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mmu_circSenp2_486
Basic information of circular RNA
PanCircBase ID:
mmu_circSenp2_486
mm39_Chr. Position ID:
chr16|21845388|21855396|+
Gene name:
Senp2
Transcript:
ENSMUST00000023561.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
7,8,9,10,11
Exon/intron offsets:
0,1330,1902,5465,9831
Genomic length:
10008
Exon/intron sizes in nt:
1,01,95,52,61,177
Flanking exon/introns:
chr16:21842558-21845388|chr16:21855396-21857286
Splice length:
486
Other database IDs:
CIRCpedia: MMU_CIRCpedia_228549, circAtlas: mmu-Senp2_0014
circAtlas: hsa-SCAF8_0001
Human Ortholog IDs:
Mature spliced Sequence:
GGTGTCCAAAAGGATGAAAGAGAAAAGTATCGAAAGTTATTGGAGCGACTTAAAGAAGGTGCTCATGGAAGCACGTTCCCTCCCACGGTTTCACACCACAGTTCTCAGAGAATTCAGATGGACACATTAAAGACCAAAGGCTGGGTGGAGGAGCAGAATCATGGCGTCAGAACAACCCATTTTGTTCCAAAACAGTATAGAGTTGTTGAAACAAGAGGACCTCTCTGTTCAATGAGAAGTGAAAAGAGGTATTCAAAAGGGAAAGCTGATACAGAGAAGGTGGTGGGACTCCGATTTGAAAAGGAAGGTACAAGAGGACACCAAATGGAGCCTGATCTGTCAGAAGAAGTGTCTGCCCGACTTCGTCTAGGAAGTGGAAGCAATGGCTTACTCAGAAGGAAAATATCAGTGCTTGAGATAAAGGAAAAGAACTTCCCGAGCAAAGAGAAGGACAGAAGAACGGAAGACCTCTTTGAATTTACAGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCCGAGCAAAGAGAAGGACA
59.68
GTGAAACCGTGGGAGGGAAC
60.89
146
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCCCGAGCAAAGAGAAGGAC
59.39
GTGAAACCGTGGGAGGGAAC
60.89
147
PCR template sequence:
CTTACTCAGAAGGAAAATATCAGTGCTTGAGATAAAGGAAAAGAACTTCCCGAGCAAAGAGAAGGACAGAAGAACGGAAGACCTCTTTGAATTTACAGAGGGTGTCCAAAAGGATGAAAGAGAAAAGTATCGAAAGTTATTGGAGCGACTTAAAGAAGGTGCTCATGGAAGCACGTTCCCTCCCACGGTTTCACACCACA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
6
Interacting miRNAs (#binding sites)
mmu-miR-9-5p(1), mmu-miR-211-5p(1), mmu-miR-136-5p(1), mmu-miR-705(1), mmu-miR-384-3p(1), mmu-miR-1904(1)
siRNAs for circular RNA silencing
Junction sequence
TGAATTTACAGAGGGTGTCCAAAAGG
siRNA sets
TTTTGGACACCCTCTGTAA, TTTGGACACCCTCTGTAAA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCSENP2_486_ORF_1
0.6895
0.109961805
0.933137333
855
ORF sequence:
ATGGACACATTAAAGACCAAAGGCTGGGTGGAGGAGCAGAATCATGGCGTCAGAACAACCCATTTTGTTCCAAAACAGTATAGAGTTGTTGAAACAAGAGGACCTCTCTGTTCAATGAGAAGTGAAAAGAGGTATTCAAAAGGGAAAGCTGATACAGAGAAGGTGGTGGGACTCCGATTTGAAAAGGAAGGTACAAGAGGACACCAAATGGAGCCTGATCTGTCAGAAGAAGTGTCTGCCCGACTTCGTCTAGGAAGTGGAAGCAATGGCTTACTCAGAAGGAAAATATCAGTGCTTGAGATAAAGGAAAAGAACTTCCCGAGCAAAGAGAAGGACAGAAGAACGGAAGACCTCTTTGAATTTACAGAGGGTGTCCAAAAGGATGAAAGAGAAAAGTATCGAAAGTTATTGGAGCGACTTAAAGAAGGTGCTCATGGAAGCACGTTCCCTCCCACGGTTTCACACCACAGTTCTCAGAGAATTCAGATGGACACATTAAAGACCAAAGGCTGGGTGGAGGAGCAGAATCATGGCGTCAGAACAACCCATTTTGTTCCAAAACAGTATAGAGTTGTTGAAACAAGAGGACCTCTCTGTTCAATGAGAAGTGAAAAGAGGTATTCAAAAGGGAAAGCTGATACAGAGAAGGTGGTGGGACTCCGATTTGAAAAGGAAGGTACAAGAGGACACCAAATGGAGCCTGATCTGTCAGAAGAAGTGTCTGCCCGACTTCGTCTAGGAAGTGGAAGCAATGGCTTACTCAGAAGGAAAATATCAGTGCTTGAGATAAAGGAAAAGAACTTCCCGAGCAAAGAGAAGGACAGAAGAACGGAAGACCTCTTTGAATTTACAGAG
Peptide sequence:
MDTLKTKGWVEEQNHGVRTTHFVPKQYRVVETRGPLCSMRSEKRYSKGKADTEKVVGLRFEKEGTRGHQMEPDLSEEVSARLRLGSGSNGLLRRKISVLEIKEKNFPSKEKDRRTEDLFEFTEGVQKDEREKYRKLLERLKEGAHGSTFPPTVSHHSSQRIQMDTLKTKGWVEEQNHGVRTTHFVPKQYRVVETRGPLCSMRSEKRYSKGKADTEKVVGLRFEKEGTRGHQMEPDLSEEVSARLRLGSGSNGLLRRKISVLEIKEKNFPSKEKDRRTEDLFEFTE
IRESfinder result
IRESfinder score
0.522493325
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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