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mmu_circNupl1_1391
Basic information of circular RNA
PanCircBase ID:
mmu_circNupl1_1391
mm39_Chr. Position ID:
chr14|60460765|60484915|-
Gene name:
Nupl1
Transcript:
ENSMUST00000225805.2
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
12
Exon/intron indexes:
13,12,11,10,9,8,7,6,5,4,3,2
Exon/intron offsets:
0,5392,8757,9230,10913,15135,16164,17457,19230,20040,21197,24007
Genomic length:
24150
Exon/intron sizes in nt:
99,20,28,31,19,80,17,50,00,00,00,00,00,00,000
Flanking exon/introns:
chr14:60459127-60460765|chr14:60484915-60488611
Splice length:
1391
Other database IDs:
CIRCpedia: MMU_CIRCpedia_24815, circAtlas: mmu-Nupl1_0015
Human Ortholog IDs:
Mature spliced Sequence:
CACACCTTCTGTGGGACTCAACTTTGGATCTCTTGGAAGCTCTGTGACCCCAGCATCTACATCTGCTTCAGCTGGTGGTTTTGGAACAGGCCTCTTTGGATCTAAGCCTGCCACTGGATTTACTCTAGGAGGAACAAGTGCAGGAACAGCAGCAACAACATCTGCGTCTACAACAGGCTTCAGTTTAGGATTCAGTAAACCTGCGGCATCTGCCACACCATTTGCCCTGCCTGTCACTTCTACCTCAGCTAGTGGTCTTACTCTCTCATCTGCTCTGACATCAACTCCAGCAGCATCCACAGGATTTACTTTGAATAACTTGGGAGCAACACCAGCCACAACTACAACAGCATCAACTGGGCTTTCTTTAGGGGGAGCCTTAGCTGGTTTGGGAGGTTCACTTTTTCAGAGTGGAAACACAGCAACATCAGGTCTCGGACAAAATGCTTTAAGCTTGTCTTTGGGAACTACAGCACCTACTTCAGCTGCCAGCAATGAAGGCCTTGGTGGTATAGACTTTAGTACCTCATCAGATAAGAAGAGTGATAAAACGGGAACAAGGCCAGAGGACAGTAAAGCACTGAAAGATGAAAACCTGCCTCCTGTCATCTGTCAGGATGTTGAAAACCTCCAGAAATTTGTCAAGGAACAGAAACAAGTCCAAGAAGAAATTAGCCGAATGTCTTCCAAAGCAATGCTTAAAGTCCAGGAAGACATCAAGGCCCTGAAGCAGCTTCTGTCATTGGCTGCCAGTGGGTTGCAGAGGAATACACTCAATATTGACAAACTGAAGTTAGAAACTGCTCAGGAGTTAAAGAATGCCGAAATAGCTTTAAGAACCCAGAAAACACCACCTGGACTCCAACATGAAAACACAGCTCCTGCTGACTACTTCAGAATATTGGTTCAGCAGTTTGAGGTACAGCTTCAGCAGTACAGGCAGCAGATTGAAGAACTAGAAAACCATCTTGCCACTCAAGCCAGTAATTCACATATAACTCCTCAAGATTTATCAATGGCTATGCAGAAAATTTATCAAACATTTGTAGCTTTAGCCGCACAACTTCAATCTATTCATGAAAATGTCAAGGTGCTTAAAGAACAGTATCTCGGCTACAGAAAAATGTTTTTGGGTGATGCTGTGGATGTGTTTGAAGCCAGGAGAACAGAAGCCAAGAAGTGGCAGAATGCACCCAGAGTTACTACTGGACCCACTCCTTTCAGCACCATGCCAAACGCAGCAGCCGTTGCCATGGCTGCAACACTTACACAGCAGCAACAGCCTGCTACAGGGCCACAGCCGTCTCTGGGAGTTAGTTTTGGAACGCCATTCGGCTCAGGTATTGGCACTGGCTTGCAATCAAGTGGCTTAGGTTCTTCAAACCTTGGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGCCGTCTCTGGGAGTTAGT
59.96
CCAAAACCACCAGCTGAAGC
59.97
177
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGCCGTCTCTGGGAGTTAGT
59.96
AAACCACCAGCTGAAGCAGA
59.82
174
PCR template sequence:
GGGCCACAGCCGTCTCTGGGAGTTAGTTTTGGAACGCCATTCGGCTCAGGTATTGGCACTGGCTTGCAATCAAGTGGCTTAGGTTCTTCAAACCTTGGAGCACACCTTCTGTGGGACTCAACTTTGGATCTCTTGGAAGCTCTGTGACCCCAGCATCTACATCTGCTTCAGCTGGTGGTTTTGGAACAGGCCTCTTTGGA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
15
Interacting miRNAs (#binding sites)
mmu-miR-382-5p(2), mmu-let-7a-5p(1), mmu-miR-7b-5p(1), mmu-let-7e-5p(1), mmu-let-7b-5p(1), mmu-miR-223-3p(1), mmu-miR-31-5p(1), mmu-let-7c-5p(1), mmu-miR-7a-5p(1), mmu-miR-326-3p(1), mmu-miR-138-5p(1), mmu-let-7d-5p(1), mmu-miR-153-3p(1), mmu-miR-98-5p(1), mmu-miR-188-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TCAAACCTTGGAGCACACCTTCTGTG
siRNA sets
CAGAAGGTGTGCTCCAAGG, AGAAGGTGTGCTCCAAGGT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCNUPL1_1391_ORF_1
1.0628
0.083105512
0.923104139
759
ORF sequence:
ATGTCTTCCAAAGCAATGCTTAAAGTCCAGGAAGACATCAAGGCCCTGAAGCAGCTTCTGTCATTGGCTGCCAGTGGGTTGCAGAGGAATACACTCAATATTGACAAACTGAAGTTAGAAACTGCTCAGGAGTTAAAGAATGCCGAAATAGCTTTAAGAACCCAGAAAACACCACCTGGACTCCAACATGAAAACACAGCTCCTGCTGACTACTTCAGAATATTGGTTCAGCAGTTTGAGGTACAGCTTCAGCAGTACAGGCAGCAGATTGAAGAACTAGAAAACCATCTTGCCACTCAAGCCAGTAATTCACATATAACTCCTCAAGATTTATCAATGGCTATGCAGAAAATTTATCAAACATTTGTAGCTTTAGCCGCACAACTTCAATCTATTCATGAAAATGTCAAGGTGCTTAAAGAACAGTATCTCGGCTACAGAAAAATGTTTTTGGGTGATGCTGTGGATGTGTTTGAAGCCAGGAGAACAGAAGCCAAGAAGTGGCAGAATGCACCCAGAGTTACTACTGGACCCACTCCTTTCAGCACCATGCCAAACGCAGCAGCCGTTGCCATGGCTGCAACACTTACACAGCAGCAACAGCCTGCTACAGGGCCACAGCCGTCTCTGGGAGTTAGTTTTGGAACGCCATTCGGCTCAGGTATTGGCACTGGCTTGCAATCAAGTGGCTTAGGTTCTTCAAACCTTGGAGCACACCTTCTGTGGGACTCAACTTTGGATCTCTTGGAAGCTCTGTGA
Peptide sequence:
MSSKAMLKVQEDIKALKQLLSLAASGLQRNTLNIDKLKLETAQELKNAEIALRTQKTPPGLQHENTAPADYFRILVQQFEVQLQQYRQQIEELENHLATQASNSHITPQDLSMAMQKIYQTFVALAAQLQSIHENVKVLKEQYLGYRKMFLGDAVDVFEARRTEAKKWQNAPRVTTGPTPFSTMPNAAAVAMAATLTQQQQPATGPQPSLGVSFGTPFGSGIGTGLQSSGLGSSNLGAHLLWDSTLDLLEAL
IRESfinder result
IRESfinder score
0.690583374
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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