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mmu_ciUsp16_3291
Basic information of circular RNA
PanCircBase ID:
mmu_ciUsp16_3291
mm39_Chr. Position ID:
chr16|87263244|87266535|+
Gene name:
Usp16
Transcript:
ENSMUST00000026710.12
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
5
Exon/intron offsets:
0
Genomic length:
3291
Exon/intron sizes in nt:
3291
Flanking exon/introns:
chr16:87263244-87266562
Splice length:
3291
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAAAAACCCAAACCAATATGTTTCTTACTAGATATAACAATGTTGGATTTGTATAGCTGCTTTTATATACTGATTCCTTTACCAGCCCCACCTCCCTATTTTTTTTTCTTTTCTTTTGAGACAGGTCTTTATATGTAGCACTGGCTATCCTGGAACTTGCTATGTAGACCAAGCTGGCCTTGAGCTCACAGAGAATCCTTCTGTCTCTGCCTCTTAGGTTCTGGGATTTAAGGCATGCAACACCATGTCCAGCCAGCCATTCATGTACTTTGTGAGATCAGATCTGTCGGTAGATCAGGTTGCCCTTGAGTTTGTGAGTCAGTTGTCTCAGCCTTCTGATTACCAGGCTTACAGGGGCCTGACCCACACCTGGTTAATAACCTTACCTCCAGTATTACACATAGCAGGTAATATTAGTTGTGACTTGTTTTATTTTTGGTGGTACAATTAAATAGGATGTGAGAAATGATCTAGCCATATGTGATAAAGGGCCTGGACTAAGGTCACTAAAGGTCAAAGGCTTCTTCTCATGACTCCAGCCTAGAGCTATAGACATTATTATAGACATTGTACATGCATGTATGTGTCTGTGTCTGTTAGAGAGAGAGGGAGAGAGAGAGAATTAGAAGGATTTTCTTTTTCTGATTTTCTTTTATATTGCAAATAGTTTTTAATACAATATATTCTGATTATCGTTTCTCCACTCCCAAGCCTCAACCCCTCTCAGAGTCTCTTCCTAGCTCCTCCCATACAAATCTATACCCTTTCTCTATCCTTAGAAAACAAACTAGAATCTAAAGAGGACTACGATAAGACAAAACCAAACTGGAATAGGACAAACAAAACAAACAAACAAAAAATCTAGCCAAAGGACAAGCACAAGAACCACATTGAGAGACAGAGATGCCCGCACACACAGAGACACACTTGCCCGCACACACAGAAACTAGAAATCATAGTGAGTACTCAAAGGACCTGCCAGTGCGGGAGGAAAGGCTCTCATAAAGCATTAGAAGACAACCTTCAGGAGGATTATTTTGTGTTGGTCATTTACTGCTGGGCATGGGGCCTGCCTTTTTGTTTTCCCAGTGAGGCTGAGTTTCTCATTTTCAAGTGGTTACCAATTGGAGATAGCTACTGGGTTAAGGATTGGGTCATGTGTCTACTTCTACTATGAGAACTGGGACCCCATCTGGTGCAGACCTATCCACTCCCTGTGCTCTGGAATCTCAGGAGATTTGGGTGCCTAAAGGTTGCCTCATAGGGAGTGCGTTGAGACCCTGTCAGGTCTGGCCACGTTGGATCCTAAGTAGAAAGTGTTTCTAGATACTGGGAGTTGACACAAAGAAATAGGGAGGGGCTAACAAGGAAGGATACTGAGAGGGTCCACAAGAGGGAGGGAAGCTGGGTGTGCTATGAAGGTCTGCATGGTCCCCTGGGAATGGGGGGAGAGACGGGAGAGATTACAGCAGATGGTTTACTAAAAGCTGGGGACAAGATGGAATTGGGATTTGAAACTGAAAGACAGCTTGGAGAGTGAAGAGCACCTACCTGGTTCCCTGACTGTCTTGTCCAGTGGATTTCCAGGGAGTGCCTCCTGCTATTGACAGGCTAAGACAAAGGGATGGGGTCGGGGAGGAAAGCTGTAGATCTGCCCAGGCCCCTGGGAATGGAGGTAGACAGGAAAGAGGCTGTAGCAGATAGATGGTCTACAAAGCTGGAGATAAGATTAGGGGATGGCAGTGGAGAACTGGAAGGTGAGTGAGGATTGCTTACCTCATTCCTGGCCTGGCCTGTGTGGGCAGCAGGTTTTGCGGAATGTCTATACAGACTTAACTATACTATAGTGTGATATATTCATAATTGAGAAAATTCAGTCTCTCTGTTAAATAAAATGAGCATACACACACGTTGATTTTTAAACAAAGGAATTTTGTTTTGGAGACTTGGTCTTTTCTAACTCTGGCTACACACAAGCCTGGAAGTCATATAACTCTGTCTGCCTATGCCTCCTGTCTTAGTCAGGGCTTCTATTCCTGCACAGACATCATGACCAAGAAGCAAGTTGGGGAGGAAAGGGTTTATTCAGCTTACATTTTCCACATTGCTGTTAATCACCAAAGGATGTCAGGACTGGAACTCAAGCAGGGCAGGAAGCAGGAGCTGATGGCTTGCTCAGCCTGCTCTCTTATAGAACCAAGACTACCAGCCCAGAGACAGCACCACCCACAAGGGGACCTTCTCCCTTGATCACTAACTGAGAAAATGCCTTACAGATGGATCTTGTGGAGGCATTTTCCCAACTGAAGCTCCTTTCTCTGTGATAACTCCAGCCTGTTTCAAGTTGACACAAAACTAGCCAGTACACCTCCCAAATGCTGGGATTAAAGGCATGTGCCACCATGGCAGCCCGGAGATAGGGTTTTCTGTAGCCAGTACTGATCTTACATATAGTCAAAGAAGGCACTGAGCTTTTGATCCTCCTGTCTTTACCTCTCAAGTAATGGGCTTATAGACACACTATCACTCTTCAGTTTTATGAGGTGCTAGGAATCAAATTCTATGCATAATTTATGCTAGGCAGGCATCTGTCTGTCTATCTACCTACCTATCTACCTACCTACCTACCTGCCTGCCTACCTGCCTGCCAGCCTACCTACCTACCTACCTATCTAGCTATGGTTTTCAAGACTAGGTTTCTATGTATAGCCCTGGCTGTCCTAGAACTAGCTCTGGCCTCAAACTCACAGAAACCCACTGTCTTTGCCTTCTGAGTGCTGGGATTAAAGTGTGTGCCACCCCCCCCACCCCCCTGGCATTTGGCATTTGTGACATTTTCTAATGGTTAGGCTATTAGCTGCTTCCTGAGAATGAAGTGAGCTGGCCTTGTGTGGAGTGTTTGCTTTAAGCTTCTCTAGTTACCTGTGTTGAGAGGTACCTTTTTCAAGGCAGGTTTTTATTGATGTCAGAATTGATTTTTGGTCAGTAGAGTTCATTTAAATACATTATGCTCTCATTTTCTGTGCTCTAATTCTACATGGTAAGATTCATTCATGTACAGGAATATTTATGTAATAAATGGAAGATTTTATATCAGAGCCTATGCTACTTTTACACTTGTCAAACTTGCATATATTATCAGCTCTGAATGTTTATCACTTCTGTGAGCTTACCACTACTTATTGTCAGTCAAATTGATGCCAATAATCGATACTAGTTAAAATGAAAAGTTTTATTGTGGATTTATAGATGTCACTTAACATTTGGCATGGTTATATTCTGTACTTTGC
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGTCACTTAACATTTGGCATGGT
59.11
ATAGGGAGGTGGGGCTGGTA
61.61
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGTCACTTAACATTTGGCATGGT
59.11
ATAGGGAGGTGGGGCTGG
60.04
140
PCR template sequence:
CAAATTGATGCCAATAATCGATACTAGTTAAAATGAAAAGTTTTATTGTGGATTTATAGATGTCACTTAACATTTGGCATGGTTATATTCTGTACTTTGCGTAAAAACCCAAACCAATATGTTTCTTACTAGATATAACAATGTTGGATTTGTATAGCTGCTTTTATATACTGATTCCTTTACCAGCCCCACCTCCCTAT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
29
Interacting miRNAs (#binding sites)
mmu-miR-205-5p(2), mmu-miR-666-5p(2), mmu-miR-1187(2), mmu-miR-350-3p(2), mmu-miR-9-5p(1), mmu-miR-155-5p(1), mmu-miR-429-3p(1), mmu-miR-200b-3p(1), mmu-miR-181a-5p(1), mmu-miR-200c-3p(1), mmu-miR-211-5p(1), mmu-miR-204-5p(1), mmu-miR-18a-5p(1), mmu-miR-222-3p(1), mmu-miR-709(1), mmu-miR-181b-5p(1), mmu-miR-381-3p(1), mmu-miR-182-5p(1), mmu-miR-218-5p(1), mmu-miR-224-5p(1), mmu-miR-344d-3p(1), mmu-miR-207(1), mmu-miR-5101(1), mmu-miR-335-3p(1), mmu-miR-532-5p(1), mmu-miR-669d-5p(1), mmu-miR-574-5p(1), mmu-miR-181d-5p(1), mmu-miR-7a-2-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TTCTGTACTTTGCGTAAAAACCCAAA
siRNA sets
TTTTTACGCAAAGTACAGA, GTTTTTACGCAAAGTACAG, TTTTACGCAAAGTACAGAA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
NA
NA
NA
NA
NA
ORF sequence:
NA
Peptide sequence:
NA
IRESfinder result
IRESfinder score
0.803364848
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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