCAGGCTGCAAGAGATGACACGGCAGGACGAAAATACCAAGGAGGACATCCTGCTGAAAGGTGTTGAAGATACCATGGTAGAGACAATTGCTCTTTGCCAGAGAAATTCACAGAATTTGAATCAGCAGCAACGAGAGGCTCTATGGTTTCCACTGTTGGAGGCAATGATGACACCACAGAAGCTGTCCAGCTCGGCTGCTGCTCCTCATCCGCACTGTGAAGCTCTGAAGTCTTTGACCATGCAAGTCCTAAACAGCATGGCAGCGTTCATCGCCCTCCCGTCCATCCTACAGAGAATCTTGCAGGACCCAATTTATGGAAAAGGAAAGCTTGGAGAAATCCAGGGCCTTATTCTGGGGATGCTGGACACCTTCAACTATGAGCAAACCTTGCTAGAAACAACAGCCAGCCTCCTGAACCAAGATCTCCATTGGTCACTGTGTAACCTGAGAGCATCAGTATCCAGAGGACTCAATCCCAAGCAGGATTACTGTTCTATATGTTTACAGCAGTACAAAAGACGCCAAGAAATGGCTGATGAAATTATTGTCTTTAGCTGTGGCCATTTGTATCATTCATTCTGTCTCCAAAGTAAGGAATGCACCCTAGAGGTTGAGGGTCAGACGAGATGGGCGTGTCACAAATGCAGCTCAAGTAATAAAGCGGGCAAACTCAGTGAAAATCCTTCTGAAAACAAGAAAGGACGGATAACCTCGTCTCAGGTAAAAATGTCGCCCTCGTATCATCAGTCCAAAGGGGATCCTCCCGCCAGGAAGGAACCCTTCAGCCACATCCTACTCTCCACCCCTTTCTTTTTGCCTGCAAACAGATGA
Peptide sequence:
METEPDQEHLDQNPCARTVEEELSKSFNLEASLSKFSCLDLDKELEFRSDLIDDKEFDIPQVDTPPTLESILNETDDEDESFVLEDPTLLNVDTIDSHSYDTSSVASSDSGDRANLKRKKKLPDSFSLHGSVMRHSLLKGISAQIVSAADKVDAGLPTAIAVSSLIAVGTSHGLALIFASDQNQALRLCLGSTSVGGQYGAISALSINNDCSRLLCGFAKGQITMWDLASGKLLRSITDAHPPGTAILHIKFTDDPTLAICNDSGGSVFELTFKRVMGVRTCESRCLFSGSKGEVCCIEPLHSKPELKDHPITQFSLLAMASLTKILVIGLKPSLKVWMTFPYGRMDPSSVPLLAWHFVAVNNSVNPMLAFCRGDMVHFLLVKRDESGAIHVTKQKHLHLYYDLINFTWINSRTVVLLDSVEKLHVIDRQTQEELETMEISEVQLVYNSSHFKSLATGGNVSQALALVGEKACYQSISSYGGQIFYLGTKSVYVMMLRSWRERMDHLLKQDCLTEALALAWSFHEGKAKAVVGLSGDVSKRKAVVADRMVEILFHYADRALKKCPDQGKIQVMEQHFQDTVPVIVDYCLLLQRKDLLFGQMYDKLSENSVAKGVFLECLEPYILSDKLVGITPQVMKDLIVHFQDKKLLENVEALIVHMDITSLDIQQVVLMCWENRLYDAMVYVYNRGMNEFISPMEKLFKVIAPPLNAGKTLTDEQVVMGNKLLVYISCCLAGRAYPLGDIPEDLVPLVKNQVFEFLIRLHSVEASSEEEVYPYVRTLLHFDTREFLNVLALTFEDFKNDKQAVEYQQRIVDILLKVMVENSDFTPSQVGCLFTFLARQLAKPDNTLFVNRTLFDQVLEFLCSPDDDSRHSERQQVLLELLQAGGIVQFEESRLIRMAEKAEFYQICEFMYEREHQYDKIIDCYLHDPLREEEVFNYIHNILSIPGHSAEEKQSVWQKAMNHMENQLLLFKFLRSLLDPREGVHVNQELLQIPPHITEQFIELLCQFSPDQVIQTLQVLECYRLEETIQITQKYQLHEVTAYLLEKKGDAHGAFLLLLERLQSRLQEMTRQDENTKEDILLKGVEDTMVETIALCQRNSQNLNQQQREALWFPLLEAMMTPQKLSSSAAAPHPHCEALKSLTMQVLNSMAAFIALPSILQRILQDPIYGKGKLGEIQGLILGMLDTFNYEQTLLETTASLLNQDLHWSLCNLRASVSRGLNPKQDYCSICLQQYKRRQEMADEIIVFSCGHLYHSFCLQSKECTLEVEGQTRWACHKCSSSNKAGKLSENPSENKKGRITSSQVKMSPSYHQSKGDPPARKEPFSHILLSTPFFLPANR
IRESfinder result
IRESfinder score
0.562239787
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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