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mmu_circNup160_654
Basic information of circular RNA
PanCircBase ID:
mmu_circNup160_654
mm39_Chr. Position ID:
chr2|90537266|90544237|+
Gene name:
Nup160
Transcript:
ENSMUST00000057481.7
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
19,20,21,22,23,24
Exon/intron offsets:
0,1210,1900,3110,5022,6851
Genomic length:
6971
Exon/intron sizes in nt:
13,47,11,60,70,99,120
Flanking exon/introns:
chr2:90534315-90537266|chr2:90544237-90547937
Splice length:
654
Other database IDs:
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_4663
Human Ortholog IDs:
Mature spliced Sequence:
GTGATCTTAGGAGCTGGTCAGCTCTTTCAAGCTCAGCAAGACCTGCTGCATCGCACAGCTCCCCTGCTCTTGTCTTATTACCTCATTAAGTGGGCAAGTCAGTGCTTGGCAACTGATGTCCCCGTTGACACACTGGAGTCTAATCTACAACATTTGTCAGTTCTGGAACTAACTGATTCTGGTGCCTTAATGGCAAATAAACTGGTATCTAGCCCTCAGACAATTATGGAGTTATTCTTCCAAGAAGTTGCAAGAAAACAAATTATATCTCATCTCTTCTCTCAACCCAAAGCCCCTCTAAGCCAAACTGGATTGAATTGGCCTGAAATGATTACTGCAGTTACTGGTTATTTGTTGCAGCTTTTGTGGCCTAGCAACCCAGGTTGTCTCTTTCTAGAATGTTTGATGGGGAATTGCCAGTATGTACAATTGCAGGATTATATCCAACTACTGCATCCCTGGTGTCAAGTCAATGTTGGGTCTTGTCGCTTTATGCTGGGACGGTGTTACCTGGTTACGGGGGAAGTGCAGAAGGCTCTGGAATGTTTCTGTCAGGCAGCATCTGAAGTGGGCAAAGAAGAATTTTTAGATCGCTTGATCCGATCAGAGGACGGGGAGATTGTGTCCACCCCCAAGTTGCAGTATTATGATAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CGCTTGATCCGATCAGAGGA
59.33
TAAGACAAGAGCAGGGGAGC
59.09
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCGCTTGATCCGATCAGAGG
59.33
TAAGACAAGAGCAGGGGAGC
59.09
141
PCR template sequence:
GGCAGCATCTGAAGTGGGCAAAGAAGAATTTTTAGATCGCTTGATCCGATCAGAGGACGGGGAGATTGTGTCCACCCCCAAGTTGCAGTATTATGATAAGGTGATCTTAGGAGCTGGTCAGCTCTTTCAAGCTCAGCAAGACCTGCTGCATCGCACAGCTCCCCTGCTCTTGTCTTATTACCTCATTAAGTGGGCAAGTC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
7
Interacting miRNAs (#binding sites)
mmu-miR-335-5p(1), mmu-miR-199b-3p(1), mmu-miR-199a-3p(1), mmu-miR-340-5p(1), mmu-miR-3065-5p(1), mmu-miR-338-3p(1), mmu-miR-7a-1-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GTATTATGATAAGGTGATCTTAGGAG
siRNA sets
GATCACCTTATCATAATAC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCNUP160_654_ORF_1
0.811
-0.008506936
0.98627572
1119
ORF sequence:
ATGGCAAATAAACTGGTATCTAGCCCTCAGACAATTATGGAGTTATTCTTCCAAGAAGTTGCAAGAAAACAAATTATATCTCATCTCTTCTCTCAACCCAAAGCCCCTCTAAGCCAAACTGGATTGAATTGGCCTGAAATGATTACTGCAGTTACTGGTTATTTGTTGCAGCTTTTGTGGCCTAGCAACCCAGGTTGTCTCTTTCTAGAATGTTTGATGGGGAATTGCCAGTATGTACAATTGCAGGATTATATCCAACTACTGCATCCCTGGTGTCAAGTCAATGTTGGGTCTTGTCGCTTTATGCTGGGACGGTGTTACCTGGTTACGGGGGAAGTGCAGAAGGCTCTGGAATGTTTCTGTCAGGCAGCATCTGAAGTGGGCAAAGAAGAATTTTTAGATCGCTTGATCCGATCAGAGGACGGGGAGATTGTGTCCACCCCCAAGTTGCAGTATTATGATAAGGTGATCTTAGGAGCTGGTCAGCTCTTTCAAGCTCAGCAAGACCTGCTGCATCGCACAGCTCCCCTGCTCTTGTCTTATTACCTCATTAAGTGGGCAAGTCAGTGCTTGGCAACTGATGTCCCCGTTGACACACTGGAGTCTAATCTACAACATTTGTCAGTTCTGGAACTAACTGATTCTGGTGCCTTAATGGCAAATAAACTGGTATCTAGCCCTCAGACAATTATGGAGTTATTCTTCCAAGAAGTTGCAAGAAAACAAATTATATCTCATCTCTTCTCTCAACCCAAAGCCCCTCTAAGCCAAACTGGATTGAATTGGCCTGAAATGATTACTGCAGTTACTGGTTATTTGTTGCAGCTTTTGTGGCCTAGCAACCCAGGTTGTCTCTTTCTAGAATGTTTGATGGGGAATTGCCAGTATGTACAATTGCAGGATTATATCCAACTACTGCATCCCTGGTGTCAAGTCAATGTTGGGTCTTGTCGCTTTATGCTGGGACGGTGTTACCTGGTTACGGGGGAAGTGCAGAAGGCTCTGGAATGTTTCTGTCAGGCAGCATCTGAAGTGGGCAAAGAAGAATTTTTAGATCGCTTGATCCGATCAGAGGACGGGGAGATTGTGTCCACCCCCAAGTTGCAGTATTATGATAAG
Peptide sequence:
MANKLVSSPQTIMELFFQEVARKQIISHLFSQPKAPLSQTGLNWPEMITAVTGYLLQLLWPSNPGCLFLECLMGNCQYVQLQDYIQLLHPWCQVNVGSCRFMLGRCYLVTGEVQKALECFCQAASEVGKEEFLDRLIRSEDGEIVSTPKLQYYDKVILGAGQLFQAQQDLLHRTAPLLLSYYLIKWASQCLATDVPVDTLESNLQHLSVLELTDSGALMANKLVSSPQTIMELFFQEVARKQIISHLFSQPKAPLSQTGLNWPEMITAVTGYLLQLLWPSNPGCLFLECLMGNCQYVQLQDYIQLLHPWCQVNVGSCRFMLGRCYLVTGEVQKALECFCQAASEVGKEEFLDRLIRSEDGEIVSTPKLQYYDK
IRESfinder result
IRESfinder score
0.722810294
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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