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mmu_circMbtd1_1427
Basic information of circular RNA
PanCircBase ID:
mmu_circMbtd1_1427
mm39_Chr. Position ID:
chr11|93795984|93820587|+
Gene name:
Mbtd1
Transcript:
ENSMUST00000107853.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
11
Exon/intron indexes:
2,3,4,5,6,7,8,9,10,11,12
Exon/intron offsets:
0,3645,5124,7217,16208,17987,18632,19266,20508,21063,24455
Genomic length:
24603
Exon/intron sizes in nt:
2,00,13,41,24,83,11,81,00,00,00,00,00,00,000
Flanking exon/introns:
chr11:93776888-93795984|chr11:93820587-93822638
Splice length:
1427
Other database IDs:
CIRCpedia: MMU_CIRCpedia_34647, circAtlas: mmu-Mbtd1_0007
circAtlas: hsa-MBTD1_0009
Human Ortholog IDs:
Mature spliced Sequence:
ACAGAACATTCTTCACAATCCAAAAGAAAAAGCAGACTGGTTCGGGATGTTTGACGGCTATGATAGCTGCAGTGAGGACACAAGTAGCAGCTCCAGCTCTGAGGAGAGTGAAGAAGAAGTTGCTCCTTTACCTTCCAATCTCCCAATCATCAAGAATAATGGACAAGTCTACACATACCCAGATGGTAAATCTGGCATGGCTACCTGTGAGATGTGTGGGATGGTCGGTGTGCGAGATGCTTTTTACTCTAAAACGAAACGTTTCTGCAGTGTTTCCTGTTCAAGAAGTTACTCGTCAAACTCTAAGAAGGCAAGCATTCTGGCCAGACTTCAGGGTAAGCCTCCAACAAAGAAAGCAAAAGTCCTTCAAAAACAACCTTTAGTTGCTAAATTAGCTGCCTATGCCCAGTATCAAGCTACCTTGCAAAATCAAGCAAAGACAAAAGCAGGCAATTCTGCAATCTCTGTGGAAGGCTTCAGCTGGGGTAACTACATCAACAGCAACAGCTTCATAGCAGCTCCAGTGGCCTGTTTTAAGCATGCACCTATGGGGACCTGCTGGGGTGATATCTCGGAAAATGTAAGGATAGAAGTTCCCAATACAGACTGCAGTCTACCTACCAAAGTCTTCTGGATTGCTGGAATTATAAAATTAGCAGGTTATAATGCCCTTTTGAGATATGAAGGATTTGAAAATGATTCTTCTCTGGACTTCTGGTGCAATATATGTGGGTCTGATATTCATCCAGTTGGTTGGTGTGCAGCTAGTGGAAAACCTCTCGTTCCTCCTAGAACTGTTCAACATAAATATACAAACTGGAAAGCTTTTCTAGTAAAAAGACTTACTGGTGCCAAAACACTTCCTCCTGATTTCTCACAAAAGGTTTCTGAGAGTATGCAATATCCTTTCAAACCTTGCATGAGAGTAGAAGTAGTTGACAAGAGGCATTTATGTCGAACAAGAGTAGCAGTGGTGGAAAGTGTAATTGGAGGACGACTACGGCTGGTGTATGAAGAGAGTGAAGATAGAACAGACGACTTCTGGTGCCACATGCACAGCCCCTTAATCCACCATATTGGATGGTCAAGAAGCATAGGCCATCGATTCAAGAGATCAGATATTACGAAGAAACAGGACGGACATTTCGATACACCTCCACACTTATTTGCTAAGGTAAAAGAAGTAGACCAGAGTGGAGAATGGTTCAAAGAAGGAATGAAATTGGAAGCTATAGACCCATTAAATCTTTCTACAATATGTGTTGCCACCATTAGAAAGGTGCTGGCTGATGGATTCCTGATGATTGGGATTGATGGCTCAGAAGCAGCAGATGGATCTGACTGGTTCTGTTATCATGCAACCTCTCCTTCCATTTTCCCTGTGGGTTTCTGTGAAATTAACATGATAGAACTGACTCCACCCAGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCCTTCCATTTTCCCTGTGGG
59.92
CTTGTGTCCTCACTGCAGCT
60.25
146
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCCTTCCATTTTCCCTGTGGG
59.92
GCTGGAGCTGCTACTTGTGT
60.32
159
PCR template sequence:
GCAGATGGATCTGACTGGTTCTGTTATCATGCAACCTCTCCTTCCATTTTCCCTGTGGGTTTCTGTGAAATTAACATGATAGAACTGACTCCACCCAGAGACAGAACATTCTTCACAATCCAAAAGAAAAAGCAGACTGGTTCGGGATGTTTGACGGCTATGATAGCTGCAGTGAGGACACAAGTAGCAGCTCCAGCTCT
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-210-3p(1), mmu-miR-9-5p(1), mmu-miR-200a-3p(1), mmu-miR-223-3p(1), mmu-miR-205-5p(1), mmu-miR-196a-5p(1), mmu-miR-214-3p(1), mmu-miR-136-5p(1), mmu-miR-434-3p(1), mmu-miR-127-3p(1), mmu-miR-363-3p(1), mmu-miR-96-5p(1), mmu-miR-669d-5p(1)
siRNAs for circular RNA silencing
Junction sequence
ACTCCACCCAGAGACAGAACATTCTT
siRNA sets
AATGTTCTGTCTCTGGGTG, AAGAATGTTCTGTCTCTGG, ATGTTCTGTCTCTGGGTGG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCMBTD1_1427_ORF_1
0.6982
-0.000530454
0.999836088
1764
ORF sequence:
ATGTTTGACGGCTATGATAGCTGCAGTGAGGACACAAGTAGCAGCTCCAGCTCTGAGGAGAGTGAAGAAGAAGTTGCTCCTTTACCTTCCAATCTCCCAATCATCAAGAATAATGGACAAGTCTACACATACCCAGATGGTAAATCTGGCATGGCTACCTGTGAGATGTGTGGGATGGTCGGTGTGCGAGATGCTTTTTACTCTAAAACGAAACGTTTCTGCAGTGTTTCCTGTTCAAGAAGTTACTCGTCAAACTCTAAGAAGGCAAGCATTCTGGCCAGACTTCAGGGTAAGCCTCCAACAAAGAAAGCAAAAGTCCTTCAAAAACAACCTTTAGTTGCTAAATTAGCTGCCTATGCCCAGTATCAAGCTACCTTGCAAAATCAAGCAAAGACAAAAGCAGGCAATTCTGCAATCTCTGTGGAAGGCTTCAGCTGGGGTAACTACATCAACAGCAACAGCTTCATAGCAGCTCCAGTGGCCTGTTTTAAGCATGCACCTATGGGGACCTGCTGGGGTGATATCTCGGAAAATGTAAGGATAGAAGTTCCCAATACAGACTGCAGTCTACCTACCAAAGTCTTCTGGATTGCTGGAATTATAAAATTAGCAGGTTATAATGCCCTTTTGAGATATGAAGGATTTGAAAATGATTCTTCTCTGGACTTCTGGTGCAATATATGTGGGTCTGATATTCATCCAGTTGGTTGGTGTGCAGCTAGTGGAAAACCTCTCGTTCCTCCTAGAACTGTTCAACATAAATATACAAACTGGAAAGCTTTTCTAGTAAAAAGACTTACTGGTGCCAAAACACTTCCTCCTGATTTCTCACAAAAGGTTTCTGAGAGTATGCAATATCCTTTCAAACCTTGCATGAGAGTAGAAGTAGTTGACAAGAGGCATTTATGTCGAACAAGAGTAGCAGTGGTGGAAAGTGTAATTGGAGGACGACTACGGCTGGTGTATGAAGAGAGTGAAGATAGAACAGACGACTTCTGGTGCCACATGCACAGCCCCTTAATCCACCATATTGGATGGTCAAGAAGCATAGGCCATCGATTCAAGAGATCAGATATTACGAAGAAACAGGACGGACATTTCGATACACCTCCACACTTATTTGCTAAGGTAAAAGAAGTAGACCAGAGTGGAGAATGGTTCAAAGAAGGAATGAAATTGGAAGCTATAGACCCATTAAATCTTTCTACAATATGTGTTGCCACCATTAGAAAGGTGCTGGCTGATGGATTCCTGATGATTGGGATTGATGGCTCAGAAGCAGCAGATGGATCTGACTGGTTCTGTTATCATGCAACCTCTCCTTCCATTTTCCCTGTGGGTTTCTGTGAAATTAACATGATAGAACTGACTCCACCCAGAGACAGAACATTCTTCACAATCCAAAAGAAAAAGCAGACTGGTTCGGGATGTTTGACGGCTATGATAGCTGCAGTGAGGACACAAGTAGCAGCTCCAGCTCTGAGGAGAGTGAAGAAGAAGTTGCTCCTTTACCTTCCAATCTCCCAATCATCAAGAATAATGGACAAGTCTACACATACCCAGATGGTAAATCTGGCATGGCTACCTGTGAGATGTGTGGGATGGTCGGTGTGCGAGATGCTTTTTACTCTAAAACGAAACGTTTCTGCAGTGTTTCCTGTTCAAGAAGTTACTCGTCAAACTCTAAGAAGGCAAGCATTCTGGCCAGACTTCAGGGTAAGCCTCCAACAAAGAAAGCAAAAGTCCTTCAAAAACAACCTTTAG
Peptide sequence:
MFDGYDSCSEDTSSSSSSEESEEEVAPLPSNLPIIKNNGQVYTYPDGKSGMATCEMCGMVGVRDAFYSKTKRFCSVSCSRSYSSNSKKASILARLQGKPPTKKAKVLQKQPLVAKLAAYAQYQATLQNQAKTKAGNSAISVEGFSWGNYINSNSFIAAPVACFKHAPMGTCWGDISENVRIEVPNTDCSLPTKVFWIAGIIKLAGYNALLRYEGFENDSSLDFWCNICGSDIHPVGWCAASGKPLVPPRTVQHKYTNWKAFLVKRLTGAKTLPPDFSQKVSESMQYPFKPCMRVEVVDKRHLCRTRVAVVESVIGGRLRLVYEESEDRTDDFWCHMHSPLIHHIGWSRSIGHRFKRSDITKKQDGHFDTPPHLFAKVKEVDQSGEWFKEGMKLEAIDPLNLSTICVATIRKVLADGFLMIGIDGSEAADGSDWFCYHATSPSIFPVGFCEINMIELTPPRDRTFFTIQKKKQTGSGCLTAMIAAVRTQVAAPALRRVKKKLLLYLPISQSSRIMDKSTHTQMVNLAWLPVRCVGWSVCEMLFTLKRNVSAVFPVQEVTRQTLRRQAFWPDFRVSLQQRKQKSFKNNL
IRESfinder result
IRESfinder score
0.606407483
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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