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mmu_circUsp14_1019
Basic information of circular RNA
PanCircBase ID:
mmu_circUsp14_1019
mm39_Chr. Position ID:
chr18|10001770|10024679|-
Gene name:
Usp14
Transcript:
ENSMUST00000092096.14
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
11
Exon/intron indexes:
12,11,10,9,8,7,6,5,4,3,2
Exon/intron offsets:
0,597,3125,3859,5996,8181,10442,14770,16220,21047,22763
Genomic length:
22909
Exon/intron sizes in nt:
93,66,11,58,68,11,31,50,00,00,00,00,000
Flanking exon/introns:
chr18:10000623-10001770|chr18:10024679-10029912
Splice length:
1019
Other database IDs:
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_178296
Human Ortholog IDs:
Mature spliced Sequence:
TTACAGTAAAATGGGGAAAGGAGAAGTTTGAAGGTGTAGAATTGAATACTGATGAACCTCCAATGGTGTTCAAAGCCCAGCTTTTTGCATTGACTGGAGTCCAGCCAGCCAGACAAAAAGTTATGGTGAAAGGAGGAACCCTGAAGGATGATGACTGGGGAAACATCAAAATGAAAAATGGAATGACTGTACTAATGATGGGGTCAGCAGATGCTCTTCCAGAAGAACCCTCTGCTAAAACTGTCTTCGTAGAAGACATGACAGAAGAACAGTTAGCAACCGCTATGGAATTGCCATGTGGATTGACAAACCTTGGTAACACTTGTTACATGAATGCTACAGTTCAGTGTATTCGTTCTGTGCCTGAACTCAAAGATGCCCTTAAAAGGTATGCAGGTGCGTTGAGAGCTTCAGGAGAAATGGCTTCAGCACAGTATATTACTGCAGCTCTTAGAGATTTGTTTGATTCCATGGATAAAACTTCTTCTAGTATCCCACCTATTATTCTGCTGCAGTTTCTGCACATGGCCTTTCCACAGTTTGCAGAGAAGGGCGAACAAGGGCAGTATCTTCAGCAGGATGCTAACGAATGCTGGATACAAATGATGAGAGTCCTGCAACAGAAACTAGAAGCCATAGAGGATGATTCTGGTAGAGAGACGGATTCTTCATCTGCACCAGCGGTGACACCTTCTAAAAAGAAAAGCTTAATTGATCAATATTTTGGTGTTGAGTTTGAAACTACCATGAAATGTACAGAATCTGAAGAAGAAGAGGTCACCAAAGGAAAGGAAAATCAACTTCAACTTAGTTGTTTCATTAACCAGGAAGTGAAGTATCTTTTCACAGGGCTGAAATTGCGACTTCAGGAAGAAATTACTAAACAGTCTCCAACACTGCAGAGAAATGCTTTGTACATCAAATCTTCTAAGATCAGCCGGCTACCTGCTTACTTAACTATTCAAATGGTTCGATTTTTTTATAAAGAGAAAGAATCTGTGAACGCCAAAGTTCTTAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCCGGCTACCTGCTTACTTA
59.54
AGCTGGGCTTTGAACACCAT
60.18
165
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCCGGCTACCTGCTTACTTA
59.54
GCTGGGCTTTGAACACCATT
59.32
164
PCR template sequence:
CAAATCTTCTAAGATCAGCCGGCTACCTGCTTACTTAACTATTCAAATGGTTCGATTTTTTTATAAAGAGAAAGAATCTGTGAACGCCAAAGTTCTTAAGTTACAGTAAAATGGGGAAAGGAGAAGTTTGAAGGTGTAGAATTGAATACTGATGAACCTCCAATGGTGTTCAAAGCCCAGCTTTTTGCATTGACTGGAGT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
13
Interacting miRNAs (#binding sites)
mmu-miR-9-5p(1), mmu-miR-375-3p(1), mmu-miR-135a-5p(1), mmu-miR-320-3p(1), mmu-miR-138-5p(1), mmu-miR-136-5p(1), mmu-miR-127-5p(1), mmu-miR-411-3p(1), mmu-miR-680(1), mmu-miR-207(1), mmu-miR-335-3p(1), mmu-miR-338-3p(1), mmu-miR-7a-1-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CAAAGTTCTTAAGTTACAGTAAAATG
siRNA sets
ATTTTACTGTAACTTAAGA, TTTACTGTAACTTAAGAAC, TTACTGTAACTTAAGAACT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCUSP14_1019_ORF_1
0.9266
0.093504012
0.977809975
966
ORF sequence:
ATGGTGTTCAAAGCCCAGCTTTTTGCATTGACTGGAGTCCAGCCAGCCAGACAAAAAGTTATGGTGAAAGGAGGAACCCTGAAGGATGATGACTGGGGAAACATCAAAATGAAAAATGGAATGACTGTACTAATGATGGGGTCAGCAGATGCTCTTCCAGAAGAACCCTCTGCTAAAACTGTCTTCGTAGAAGACATGACAGAAGAACAGTTAGCAACCGCTATGGAATTGCCATGTGGATTGACAAACCTTGGTAACACTTGTTACATGAATGCTACAGTTCAGTGTATTCGTTCTGTGCCTGAACTCAAAGATGCCCTTAAAAGGTATGCAGGTGCGTTGAGAGCTTCAGGAGAAATGGCTTCAGCACAGTATATTACTGCAGCTCTTAGAGATTTGTTTGATTCCATGGATAAAACTTCTTCTAGTATCCCACCTATTATTCTGCTGCAGTTTCTGCACATGGCCTTTCCACAGTTTGCAGAGAAGGGCGAACAAGGGCAGTATCTTCAGCAGGATGCTAACGAATGCTGGATACAAATGATGAGAGTCCTGCAACAGAAACTAGAAGCCATAGAGGATGATTCTGGTAGAGAGACGGATTCTTCATCTGCACCAGCGGTGACACCTTCTAAAAAGAAAAGCTTAATTGATCAATATTTTGGTGTTGAGTTTGAAACTACCATGAAATGTACAGAATCTGAAGAAGAAGAGGTCACCAAAGGAAAGGAAAATCAACTTCAACTTAGTTGTTTCATTAACCAGGAAGTGAAGTATCTTTTCACAGGGCTGAAATTGCGACTTCAGGAAGAAATTACTAAACAGTCTCCAACACTGCAGAGAAATGCTTTGTACATCAAATCTTCTAAGATCAGCCGGCTACCTGCTTACTTAACTATTCAAATGGTTCGATTTTTTTATAAAGAGAAAGAATCTGTGAACGCCAAAGTTCTTAAGTTACAGTAA
Peptide sequence:
MVFKAQLFALTGVQPARQKVMVKGGTLKDDDWGNIKMKNGMTVLMMGSADALPEEPSAKTVFVEDMTEEQLATAMELPCGLTNLGNTCYMNATVQCIRSVPELKDALKRYAGALRASGEMASAQYITAALRDLFDSMDKTSSSIPPIILLQFLHMAFPQFAEKGEQGQYLQQDANECWIQMMRVLQQKLEAIEDDSGRETDSSSAPAVTPSKKKSLIDQYFGVEFETTMKCTESEEEEVTKGKENQLQLSCFINQEVKYLFTGLKLRLQEEITKQSPTLQRNALYIKSSKISRLPAYLTIQMVRFFYKEKESVNAKVLKLQ
IRESfinder result
IRESfinder score
0.590790325
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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