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mmu_circSpag9_1030
Basic information of circular RNA
PanCircBase ID:
mmu_circSpag9_1030
mm39_Chr. Position ID:
chr11|93983640|93992984|+
Gene name:
Spag9
Transcript:
ENSMUST00000041956.14
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
17,18,19,20,21,22,23
Exon/intron offsets:
0,672,4403,4866,6212,7292,9276
Genomic length:
9344
Exon/intron sizes in nt:
168,172,219,196,126,81,68
Flanking exon/introns:
chr11:93983253-93983640|chr11:93992984-93997459
Splice length:
1030
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
CTGTGGTGTGCTGTAGGAGTCAATTTATCTGGTGGCAAGACAAGAGATGGCGGGTCTGTTGTTGGAGCGAGTGTATTTTACAAGGATATTGCTGGTTTGGACACTGAAGGCAGTAAACAGCGGAGTGCGTCTCAGAGTAGTTTAGACAAGTTGGATCAAGAACTCAAGGAACAGCAGAAAGAATTTAAAAATCAAGAAGAGTTGTCCAGTCAGGTCTGGATCTGTACCAGCACCCACTCAACTACAAAGGTTATCATCATTGATGCTGTTCAGCCTGGCAACATCCTAGATAGTTTCACTGTTTGCAATTCTCATGTTCTGTGCATTGCCAGTGTCCCAGGAGCTCGGGAAACAGACTACCCTGCAGGAGAAGAACTTTCTGAATCTGGTCAGGTAGACAAAGCGTCATTGTGTGGAAGCATGACCAGTAACAGCTCCGCAGAGATGGACAGCTTGCTGGGAGGCATCACAGTGGTTGGGTGCTCCACAGAAGGACTGACAGGAGCTGCCACTTCCCCAAGTACCAACGGTGCTTCTCCTGTGATTGAAAAGCCACCAGAAATGGAAACTGAAAATAGCGAAGTTGATGAAAATATTCCAACAGCAGAAGAAGCAACTGAAGCCACAGAGGGCAATGCAGGGTCCACTGAAGACACTGTGGACATCTCCCAGCCTGGCGTGTACACAGAGCATGTGTTTACAGATCCACTGGGAGTTCAGATCCCAGAAGACCTCTCCCCAGTGTTTCAGTCAAGTAATGACTCAGATGTGTACAAAGATCAAATATCAGTATTGCCAAATGAACAAGACCTTGCGAGAGAAGAAGCTCAGAAAATGAGTAGTCTTTTACCAACCATGTGGCTTGGAGCTCAGAATGGCTGTTTGTATGTCCACTCATCTGTAGCCCAGTGGAGGAAATGTCTCCATTCCATTAAGCTCAAAGACTCAATTCTCAGTATTGTACATGTGAAAGGAATTGTACTAGTGGCCCTGGCGGATGGCACCCTTGCAATCTTCCACAGAGGAGTTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ATTGTACTAGTGGCCCTGGC
59.45
TCCTTGTAAAATACACTCGCTCCA
60.02
141
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ATTGTACTAGTGGCCCTGGC
59.45
CCTTGTAAAATACACTCGCTCCA
58.75
140
PCR template sequence:
ATTAAGCTCAAAGACTCAATTCTCAGTATTGTACATGTGAAAGGAATTGTACTAGTGGCCCTGGCGGATGGCACCCTTGCAATCTTCCACAGAGGAGTTGCTGTGGTGTGCTGTAGGAGTCAATTTATCTGGTGGCAAGACAAGAGATGGCGGGTCTGTTGTTGGAGCGAGTGTATTTTACAAGGATATTGCTGGTTTGG
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-182-5p(2), mmu-miR-199a-5p(1), mmu-miR-362-5p(1), mmu-miR-207(1), mmu-miR-335-3p(1), mmu-miR-1904(1), mmu-miR-338-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CACAGAGGAGTTGCTGTGGTGTGCTG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCSPAG9_1030_ORF_1
1.0239
0.145309276
0.992390239
1062
ORF sequence:
ATGGCACCCTTGCAATCTTCCACAGAGGAGTTGCTGTGGTGTGCTGTAGGAGTCAATTTATCTGGTGGCAAGACAAGAGATGGCGGGTCTGTTGTTGGAGCGAGTGTATTTTACAAGGATATTGCTGGTTTGGACACTGAAGGCAGTAAACAGCGGAGTGCGTCTCAGAGTAGTTTAGACAAGTTGGATCAAGAACTCAAGGAACAGCAGAAAGAATTTAAAAATCAAGAAGAGTTGTCCAGTCAGGTCTGGATCTGTACCAGCACCCACTCAACTACAAAGGTTATCATCATTGATGCTGTTCAGCCTGGCAACATCCTAGATAGTTTCACTGTTTGCAATTCTCATGTTCTGTGCATTGCCAGTGTCCCAGGAGCTCGGGAAACAGACTACCCTGCAGGAGAAGAACTTTCTGAATCTGGTCAGGTAGACAAAGCGTCATTGTGTGGAAGCATGACCAGTAACAGCTCCGCAGAGATGGACAGCTTGCTGGGAGGCATCACAGTGGTTGGGTGCTCCACAGAAGGACTGACAGGAGCTGCCACTTCCCCAAGTACCAACGGTGCTTCTCCTGTGATTGAAAAGCCACCAGAAATGGAAACTGAAAATAGCGAAGTTGATGAAAATATTCCAACAGCAGAAGAAGCAACTGAAGCCACAGAGGGCAATGCAGGGTCCACTGAAGACACTGTGGACATCTCCCAGCCTGGCGTGTACACAGAGCATGTGTTTACAGATCCACTGGGAGTTCAGATCCCAGAAGACCTCTCCCCAGTGTTTCAGTCAAGTAATGACTCAGATGTGTACAAAGATCAAATATCAGTATTGCCAAATGAACAAGACCTTGCGAGAGAAGAAGCTCAGAAAATGAGTAGTCTTTTACCAACCATGTGGCTTGGAGCTCAGAATGGCTGTTTGTATGTCCACTCATCTGTAGCCCAGTGGAGGAAATGTCTCCATTCCATTAAGCTCAAAGACTCAATTCTCAGTATTGTACATGTGAAAGGAATTGTACTAGTGGCCCTGGCGGATGGCACCCTTGCAATCTTCCACAGAGGAGTT
Peptide sequence:
MAPLQSSTEELLWCAVGVNLSGGKTRDGGSVVGASVFYKDIAGLDTEGSKQRSASQSSLDKLDQELKEQQKEFKNQEELSSQVWICTSTHSTTKVIIIDAVQPGNILDSFTVCNSHVLCIASVPGARETDYPAGEELSESGQVDKASLCGSMTSNSSAEMDSLLGGITVVGCSTEGLTGAATSPSTNGASPVIEKPPEMETENSEVDENIPTAEEATEATEGNAGSTEDTVDISQPGVYTEHVFTDPLGVQIPEDLSPVFQSSNDSDVYKDQISVLPNEQDLAREEAQKMSSLLPTMWLGAQNGCLYVHSSVAQWRKCLHSIKLKDSILSIVHVKGIVLVALADGTLAIFHRGV
IRESfinder result
IRESfinder score
0.583018312
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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