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mmu_circSpag9_1452
Basic information of circular RNA
PanCircBase ID:
mmu_circSpag9_1452
mm39_Chr. Position ID:
chr11|93988043|94007705|+
Gene name:
Spag9
Transcript:
ENSMUST00000041956.14
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
10
Exon/intron indexes:
19,20,21,22,23,24,25,26,27,28
Exon/intron offsets:
0,463,1809,2889,4873,9416,11237,14815,16955,19512
Genomic length:
19662
Exon/intron sizes in nt:
2,19,19,61,26,81,68,14,00,00,00,00,00,000
Flanking exon/introns:
chr11:93984484-93988043|chr11:94007705-94013547
Splice length:
1452
Other database IDs:
CIRCpedia: MMU_CIRCpedia_223657, circAtlas: mmu-Spag9_0030
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_21362
Human Ortholog IDs:
Mature spliced Sequence:
GAGCTCGGGAAACAGACTACCCTGCAGGAGAAGAACTTTCTGAATCTGGTCAGGTAGACAAAGCGTCATTGTGTGGAAGCATGACCAGTAACAGCTCCGCAGAGATGGACAGCTTGCTGGGAGGCATCACAGTGGTTGGGTGCTCCACAGAAGGACTGACAGGAGCTGCCACTTCCCCAAGTACCAACGGTGCTTCTCCTGTGATTGAAAAGCCACCAGAAATGGAAACTGAAAATAGCGAAGTTGATGAAAATATTCCAACAGCAGAAGAAGCAACTGAAGCCACAGAGGGCAATGCAGGGTCCACTGAAGACACTGTGGACATCTCCCAGCCTGGCGTGTACACAGAGCATGTGTTTACAGATCCACTGGGAGTTCAGATCCCAGAAGACCTCTCCCCAGTGTTTCAGTCAAGTAATGACTCAGATGTGTACAAAGATCAAATATCAGTATTGCCAAATGAACAAGACCTTGCGAGAGAAGAAGCTCAGAAAATGAGTAGTCTTTTACCAACCATGTGGCTTGGAGCTCAGAATGGCTGTTTGTATGTCCACTCATCTGTAGCCCAGTGGAGGAAATGTCTCCATTCCATTAAGCTCAAAGACTCAATTCTCAGTATTGTACATGTGAAAGGAATTGTACTAGTGGCCCTGGCGGATGGCACCCTTGCAATCTTCCACAGAGGAGTTGATGGACAATGGGATCTGTCAAACTATCACCTTTTAGACCTTGGACGTCCTCATCATTCCATACGATGCATGACTGTGGTACATGACAAAGTCTGGTGTGGCTATAGGAACAAAATCTATGTGGTTCAACCAAAGGCTATGAAGATAGAGAAATCATTTGATGCACACCCCAGGAAGGAGAGCCAAGTACGGCAGCTTGCATGGGTGGGTGATGGTGTATGGGTCTCCATTCGTTTGGATTCCACGCTCCGCCTCTATCATGCACACACATACCAACATCTCCAGGATGTGGATATTGAGCCTTATGTAAGCAAAATGTTAGGTACTGGAAAACTGGGTTTCTCTTTCGTGAGGATAACAGCTCTTATGGTGTCTTGCAATCGTTTGTGGGTGGGGACTGGAAATGGTGTCATTATCTCCATCCCACTGACAGAAACAAATAAAACCTCAGGGACTCCAGGTAACCGTCCTGGAAGTGTAATCCGTGTATATGGTGATGAGAACAGTGATAAAGTGACTCCAGGGACATTTATACCCTACTGTTCAATGGCACATGCACAGCTTTGTTTCCACGGGCACCGGGATGCTGTGAAATTCTTTGTGGCAGTCCCAGGTCAGGTCATTAGCCCACAAAGTAGCAGTGGTGGGGCAGATCTTACAGCTGACAAGGCAGGGTCATCTGCACAGGAGCCCAGTAGCCAGACGCCCTTGAAGTCCATGCTTGTCATCAGTGGAGGAGAGGGCTACATTGACTTCCGGATGG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGACGCCCTTGAAGTCCATG
60.04
ACTGGTCATGCTTCCACACA
59.53
152
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CAGACGCCCTTGAAGTCCAT
60.04
ACTGGTCATGCTTCCACACA
59.53
153
PCR template sequence:
GACAAGGCAGGGTCATCTGCACAGGAGCCCAGTAGCCAGACGCCCTTGAAGTCCATGCTTGTCATCAGTGGAGGAGAGGGCTACATTGACTTCCGGATGGGAGCTCGGGAAACAGACTACCCTGCAGGAGAAGAACTTTCTGAATCTGGTCAGGTAGACAAAGCGTCATTGTGTGGAAGCATGACCAGTAACAGCTCCGC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
14
Interacting miRNAs (#binding sites)
mmu-miR-9-5p(1), mmu-miR-328-3p(1), mmu-miR-434-3p(1), mmu-miR-351-5p(1), mmu-miR-182-5p(1), mmu-miR-425-5p(1), mmu-miR-466a-5p(1), mmu-miR-1187(1), mmu-miR-466p-5p(1), mmu-miR-207(1), mmu-miR-673-5p(1), mmu-miR-335-3p(1), mmu-miR-670-5p(1), mmu-miR-697(1)
siRNAs for circular RNA silencing
Junction sequence
GACTTCCGGATGGGAGCTCGGGAAAC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCSPAG9_1452_ORF_1
0.954
0.120125826
0.99999997
2823
ORF sequence:
ATGACCAGTAACAGCTCCGCAGAGATGGACAGCTTGCTGGGAGGCATCACAGTGGTTGGGTGCTCCACAGAAGGACTGACAGGAGCTGCCACTTCCCCAAGTACCAACGGTGCTTCTCCTGTGATTGAAAAGCCACCAGAAATGGAAACTGAAAATAGCGAAGTTGATGAAAATATTCCAACAGCAGAAGAAGCAACTGAAGCCACAGAGGGCAATGCAGGGTCCACTGAAGACACTGTGGACATCTCCCAGCCTGGCGTGTACACAGAGCATGTGTTTACAGATCCACTGGGAGTTCAGATCCCAGAAGACCTCTCCCCAGTGTTTCAGTCAAGTAATGACTCAGATGTGTACAAAGATCAAATATCAGTATTGCCAAATGAACAAGACCTTGCGAGAGAAGAAGCTCAGAAAATGAGTAGTCTTTTACCAACCATGTGGCTTGGAGCTCAGAATGGCTGTTTGTATGTCCACTCATCTGTAGCCCAGTGGAGGAAATGTCTCCATTCCATTAAGCTCAAAGACTCAATTCTCAGTATTGTACATGTGAAAGGAATTGTACTAGTGGCCCTGGCGGATGGCACCCTTGCAATCTTCCACAGAGGAGTTGATGGACAATGGGATCTGTCAAACTATCACCTTTTAGACCTTGGACGTCCTCATCATTCCATACGATGCATGACTGTGGTACATGACAAAGTCTGGTGTGGCTATAGGAACAAAATCTATGTGGTTCAACCAAAGGCTATGAAGATAGAGAAATCATTTGATGCACACCCCAGGAAGGAGAGCCAAGTACGGCAGCTTGCATGGGTGGGTGATGGTGTATGGGTCTCCATTCGTTTGGATTCCACGCTCCGCCTCTATCATGCACACACATACCAACATCTCCAGGATGTGGATATTGAGCCTTATGTAAGCAAAATGTTAGGTACTGGAAAACTGGGTTTCTCTTTCGTGAGGATAACAGCTCTTATGGTGTCTTGCAATCGTTTGTGGGTGGGGACTGGAAATGGTGTCATTATCTCCATCCCACTGACAGAAACAAATAAAACCTCAGGGACTCCAGGTAACCGTCCTGGAAGTGTAATCCGTGTATATGGTGATGAGAACAGTGATAAAGTGACTCCAGGGACATTTATACCCTACTGTTCAATGGCACATGCACAGCTTTGTTTCCACGGGCACCGGGATGCTGTGAAATTCTTTGTGGCAGTCCCAGGTCAGGTCATTAGCCCACAAAGTAGCAGTGGTGGGGCAGATCTTACAGCTGACAAGGCAGGGTCATCTGCACAGGAGCCCAGTAGCCAGACGCCCTTGAAGTCCATGCTTGTCATCAGTGGAGGAGAGGGCTACATTGACTTCCGGATGGGAGCTCGGGAAACAGACTACCCTGCAGGAGAAGAACTTTCTGAATCTGGTCAGGTAGACAAAGCGTCATTGTGTGGAAGCATGACCAGTAACAGCTCCGCAGAGATGGACAGCTTGCTGGGAGGCATCACAGTGGTTGGGTGCTCCACAGAAGGACTGACAGGAGCTGCCACTTCCCCAAGTACCAACGGTGCTTCTCCTGTGATTGAAAAGCCACCAGAAATGGAAACTGAAAATAGCGAAGTTGATGAAAATATTCCAACAGCAGAAGAAGCAACTGAAGCCACAGAGGGCAATGCAGGGTCCACTGAAGACACTGTGGACATCTCCCAGCCTGGCGTGTACACAGAGCATGTGTTTACAGATCCACTGGGAGTTCAGATCCCAGAAGACCTCTCCCCAGTGTTTCAGTCAAGTAATGACTCAGATGTGTACAAAGATCAAATATCAGTATTGCCAAATGAACAAGACCTTGCGAGAGAAGAAGCTCAGAAAATGAGTAGTCTTTTACCAACCATGTGGCTTGGAGCTCAGAATGGCTGTTTGTATGTCCACTCATCTGTAGCCCAGTGGAGGAAATGTCTCCATTCCATTAAGCTCAAAGACTCAATTCTCAGTATTGTACATGTGAAAGGAATTGTACTAGTGGCCCTGGCGGATGGCACCCTTGCAATCTTCCACAGAGGAGTTGATGGACAATGGGATCTGTCAAACTATCACCTTTTAGACCTTGGACGTCCTCATCATTCCATACGATGCATGACTGTGGTACATGACAAAGTCTGGTGTGGCTATAGGAACAAAATCTATGTGGTTCAACCAAAGGCTATGAAGATAGAGAAATCATTTGATGCACACCCCAGGAAGGAGAGCCAAGTACGGCAGCTTGCATGGGTGGGTGATGGTGTATGGGTCTCCATTCGTTTGGATTCCACGCTCCGCCTCTATCATGCACACACATACCAACATCTCCAGGATGTGGATATTGAGCCTTATGTAAGCAAAATGTTAGGTACTGGAAAACTGGGTTTCTCTTTCGTGAGGATAACAGCTCTTATGGTGTCTTGCAATCGTTTGTGGGTGGGGACTGGAAATGGTGTCATTATCTCCATCCCACTGACAGAAACAAATAAAACCTCAGGGACTCCAGGTAACCGTCCTGGAAGTGTAATCCGTGTATATGGTGATGAGAACAGTGATAAAGTGACTCCAGGGACATTTATACCCTACTGTTCAATGGCACATGCACAGCTTTGTTTCCACGGGCACCGGGATGCTGTGAAATTCTTTGTGGCAGTCCCAGGTCAGGTCATTAGCCCACAAAGTAGCAGTGGTGGGGCAGATCTTACAGCTGACAAGGCAGGGTCATCTGCACAGGAGCCCAGTAGCCAGACGCCCTTGAAGTCCATGCTTGTCATCAGTGGAGGAGAGGGCTACATTGACTTCCGGATG
Peptide sequence:
MTSNSSAEMDSLLGGITVVGCSTEGLTGAATSPSTNGASPVIEKPPEMETENSEVDENIPTAEEATEATEGNAGSTEDTVDISQPGVYTEHVFTDPLGVQIPEDLSPVFQSSNDSDVYKDQISVLPNEQDLAREEAQKMSSLLPTMWLGAQNGCLYVHSSVAQWRKCLHSIKLKDSILSIVHVKGIVLVALADGTLAIFHRGVDGQWDLSNYHLLDLGRPHHSIRCMTVVHDKVWCGYRNKIYVVQPKAMKIEKSFDAHPRKESQVRQLAWVGDGVWVSIRLDSTLRLYHAHTYQHLQDVDIEPYVSKMLGTGKLGFSFVRITALMVSCNRLWVGTGNGVIISIPLTETNKTSGTPGNRPGSVIRVYGDENSDKVTPGTFIPYCSMAHAQLCFHGHRDAVKFFVAVPGQVISPQSSSGGADLTADKAGSSAQEPSSQTPLKSMLVISGGEGYIDFRMGARETDYPAGEELSESGQVDKASLCGSMTSNSSAEMDSLLGGITVVGCSTEGLTGAATSPSTNGASPVIEKPPEMETENSEVDENIPTAEEATEATEGNAGSTEDTVDISQPGVYTEHVFTDPLGVQIPEDLSPVFQSSNDSDVYKDQISVLPNEQDLAREEAQKMSSLLPTMWLGAQNGCLYVHSSVAQWRKCLHSIKLKDSILSIVHVKGIVLVALADGTLAIFHRGVDGQWDLSNYHLLDLGRPHHSIRCMTVVHDKVWCGYRNKIYVVQPKAMKIEKSFDAHPRKESQVRQLAWVGDGVWVSIRLDSTLRLYHAHTYQHLQDVDIEPYVSKMLGTGKLGFSFVRITALMVSCNRLWVGTGNGVIISIPLTETNKTSGTPGNRPGSVIRVYGDENSDKVTPGTFIPYCSMAHAQLCFHGHRDAVKFFVAVPGQVISPQSSSGGADLTADKAGSSAQEPSSQTPLKSMLVISGGEGYIDFRM
IRESfinder result
IRESfinder score
0.555337808
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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