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mmu_circNup85_1582
Basic information of circular RNA
PanCircBase ID:
mmu_circNup85_1582
mm39_Chr. Position ID:
chr11|115455979|115472865|+
Gene name:
Nup85
Transcript:
ENSMUST00000021085.11
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
15
Exon/intron indexes:
2,3,4,5,6,7,8,9,10,11,12,13,14,15,16
Exon/intron offsets:
0,1447,3209,3525,4548,4845,12776,13010,13335,13636,15350,15576,15767,16588,16785
Genomic length:
16886
Exon/intron sizes in nt:
94,16,37,14,47,01,22,10,00,00,00,00,00,00,00,00,00,00,000
Flanking exon/introns:
chr11:115455388-115455979|chr11:115472865-115473702
Splice length:
1582
Other database IDs:
circAtlas: mmu-Nup85_0009
Human Ortholog IDs:
Mature spliced Sequence:
TGGATTCCAGGTGTGAATTCCAAGAAGAAGCAAATGTGTTTTGACTGGGGCCCCGGCGAGATGCTTCTGTGTGAAACTTCCTTCAACCAAACAGGCAAATCAGAGAAGGTGCCGAGCTGCCCTTTTATCTACATCATACGGAAAGATGTGGATGTTTACTCTCAAATTTTGAGAAAACTCTTCAATGAATCCCATGGAATCTTTGTTGGCCTGCAAAAAATTGAGGAAGAACTGTCGGGGAAGTCCAGGAAAGCTCAATTGGTTCGAGTGAGTAAAAATTACCGTTCAGTCATACGGGCCTGTATGGAAGAAATGCATCAGGTTGCAATTGCTGCTAAAGATCCAGCCAGTGGCCGGCAGTTCAGCAGCCAGGTCTCCATTTTGTCAGCCATGGAGCTCATTTGGAACCTGTGTGAGATTCTCTTTATTGAAGTAGCACCAGCTGGCCCTCTCCTCCTTCACCTTCTTGACTGGGTCCGACTGCACGTGTGCGAGGTGGACAGTTTGTCGGCAGATGTCCTGGGCGGTGACAACCCAAGCAAGCATGAAAACTTCTGGGACCTGGTGACTGTTCTGGTGCTTCAGGGCCGGCTCGATGAGGCACGGCAGATGCTAGCCAAAGAAGCTGATGCCAACCCCTCTTGTGCAGGCATGTGCCGCGTCCTTGGGGACCTGATGAGGACAATGCCCATTCTCAGCCCTGGCAATACTCAGACACTGACAGAGTTGGAGCTGAAGTGGCAGCACTGGCGTGAGGAGTGTGAAAGACACTTACAAGACAACACATTTGCAGCCAACCCCCGTCTGGAGTCTCTCTGCAAGATCATGCTGGGAGATGAGGCCGCCTTGTTGGAGCAGAAGGAGCTTCTGAGCAACTGGTACCATTTCTTAGTGACGAGGCTGCTGTACTCTAACCCCACAGTGAAGCCCATTGACCTGCACTTCTATGCCCAGTCCAGCCTAGACATGTTTCTTGGAGGTGAGAGCAGTCCAGAACCACTGGACAACATCTTGATGGCGGCCTTTGAGTTCGACATTCACCAGGTGATCAAAGAGTGCAGCATCGCCCTGAGCAACTGGTGGTTCGTAGCTCACCTCACAGACCTTTTGGATCACTGCAGACTCCTCCAGTCACACAATCTCTATTTTGGTTCTAACATGAGAGAATTCCTCCTGCTGGAGTACGCCTCAGGACTGTTTGCTCACCACAGCCTGTGGCAGCTGGGGGTGGACTACTTTGATTACTGCCCGGAGCTAGGCCGAGTTTCCTTGGAGCTGCACATTGAGCGGATTCCTCTCAACACAGAGCAGAAAGCCTTGAAGGTGCTGAGGATTTGTGAGCAGCGGCAGATGACTGAGCAAGTTAAAAGCATCTGTAAGATCTTGGCCATGAAGGCTGTTCGTAATAACCGCTTGGGCTCAGCACTCTCCTGGAGCATCCGTGCCAAAGATGCTGCCTTTGCCACACTCGTATCTGACAGATTCCTCCGGGATTACTGTGAGAGAGGCTGCTTTTCTGACTTGGATCTCATTGACAATCTGGGGTCAGCCATGATGCTCAGTGATCGACTGACGTTTCTGG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACTGTGAGAGAGGCTGCTTT
58.94
TCACACAGAAGCATCTCGCC
60.39
161
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CGGGATTACTGTGAGAGAGGC
59.93
TCACACAGAAGCATCTCGCC
60.39
168
PCR template sequence:
TTCCTCCGGGATTACTGTGAGAGAGGCTGCTTTTCTGACTTGGATCTCATTGACAATCTGGGGTCAGCCATGATGCTCAGTGATCGACTGACGTTTCTGGTGGATTCCAGGTGTGAATTCCAAGAAGAAGCAAATGTGTTTTGACTGGGGCCCCGGCGAGATGCTTCTGTGTGAAACTTCCTTCAACCAAACAGGCAAAT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
20
Interacting miRNAs (#binding sites)
mmu-miR-132-3p(2), mmu-miR-342-3p(2), mmu-miR-1904(2), mmu-miR-9-5p(1), mmu-miR-15a-5p(1), mmu-miR-30e-5p(1), mmu-miR-322-5p(1), mmu-miR-30a-5p(1), mmu-miR-30c-5p(1), mmu-miR-138-5p(1), mmu-miR-30d-5p(1), mmu-miR-30b-5p(1), mmu-miR-212-3p(1), mmu-miR-541-5p(1), mmu-miR-680(1), mmu-miR-377-3p(1), mmu-miR-129-5p(1), mmu-miR-335-3p(1), mmu-miR-350-3p(1), mmu-miR-338-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CTGACGTTTCTGGTGGATTCCAGGTG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCNUP85_1582_ORF_1
0.9892
0.286944045
0.999898089
1593
ORF sequence:
ATGTGTTTTGACTGGGGCCCCGGCGAGATGCTTCTGTGTGAAACTTCCTTCAACCAAACAGGCAAATCAGAGAAGGTGCCGAGCTGCCCTTTTATCTACATCATACGGAAAGATGTGGATGTTTACTCTCAAATTTTGAGAAAACTCTTCAATGAATCCCATGGAATCTTTGTTGGCCTGCAAAAAATTGAGGAAGAACTGTCGGGGAAGTCCAGGAAAGCTCAATTGGTTCGAGTGAGTAAAAATTACCGTTCAGTCATACGGGCCTGTATGGAAGAAATGCATCAGGTTGCAATTGCTGCTAAAGATCCAGCCAGTGGCCGGCAGTTCAGCAGCCAGGTCTCCATTTTGTCAGCCATGGAGCTCATTTGGAACCTGTGTGAGATTCTCTTTATTGAAGTAGCACCAGCTGGCCCTCTCCTCCTTCACCTTCTTGACTGGGTCCGACTGCACGTGTGCGAGGTGGACAGTTTGTCGGCAGATGTCCTGGGCGGTGACAACCCAAGCAAGCATGAAAACTTCTGGGACCTGGTGACTGTTCTGGTGCTTCAGGGCCGGCTCGATGAGGCACGGCAGATGCTAGCCAAAGAAGCTGATGCCAACCCCTCTTGTGCAGGCATGTGCCGCGTCCTTGGGGACCTGATGAGGACAATGCCCATTCTCAGCCCTGGCAATACTCAGACACTGACAGAGTTGGAGCTGAAGTGGCAGCACTGGCGTGAGGAGTGTGAAAGACACTTACAAGACAACACATTTGCAGCCAACCCCCGTCTGGAGTCTCTCTGCAAGATCATGCTGGGAGATGAGGCCGCCTTGTTGGAGCAGAAGGAGCTTCTGAGCAACTGGTACCATTTCTTAGTGACGAGGCTGCTGTACTCTAACCCCACAGTGAAGCCCATTGACCTGCACTTCTATGCCCAGTCCAGCCTAGACATGTTTCTTGGAGGTGAGAGCAGTCCAGAACCACTGGACAACATCTTGATGGCGGCCTTTGAGTTCGACATTCACCAGGTGATCAAAGAGTGCAGCATCGCCCTGAGCAACTGGTGGTTCGTAGCTCACCTCACAGACCTTTTGGATCACTGCAGACTCCTCCAGTCACACAATCTCTATTTTGGTTCTAACATGAGAGAATTCCTCCTGCTGGAGTACGCCTCAGGACTGTTTGCTCACCACAGCCTGTGGCAGCTGGGGGTGGACTACTTTGATTACTGCCCGGAGCTAGGCCGAGTTTCCTTGGAGCTGCACATTGAGCGGATTCCTCTCAACACAGAGCAGAAAGCCTTGAAGGTGCTGAGGATTTGTGAGCAGCGGCAGATGACTGAGCAAGTTAAAAGCATCTGTAAGATCTTGGCCATGAAGGCTGTTCGTAATAACCGCTTGGGCTCAGCACTCTCCTGGAGCATCCGTGCCAAAGATGCTGCCTTTGCCACACTCGTATCTGACAGATTCCTCCGGGATTACTGTGAGAGAGGCTGCTTTTCTGACTTGGATCTCATTGACAATCTGGGGTCAGCCATGATGCTCAGTGATCGACTGACGTTTCTGGTGGATTCCAGGTGTGAATTCCAAGAAGAAGCAAATGTGTTTTGA
Peptide sequence:
MCFDWGPGEMLLCETSFNQTGKSEKVPSCPFIYIIRKDVDVYSQILRKLFNESHGIFVGLQKIEEELSGKSRKAQLVRVSKNYRSVIRACMEEMHQVAIAAKDPASGRQFSSQVSILSAMELIWNLCEILFIEVAPAGPLLLHLLDWVRLHVCEVDSLSADVLGGDNPSKHENFWDLVTVLVLQGRLDEARQMLAKEADANPSCAGMCRVLGDLMRTMPILSPGNTQTLTELELKWQHWREECERHLQDNTFAANPRLESLCKIMLGDEAALLEQKELLSNWYHFLVTRLLYSNPTVKPIDLHFYAQSSLDMFLGGESSPEPLDNILMAAFEFDIHQVIKECSIALSNWWFVAHLTDLLDHCRLLQSHNLYFGSNMREFLLLEYASGLFAHHSLWQLGVDYFDYCPELGRVSLELHIERIPLNTEQKALKVLRICEQRQMTEQVKSICKILAMKAVRNNRLGSALSWSIRAKDAAFATLVSDRFLRDYCERGCFSDLDLIDNLGSAMMLSDRLTFLVDSRCEFQEEANVF
IRESfinder result
IRESfinder score
0.546154561
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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