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mmu_circNup160_1070
Basic information of circular RNA
PanCircBase ID:
mmu_circNup160_1070
mm39_Chr. Position ID:
chr2|90542288|90554079|+
Gene name:
Nup160
Transcript:
ENSMUST00000057481.7
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
10
Exon/intron indexes:
23,24,25,26,27,28,29,30,31,32
Exon/intron offsets:
0,1829,5649,5869,6054,6243,9245,10085,11392,11667
Genomic length:
11791
Exon/intron sizes in nt:
99,12,09,69,59,71,06,10,00,00,00,000
Flanking exon/introns:
chr2:90540446-90542288|chr2:90554079-90555945
Splice length:
1070
Other database IDs:
CIRCpedia: MMU_CIRCpedia_33837, circAtlas: mmu-Nup160_0013
circBase: hsa_circ_0095947, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_73960
Human Ortholog IDs:
Mature spliced Sequence:
GATTATATCCAACTACTGCATCCCTGGTGTCAAGTCAATGTTGGGTCTTGTCGCTTTATGCTGGGACGGTGTTACCTGGTTACGGGGGAAGTGCAGAAGGCTCTGGAATGTTTCTGTCAGGCAGCATCTGAAGTGGGCAAAGAAGAATTTTTAGATCGCTTGATCCGATCAGAGGACGGGGAGATTGTGTCCACCCCCAAGTTGCAGTATTATGATAAGGTTTTACGTCTACTAGACGTTGTTGGATTGCCTGAGCTGGTTATTCAGCTTGCTACATCAGCAATTACTGAAGCAGGTGATGACTGGAAAAGTCAGGCTACTTTAAGAACATGCATTTTCAAACATCATTTGGACTTGGGTCATAATAGCCAAGCATATGAGGCCTTGACCCAAATTCCGGACTCCAGCAGGCAGTTAGACTGTTTGCGACAGCTGGTGGTGGTTCTATGTGAACGCTCCCAACTGCAGGATCTTGTAGAGTTTCCCTATGTGAATCTGCATAATGAGGTTGTAGGAATAATTGAATCACGTGCTAGAGCTGTGGACCTTATGACTCACAATTACTATGAACTTCTTTATGCTTTTCACATTTACCGCCATAATTACCGAAAAGCTGGTACAGTGATGTTTGAATATGGTATGCGTCTTGGCAGAGAGGTACGAACTCTTCGGGGACTTGAGAAGCAAGGCAACTGTTACCTAGCCGCTATCAATTGTTTACGGCTTATTCGTCCAGAGTATGCGTGGATCGTACAGCCAGCCTCTGGGGCAGTGTCTGATCGCCCTGGAGCATCTCCTAAGCGGAATCATGATGGCGAGTGCACAGCTGCCCCAACCAATCGGCAAATTGAAATTCTGGAATTGGAAGATCTCGAGAAAGAATATTCTTTAGCTCGCATTCGCCTCACGTTGGCTCGGCATGATCCATCAGTGATTGCCATTGCAGGAAGTTCATCAGCAAAGGAGATGAGCGCACTCTTGGTTCAGGCTGGCCTCTTTGATACTGCCATATCACTCTGTCAGACTTTTACTCTTCCATTAACACCAGTCTTTGAAGGGCTTGCTTTCAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GTTCAGGCTGGCCTCTTTGA
60.25
CCCCGTAACCAGGTAACACC
60.04
176
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GTTCAGGCTGGCCTCTTTGA
60.25
CCCCCGTAACCAGGTAACAC
60.04
177
PCR template sequence:
GCGCACTCTTGGTTCAGGCTGGCCTCTTTGATACTGCCATATCACTCTGTCAGACTTTTACTCTTCCATTAACACCAGTCTTTGAAGGGCTTGCTTTCAAGATTATATCCAACTACTGCATCCCTGGTGTCAAGTCAATGTTGGGTCTTGTCGCTTTATGCTGGGACGGTGTTACCTGGTTACGGGGGAAGTGCAGAAGG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
9
Interacting miRNAs (#binding sites)
mmu-miR-93-5p(1), mmu-miR-132-3p(1), mmu-miR-199b-3p(1), mmu-miR-199a-3p(1), mmu-miR-370-3p(1), mmu-miR-340-5p(1), mmu-miR-324-3p(1), mmu-miR-673-5p(1), mmu-miR-338-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GGCTTGCTTTCAAGATTATATCCAAC
siRNA sets
ATAATCTTGAAAGCAAGCC, TTGGATATAATCTTGAAAG, TGGATATAATCTTGAAAGC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCNUP160_1070_ORF_1
0.8612
0.103254942
0.994245557
1167
ORF sequence:
ATGCTGGGACGGTGTTACCTGGTTACGGGGGAAGTGCAGAAGGCTCTGGAATGTTTCTGTCAGGCAGCATCTGAAGTGGGCAAAGAAGAATTTTTAGATCGCTTGATCCGATCAGAGGACGGGGAGATTGTGTCCACCCCCAAGTTGCAGTATTATGATAAGGTTTTACGTCTACTAGACGTTGTTGGATTGCCTGAGCTGGTTATTCAGCTTGCTACATCAGCAATTACTGAAGCAGGTGATGACTGGAAAAGTCAGGCTACTTTAAGAACATGCATTTTCAAACATCATTTGGACTTGGGTCATAATAGCCAAGCATATGAGGCCTTGACCCAAATTCCGGACTCCAGCAGGCAGTTAGACTGTTTGCGACAGCTGGTGGTGGTTCTATGTGAACGCTCCCAACTGCAGGATCTTGTAGAGTTTCCCTATGTGAATCTGCATAATGAGGTTGTAGGAATAATTGAATCACGTGCTAGAGCTGTGGACCTTATGACTCACAATTACTATGAACTTCTTTATGCTTTTCACATTTACCGCCATAATTACCGAAAAGCTGGTACAGTGATGTTTGAATATGGTATGCGTCTTGGCAGAGAGGTACGAACTCTTCGGGGACTTGAGAAGCAAGGCAACTGTTACCTAGCCGCTATCAATTGTTTACGGCTTATTCGTCCAGAGTATGCGTGGATCGTACAGCCAGCCTCTGGGGCAGTGTCTGATCGCCCTGGAGCATCTCCTAAGCGGAATCATGATGGCGAGTGCACAGCTGCCCCAACCAATCGGCAAATTGAAATTCTGGAATTGGAAGATCTCGAGAAAGAATATTCTTTAGCTCGCATTCGCCTCACGTTGGCTCGGCATGATCCATCAGTGATTGCCATTGCAGGAAGTTCATCAGCAAAGGAGATGAGCGCACTCTTGGTTCAGGCTGGCCTCTTTGATACTGCCATATCACTCTGTCAGACTTTTACTCTTCCATTAACACCAGTCTTTGAAGGGCTTGCTTTCAAGATTATATCCAACTACTGCATCCCTGGTGTCAAGTCAATGTTGGGTCTTGTCGCTTTATGCTGGGACGGTGTTACCTGGTTACGGGGGAAGTGCAGAAGGCTCTGGAATGTTTCTGTCAGGCAGCATCTGAAGTGGGCAAAGAAGAATTTTTAG
Peptide sequence:
MLGRCYLVTGEVQKALECFCQAASEVGKEEFLDRLIRSEDGEIVSTPKLQYYDKVLRLLDVVGLPELVIQLATSAITEAGDDWKSQATLRTCIFKHHLDLGHNSQAYEALTQIPDSSRQLDCLRQLVVVLCERSQLQDLVEFPYVNLHNEVVGIIESRARAVDLMTHNYYELLYAFHIYRHNYRKAGTVMFEYGMRLGREVRTLRGLEKQGNCYLAAINCLRLIRPEYAWIVQPASGAVSDRPGASPKRNHDGECTAAPTNRQIEILELEDLEKEYSLARIRLTLARHDPSVIAIAGSSSAKEMSALLVQAGLFDTAISLCQTFTLPLTPVFEGLAFKIISNYCIPGVKSMLGLVALCWDGVTWLRGKCRRLWNVSVRQHLKWAKKNF
IRESfinder result
IRESfinder score
0.620954231
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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