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mmu_circRnf216_847
Basic information of circular RNA
PanCircBase ID:
mmu_circRnf216_847
mm39_Chr. Position ID:
chr5|143075497|143078880|-
Gene name:
Rnf216
Transcript:
ENSMUST00000053498.13
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
5,4,3
Exon/intron offsets:
0,377,3252
Genomic length:
3383
Exon/intron sizes in nt:
7,76,39,131
Flanking exon/introns:
chr5:143073376-143075497|chr5:143078880-143084133
Splice length:
847
Other database IDs:
circAtlas: mmu-Rnf216_0024
Human Ortholog IDs:
Mature spliced Sequence:
AATGGATGGCTGTCAGAGAGGGGCCCATCACCATATCTGACTCCTCTGATGAGGAAGGGATTCCAATGCTGGTTACCCCAGCTACAGAGCAACAGGAAGACGACCTGGATGATGATGTCATCCTGACAGAAGATGATTCTGAGGATGAATATGGTGGATTTCTGGATCTTGAGAGTGGCAAAAAAGAGGGAGAAGCCAAACCTGGACCAAGCAGTAAGCAGACAGCAGACGATATTGTCAACCCCAGATTGGAGCAGAAAGTCATTATATTGGGAGAAAATGGTCTTCTTTTCCCAGAAAGTGAGCCTTTGGAAGTTCAGAACCAATCATCCGAAGACTCAGAGACAGAGCTCTTATCAAATCCTGGAGAGCCAGCTGCCTCAGTAGATGACCAGCTAATTGGAGAAGAGTACTGGCTTGACCATCCATACTTCCAGGCTCCGAATCCACAGCCTCAGGAAAGAACAAACCAGGTTGTGCCCCAAGAGCGACATTCTGAATCAGAAATGGGCCCAATGTTTTTCCGCCATGATTTCCCAGAGCCAGCTTTTCCAAGGCCAGAACCCCAGCAGGAGGGGATTCCAGGCCCTGCTTCTCCACAGCCAGCCCATCCTCTAGGAGAGCTTGAAGACCAGCAGTTAGCAATTGATGAAGACCCTGGGCCAGCCTTCCCCCTGTCAGGACCTCAGGAGGCCAACTTGGCAAACATGTGGGAACAAGAAGCTGCTGAGGTAGATCAAGACCTCATTCCACTGTTAGTGAAAGAAACGGAAGCAAGATTTCCAGATGTAGCAAGTGGATATGTTGAAGAAATAATTCATTTGAAAAATTACTATGATTTGAATGT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACTGTTAGTGAAAGAAACGGAAGC
59.73
GGAGTCAGATATGGTGATGGGC
60.29
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACGGAAGCAAGATTTCCAGA
57.14
GCTCTGTAGCTGGGGTAAC
57.24
170
PCR template sequence:
TTCCACTGTTAGTGAAAGAAACGGAAGCAAGATTTCCAGATGTAGCAAGTGGATATGTTGAAGAAATAATTCATTTGAAAAATTACTATGATTTGAATGTAATGGATGGCTGTCAGAGAGGGGCCCATCACCATATCTGACTCCTCTGATGAGGAAGGGATTCCAATGCTGGTTACCCCAGCTACAGAGCAACAGGAAGA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
8
Interacting miRNAs (#binding sites)
mmu-miR-135a-5p(1), mmu-miR-222-3p(1), mmu-miR-320-3p(1), mmu-miR-149-5p(1), mmu-miR-370-3p(1), mmu-miR-188-3p(1), mmu-miR-1904(1), mmu-miR-3105-3p(1)
siRNAs for circular RNA silencing
Junction sequence
ATGATTTGAATGTAATGGATGGCTGT
siRNA sets
CATCCATTACATTCAAATC, ACAGCCATCCATTACATTC, ATCCATTACATTCAAATCA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCRNF216_847_ORF_1
1.2235
0.231712909
0.986675824
882
ORF sequence:
ATGGCTGTCAGAGAGGGGCCCATCACCATATCTGACTCCTCTGATGAGGAAGGGATTCCAATGCTGGTTACCCCAGCTACAGAGCAACAGGAAGACGACCTGGATGATGATGTCATCCTGACAGAAGATGATTCTGAGGATGAATATGGTGGATTTCTGGATCTTGAGAGTGGCAAAAAAGAGGGAGAAGCCAAACCTGGACCAAGCAGTAAGCAGACAGCAGACGATATTGTCAACCCCAGATTGGAGCAGAAAGTCATTATATTGGGAGAAAATGGTCTTCTTTTCCCAGAAAGTGAGCCTTTGGAAGTTCAGAACCAATCATCCGAAGACTCAGAGACAGAGCTCTTATCAAATCCTGGAGAGCCAGCTGCCTCAGTAGATGACCAGCTAATTGGAGAAGAGTACTGGCTTGACCATCCATACTTCCAGGCTCCGAATCCACAGCCTCAGGAAAGAACAAACCAGGTTGTGCCCCAAGAGCGACATTCTGAATCAGAAATGGGCCCAATGTTTTTCCGCCATGATTTCCCAGAGCCAGCTTTTCCAAGGCCAGAACCCCAGCAGGAGGGGATTCCAGGCCCTGCTTCTCCACAGCCAGCCCATCCTCTAGGAGAGCTTGAAGACCAGCAGTTAGCAATTGATGAAGACCCTGGGCCAGCCTTCCCCCTGTCAGGACCTCAGGAGGCCAACTTGGCAAACATGTGGGAACAAGAAGCTGCTGAGGTAGATCAAGACCTCATTCCACTGTTAGTGAAAGAAACGGAAGCAAGATTTCCAGATGTAGCAAGTGGATATGTTGAAGAAATAATTCATTTGAAAAATTACTATGATTTGAATGTAATGGATGGCTGTCAGAGAGGGGCCCATCACCATATCTGA
Peptide sequence:
MAVREGPITISDSSDEEGIPMLVTPATEQQEDDLDDDVILTEDDSEDEYGGFLDLESGKKEGEAKPGPSSKQTADDIVNPRLEQKVIILGENGLLFPESEPLEVQNQSSEDSETELLSNPGEPAASVDDQLIGEEYWLDHPYFQAPNPQPQERTNQVVPQERHSESEMGPMFFRHDFPEPAFPRPEPQQEGIPGPASPQPAHPLGELEDQQLAIDEDPGPAFPLSGPQEANLANMWEQEAAEVDQDLIPLLVKETEARFPDVASGYVEEIIHLKNYYDLNVMDGCQRGAHHHI
IRESfinder result
IRESfinder score
0.534037065
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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