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mmu_circUsp37_987
Basic information of circular RNA
PanCircBase ID:
mmu_circUsp37_987
mm39_Chr. Position ID:
chr1|74506073|74518908|-
Gene name:
Usp37
Transcript:
ENSMUST00000044260.11
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
8
Exon/intron indexes:
15,14,13,12,11,10,9,8
Exon/intron offsets:
0,1352,3622,4381,4640,8071,11132,12737
Genomic length:
12835
Exon/intron sizes in nt:
80,118,191,124,132,159,85,98
Flanking exon/introns:
chr1:74500889-74506073|chr1:74518908-74525139
Splice length:
987
Other database IDs:
circAtlas: mmu-Usp37_0010
circAtlas: hsa-SCAF8_0001
Human Ortholog IDs:
Mature spliced Sequence:
GAACAACAAAGCTATGACAGACCCTTCAAGAAAATATTTAACCAGCTGTAGAGAAAAGCAGCTGAGTTTGAAACAGGCAGAAGAAAATCGAACATCAGGGCTTTTACCTCTGCAGTCATCCTCATTCTATGGGAGCAGAGCTGGATCAAAGGACTACTCTTCTGGTGTCACTAACCTGGACAGGTGTAATGTTTCAAGCCAGACTCCTTCTGCCAAAAGAAGCCTGGGGTTTCTTCCTCAGCCAACTCCTCTGTCTGTTAAAAAACTGAGGTGTAACCAGGATTACGCGGGCTGGAACAGACCTAGAGTGCCCCTTTCCTCCCATCAACAGCAGCTGCAGGGATTCTCCAACTTGGGAAATACATGCTATATGAATGCTATCTTACAATCTCTGTTTTCACTCCAGTCATTTGCAAATGATTTGCTTAAACAAAGTATCCCATGGAAGAAAATTCCATTCAATGCACTTATCAGACGCTTTGCAAACCTGCTTATTAAAAAAGATATTTGTAATTCAGAGACCAAAAAAGAACTACTTAAGAAGGTTAAAAATGCTATTTCAGCTACTGCAGAGAGATTCTCTGGCTATGTCCAAAATGATGCTCATGAATTTTTAAGTCAGTGCTTAGATCAGCTAAAGGAGGATATGGAAAAACTGAATAAAACTTGGAAGACAGAACCTGTCCTTGGAGAAGAAAATTTGCCAGATACATCAGCTACCAAAGTGTTCACGTGCCCTGTTATTACAAACTTGGAGTTTGAAGTTCAGCACTCCATTATCTGTAAAGCATGTGGAGAAACTATTCCCAAAAGAGAACAGTTCAATGACCTCTCCATTGACCTTCCTCGGAGGAAAAAGCCACTCCCTCCTCGTTCAATCCAAGATTCTCTCGATCTTTTCTTTAGGGCAGAAGAACTTGAATACTCATGTGAAAAGTGTGGTGGAAAATGTGCTCTTGTCAGGCACAAATTTAACAGGCTGCCCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACTCATGTGAAAAGTGTGGTGG
59.05
GCCTGTTTCAAACTCAGCTGC
60.6
142
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACTCATGTGAAAAGTGTGGTGG
59.05
TGCCTGTTTCAAACTCAGCTG
59.32
143
PCR template sequence:
CTCTCGATCTTTTCTTTAGGGCAGAAGAACTTGAATACTCATGTGAAAAGTGTGGTGGAAAATGTGCTCTTGTCAGGCACAAATTTAACAGGCTGCCCAGGAACAACAAAGCTATGACAGACCCTTCAAGAAAATATTTAACCAGCTGTAGAGAAAAGCAGCTGAGTTTGAAACAGGCAGAAGAAAATCGAACATCAGGG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
10
Interacting miRNAs (#binding sites)
mmu-miR-9-5p(1), mmu-miR-135a-5p(1), mmu-miR-92a-3p(1), mmu-miR-33-5p(1), mmu-miR-298-5p(1), mmu-miR-25-3p(1), mmu-miR-494-3p(1), mmu-miR-467b-5p(1), mmu-miR-1904(1), mmu-miR-323-3p(1)
siRNAs for circular RNA silencing
Junction sequence
ACAGGCTGCCCAGGAACAACAAAGCT
siRNA sets
TTGTTCCTGGGCAGCCTGT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCUSP37_987_ORF_1
0.5843
-0.024387534
0.999946426
1959
ORF sequence:
ATGACAGACCCTTCAAGAAAATATTTAACCAGCTGTAGAGAAAAGCAGCTGAGTTTGAAACAGGCAGAAGAAAATCGAACATCAGGGCTTTTACCTCTGCAGTCATCCTCATTCTATGGGAGCAGAGCTGGATCAAAGGACTACTCTTCTGGTGTCACTAACCTGGACAGGTGTAATGTTTCAAGCCAGACTCCTTCTGCCAAAAGAAGCCTGGGGTTTCTTCCTCAGCCAACTCCTCTGTCTGTTAAAAAACTGAGGTGTAACCAGGATTACGCGGGCTGGAACAGACCTAGAGTGCCCCTTTCCTCCCATCAACAGCAGCTGCAGGGATTCTCCAACTTGGGAAATACATGCTATATGAATGCTATCTTACAATCTCTGTTTTCACTCCAGTCATTTGCAAATGATTTGCTTAAACAAAGTATCCCATGGAAGAAAATTCCATTCAATGCACTTATCAGACGCTTTGCAAACCTGCTTATTAAAAAAGATATTTGTAATTCAGAGACCAAAAAAGAACTACTTAAGAAGGTTAAAAATGCTATTTCAGCTACTGCAGAGAGATTCTCTGGCTATGTCCAAAATGATGCTCATGAATTTTTAAGTCAGTGCTTAGATCAGCTAAAGGAGGATATGGAAAAACTGAATAAAACTTGGAAGACAGAACCTGTCCTTGGAGAAGAAAATTTGCCAGATACATCAGCTACCAAAGTGTTCACGTGCCCTGTTATTACAAACTTGGAGTTTGAAGTTCAGCACTCCATTATCTGTAAAGCATGTGGAGAAACTATTCCCAAAAGAGAACAGTTCAATGACCTCTCCATTGACCTTCCTCGGAGGAAAAAGCCACTCCCTCCTCGTTCAATCCAAGATTCTCTCGATCTTTTCTTTAGGGCAGAAGAACTTGAATACTCATGTGAAAAGTGTGGTGGAAAATGTGCTCTTGTCAGGCACAAATTTAACAGGCTGCCCAGGAACAACAAAGCTATGACAGACCCTTCAAGAAAATATTTAACCAGCTGTAGAGAAAAGCAGCTGAGTTTGAAACAGGCAGAAGAAAATCGAACATCAGGGCTTTTACCTCTGCAGTCATCCTCATTCTATGGGAGCAGAGCTGGATCAAAGGACTACTCTTCTGGTGTCACTAACCTGGACAGGTGTAATGTTTCAAGCCAGACTCCTTCTGCCAAAAGAAGCCTGGGGTTTCTTCCTCAGCCAACTCCTCTGTCTGTTAAAAAACTGAGGTGTAACCAGGATTACGCGGGCTGGAACAGACCTAGAGTGCCCCTTTCCTCCCATCAACAGCAGCTGCAGGGATTCTCCAACTTGGGAAATACATGCTATATGAATGCTATCTTACAATCTCTGTTTTCACTCCAGTCATTTGCAAATGATTTGCTTAAACAAAGTATCCCATGGAAGAAAATTCCATTCAATGCACTTATCAGACGCTTTGCAAACCTGCTTATTAAAAAAGATATTTGTAATTCAGAGACCAAAAAAGAACTACTTAAGAAGGTTAAAAATGCTATTTCAGCTACTGCAGAGAGATTCTCTGGCTATGTCCAAAATGATGCTCATGAATTTTTAAGTCAGTGCTTAGATCAGCTAAAGGAGGATATGGAAAAACTGAATAAAACTTGGAAGACAGAACCTGTCCTTGGAGAAGAAAATTTGCCAGATACATCAGCTACCAAAGTGTTCACGTGCCCTGTTATTACAAACTTGGAGTTTGAAGTTCAGCACTCCATTATCTGTAAAGCATGTGGAGAAACTATTCCCAAAAGAGAACAGTTCAATGACCTCTCCATTGACCTTCCTCGGAGGAAAAAGCCACTCCCTCCTCGTTCAATCCAAGATTCTCTCGATCTTTTCTTTAGGGCAGAAGAACTTGAATACTCATGTGAAAAGTGTGGTGGAAAATGTGCTCTTGTCAGGCACAAATTTAACAGGCTGCCC
Peptide sequence:
MTDPSRKYLTSCREKQLSLKQAEENRTSGLLPLQSSSFYGSRAGSKDYSSGVTNLDRCNVSSQTPSAKRSLGFLPQPTPLSVKKLRCNQDYAGWNRPRVPLSSHQQQLQGFSNLGNTCYMNAILQSLFSLQSFANDLLKQSIPWKKIPFNALIRRFANLLIKKDICNSETKKELLKKVKNAISATAERFSGYVQNDAHEFLSQCLDQLKEDMEKLNKTWKTEPVLGEENLPDTSATKVFTCPVITNLEFEVQHSIICKACGETIPKREQFNDLSIDLPRRKKPLPPRSIQDSLDLFFRAEELEYSCEKCGGKCALVRHKFNRLPRNNKAMTDPSRKYLTSCREKQLSLKQAEENRTSGLLPLQSSSFYGSRAGSKDYSSGVTNLDRCNVSSQTPSAKRSLGFLPQPTPLSVKKLRCNQDYAGWNRPRVPLSSHQQQLQGFSNLGNTCYMNAILQSLFSLQSFANDLLKQSIPWKKIPFNALIRRFANLLIKKDICNSETKKELLKKVKNAISATAERFSGYVQNDAHEFLSQCLDQLKEDMEKLNKTWKTEPVLGEENLPDTSATKVFTCPVITNLEFEVQHSIICKACGETIPKREQFNDLSIDLPRRKKPLPPRSIQDSLDLFFRAEELEYSCEKCGGKCALVRHKFNRLP
IRESfinder result
IRESfinder score
0.792463213
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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