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mmu_circMib1_1298
Basic information of circular RNA
PanCircBase ID:
mmu_circMib1_1298
mm39_Chr. Position ID:
chr18|10747355|10778300|+
Gene name:
Mib1
Transcript:
ENSMUST00000052838.11
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
9
Exon/intron indexes:
4,5,6,7,8,9,10,11,12
Exon/intron offsets:
0,1967,4467,8148,13448,15833,20768,28173,30793
Genomic length:
30945
Exon/intron sizes in nt:
1,05,67,20,51,84,14,51,00,00,00,00,000
Flanking exon/introns:
chr18:10743398-10747355|chr18:10778300-10792894
Splice length:
1298
Other database IDs:
circBase: hsa_circ_0047108
Human Ortholog IDs:
Mature spliced Sequence:
GTCACGGAGATCCAGGACTGGAGTGCATCCAGCCCACACAGTGCAGCCTATGTTCTCTGGGATAACGGTGCTAAGAACCTTTACAGGGTTGGCTTTGAGGGCATGTCTGATCTCAAGTGTGTCCAGGATGCCAAAGGAGGTTCTTTCTACAGAGATCATTGCCCTGTGCTAGGTGAGCAGAATGGCAACAGGAATCCTGGTGGATTGCAGATTGGTGACCTGGTAAATATAGACCTTGATCTAGAAATTGTCCAGTCTTTACAGCACGGTCATGGAGGATGGACCGATGGCATGTTTGAGACTTTAACTACAACTGGAACCGTCTGTGGCATTGATGAAGATCATGACATTGTAGTACAGTATCCAAGTGGCAATAGATGGACTTTCAATCCTGCTGTTCTCACTAAGGCAAACATTGTCCGAAGTGGGGATGCTGCACAGGGTGCAGAAGGAGGCACCTCACAGTTTCAAGTGGGTGATCTTGTGCAAGTTTGTTATGATCTGGAAAGAATTAAACTTCTCCAAAGAGGACATGGTGAATGGGCTGAAGCAATGCTTCCAACTTTAGGTAAAGTTGGCCGAGTACAACAGATTTATTCGGACAGTGACTTAAAGGTGGAAGTCTGTGGAACATCTTGGACGTATAACCCTGCAGCAGTTTCCAAGGTGGCCCCTGCAGGATCAGCCATTAGCAATGCATCTGGTGAAAGACTCTCCCAGCTTCTGAAGAAATTATTTGAAACCCAAGAATCTGGTGACCTCAATGAAGAGCTGGTTAAGGCTGCTGCCAATGGAGACGTGGCTAAAGTGGAAGATTTGCTGAAAAGACCAGATGTGGATGTAAACGGACAGTGTGCTGGCCACACAGCAATGCAAGCTGCTAGTCAGAACGGACATGTTGATATTTTGAAATTACTTTTGAAGCAAAATGTTGATGTTGAAGCAGAGGATAAAGATGGAGATCGAGCCGTTCACCATGCAGCCTTTGGAGATGAGGGTGCTGTCATAGAAGTCCTACACCGAGGCAGTGCTGACCTGAATGCTCGTAATAAGCGTAGACAGACGCCTCTTCATATTGCTGTCAATAAAGGTCATCTTCAAGTTGTGAAGACTTTGTTGGATTTTGGTTGTCATCCCAGTCTCCAGGATTCTGAAGGTGACACCCCTCTCCATGATGCCATAAGTAAGAAACGGGATGACATTCTGGCAGTTCTTCTGGAAGCTGGAGCAGATGTGACCATCACGAACAATAACGGGTTCAATGCCCTGCACCATGCTGCACTGAGAGGGAACCCCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AAGCTGGAGCAGATGTGACC
60.04
CCCAGAGAACATAGGCTGCA
59.46
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGGAAGCTGGAGCAGATGTG
60.04
CCCAGAGAACATAGGCTGCA
59.46
143
PCR template sequence:
ACATTCTGGCAGTTCTTCTGGAAGCTGGAGCAGATGTGACCATCACGAACAATAACGGGTTCAATGCCCTGCACCATGCTGCACTGAGAGGGAACCCCAGGTCACGGAGATCCAGGACTGGAGTGCATCCAGCCCACACAGTGCAGCCTATGTTCTCTGGGATAACGGTGCTAAGAACCTTTACAGGGTTGGCTTTGAGG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
12
Interacting miRNAs (#binding sites)
mmu-miR-10b-5p(2), mmu-miR-10a-5p(2), mmu-miR-375-3p(1), mmu-miR-103-3p(1), mmu-miR-33-5p(1), mmu-miR-324-5p(1), mmu-miR-495-3p(1), mmu-miR-324-3p(1), mmu-miR-107-3p(1), mmu-miR-29b-2-5p(1), mmu-miR-335-3p(1), mmu-miR-1904(1)
siRNAs for circular RNA silencing
Junction sequence
GAGGGAACCCCAGGTCACGGAGATCC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCMIB1_1298_ORF_1
1.0332
0.131165103
0.999112155
1368
ORF sequence:
ATGTCTGATCTCAAGTGTGTCCAGGATGCCAAAGGAGGTTCTTTCTACAGAGATCATTGCCCTGTGCTAGGTGAGCAGAATGGCAACAGGAATCCTGGTGGATTGCAGATTGGTGACCTGGTAAATATAGACCTTGATCTAGAAATTGTCCAGTCTTTACAGCACGGTCATGGAGGATGGACCGATGGCATGTTTGAGACTTTAACTACAACTGGAACCGTCTGTGGCATTGATGAAGATCATGACATTGTAGTACAGTATCCAAGTGGCAATAGATGGACTTTCAATCCTGCTGTTCTCACTAAGGCAAACATTGTCCGAAGTGGGGATGCTGCACAGGGTGCAGAAGGAGGCACCTCACAGTTTCAAGTGGGTGATCTTGTGCAAGTTTGTTATGATCTGGAAAGAATTAAACTTCTCCAAAGAGGACATGGTGAATGGGCTGAAGCAATGCTTCCAACTTTAGGTAAAGTTGGCCGAGTACAACAGATTTATTCGGACAGTGACTTAAAGGTGGAAGTCTGTGGAACATCTTGGACGTATAACCCTGCAGCAGTTTCCAAGGTGGCCCCTGCAGGATCAGCCATTAGCAATGCATCTGGTGAAAGACTCTCCCAGCTTCTGAAGAAATTATTTGAAACCCAAGAATCTGGTGACCTCAATGAAGAGCTGGTTAAGGCTGCTGCCAATGGAGACGTGGCTAAAGTGGAAGATTTGCTGAAAAGACCAGATGTGGATGTAAACGGACAGTGTGCTGGCCACACAGCAATGCAAGCTGCTAGTCAGAACGGACATGTTGATATTTTGAAATTACTTTTGAAGCAAAATGTTGATGTTGAAGCAGAGGATAAAGATGGAGATCGAGCCGTTCACCATGCAGCCTTTGGAGATGAGGGTGCTGTCATAGAAGTCCTACACCGAGGCAGTGCTGACCTGAATGCTCGTAATAAGCGTAGACAGACGCCTCTTCATATTGCTGTCAATAAAGGTCATCTTCAAGTTGTGAAGACTTTGTTGGATTTTGGTTGTCATCCCAGTCTCCAGGATTCTGAAGGTGACACCCCTCTCCATGATGCCATAAGTAAGAAACGGGATGACATTCTGGCAGTTCTTCTGGAAGCTGGAGCAGATGTGACCATCACGAACAATAACGGGTTCAATGCCCTGCACCATGCTGCACTGAGAGGGAACCCCAGGTCACGGAGATCCAGGACTGGAGTGCATCCAGCCCACACAGTGCAGCCTATGTTCTCTGGGATAACGGTGCTAAGAACCTTTACAGGGTTGGCTTTGAGGGCATGTCTGATCTCAAGTGTGTCCAGGATGCCAAAGGAGGTTCTTTCTACAGAGATCATTGCCCTGTGCTAG
Peptide sequence:
MSDLKCVQDAKGGSFYRDHCPVLGEQNGNRNPGGLQIGDLVNIDLDLEIVQSLQHGHGGWTDGMFETLTTTGTVCGIDEDHDIVVQYPSGNRWTFNPAVLTKANIVRSGDAAQGAEGGTSQFQVGDLVQVCYDLERIKLLQRGHGEWAEAMLPTLGKVGRVQQIYSDSDLKVEVCGTSWTYNPAAVSKVAPAGSAISNASGERLSQLLKKLFETQESGDLNEELVKAAANGDVAKVEDLLKRPDVDVNGQCAGHTAMQAASQNGHVDILKLLLKQNVDVEAEDKDGDRAVHHAAFGDEGAVIEVLHRGSADLNARNKRRQTPLHIAVNKGHLQVVKTLLDFGCHPSLQDSEGDTPLHDAISKKRDDILAVLLEAGADVTITNNNGFNALHHAALRGNPRSRRSRTGVHPAHTVQPMFSGITVLRTFTGLALRACLISSVSRMPKEVLSTEIIALC
IRESfinder result
IRESfinder score
0.447453927
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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