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mmu_circMbtd1_1174
Basic information of circular RNA
PanCircBase ID:
mmu_circMbtd1_1174
mm39_Chr. Position ID:
chr11|93795984|93816548|+
Gene name:
Mbtd1
Transcript:
ENSMUST00000107853.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
9
Exon/intron indexes:
2,3,4,5,6,7,8,9,10
Exon/intron offsets:
0,3645,5124,7217,16208,17987,18632,19266,20508
Genomic length:
20564
Exon/intron sizes in nt:
200,134,124,83,118,135,89,235,56
Flanking exon/introns:
chr11:93776888-93795984|chr11:93816548-93817047
Splice length:
1174
Other database IDs:
CIRCpedia: MMU_CIRCpedia_34645, circAtlas: mmu-Mbtd1_0027
circAtlas: hsa-MBTD1_0093
Human Ortholog IDs:
Mature spliced Sequence:
ACAGAACATTCTTCACAATCCAAAAGAAAAAGCAGACTGGTTCGGGATGTTTGACGGCTATGATAGCTGCAGTGAGGACACAAGTAGCAGCTCCAGCTCTGAGGAGAGTGAAGAAGAAGTTGCTCCTTTACCTTCCAATCTCCCAATCATCAAGAATAATGGACAAGTCTACACATACCCAGATGGTAAATCTGGCATGGCTACCTGTGAGATGTGTGGGATGGTCGGTGTGCGAGATGCTTTTTACTCTAAAACGAAACGTTTCTGCAGTGTTTCCTGTTCAAGAAGTTACTCGTCAAACTCTAAGAAGGCAAGCATTCTGGCCAGACTTCAGGGTAAGCCTCCAACAAAGAAAGCAAAAGTCCTTCAAAAACAACCTTTAGTTGCTAAATTAGCTGCCTATGCCCAGTATCAAGCTACCTTGCAAAATCAAGCAAAGACAAAAGCAGGCAATTCTGCAATCTCTGTGGAAGGCTTCAGCTGGGGTAACTACATCAACAGCAACAGCTTCATAGCAGCTCCAGTGGCCTGTTTTAAGCATGCACCTATGGGGACCTGCTGGGGTGATATCTCGGAAAATGTAAGGATAGAAGTTCCCAATACAGACTGCAGTCTACCTACCAAAGTCTTCTGGATTGCTGGAATTATAAAATTAGCAGGTTATAATGCCCTTTTGAGATATGAAGGATTTGAAAATGATTCTTCTCTGGACTTCTGGTGCAATATATGTGGGTCTGATATTCATCCAGTTGGTTGGTGTGCAGCTAGTGGAAAACCTCTCGTTCCTCCTAGAACTGTTCAACATAAATATACAAACTGGAAAGCTTTTCTAGTAAAAAGACTTACTGGTGCCAAAACACTTCCTCCTGATTTCTCACAAAAGGTTTCTGAGAGTATGCAATATCCTTTCAAACCTTGCATGAGAGTAGAAGTAGTTGACAAGAGGCATTTATGTCGAACAAGAGTAGCAGTGGTGGAAAGTGTAATTGGAGGACGACTACGGCTGGTGTATGAAGAGAGTGAAGATAGAACAGACGACTTCTGGTGCCACATGCACAGCCCCTTAATCCACCATATTGGATGGTCAAGAAGCATAGGCCATCGATTCAAGAGATCAGATATTACGAAGAAACAGGACGGACATTTCGATACACCTCCACACTTATTTGCTAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGGTCAAGAAGCATAGGCCA
59.01
CATCCCGAACCAGTCTGCTT
60.04
142
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACGAAGAAACAGGACGGACA
59.25
GCTGGAGCTGCTACTTGTGT
60.32
148
PCR template sequence:
TATTGGATGGTCAAGAAGCATAGGCCATCGATTCAAGAGATCAGATATTACGAAGAAACAGGACGGACATTTCGATACACCTCCACACTTATTTGCTAAGACAGAACATTCTTCACAATCCAAAAGAAAAAGCAGACTGGTTCGGGATGTTTGACGGCTATGATAGCTGCAGTGAGGACACAAGTAGCAGCTCCAGCTCT
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-210-3p(1), mmu-miR-9-5p(1), mmu-miR-200a-3p(1), mmu-miR-205-5p(1), mmu-miR-196a-5p(1), mmu-miR-214-3p(1), mmu-miR-136-5p(1), mmu-miR-363-3p(1), mmu-miR-96-5p(1), mmu-miR-669d-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CTTATTTGCTAAGACAGAACATTCTT
siRNA sets
AGAATGTTCTGTCTTAGCA, AATGTTCTGTCTTAGCAAA, TTCTGTCTTAGCAAATAAG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCMBTD1_1174_ORF_1
0.9009
0.011680381
0.993000031
1182
ORF sequence:
ATGTTTGACGGCTATGATAGCTGCAGTGAGGACACAAGTAGCAGCTCCAGCTCTGAGGAGAGTGAAGAAGAAGTTGCTCCTTTACCTTCCAATCTCCCAATCATCAAGAATAATGGACAAGTCTACACATACCCAGATGGTAAATCTGGCATGGCTACCTGTGAGATGTGTGGGATGGTCGGTGTGCGAGATGCTTTTTACTCTAAAACGAAACGTTTCTGCAGTGTTTCCTGTTCAAGAAGTTACTCGTCAAACTCTAAGAAGGCAAGCATTCTGGCCAGACTTCAGGGTAAGCCTCCAACAAAGAAAGCAAAAGTCCTTCAAAAACAACCTTTAGTTGCTAAATTAGCTGCCTATGCCCAGTATCAAGCTACCTTGCAAAATCAAGCAAAGACAAAAGCAGGCAATTCTGCAATCTCTGTGGAAGGCTTCAGCTGGGGTAACTACATCAACAGCAACAGCTTCATAGCAGCTCCAGTGGCCTGTTTTAAGCATGCACCTATGGGGACCTGCTGGGGTGATATCTCGGAAAATGTAAGGATAGAAGTTCCCAATACAGACTGCAGTCTACCTACCAAAGTCTTCTGGATTGCTGGAATTATAAAATTAGCAGGTTATAATGCCCTTTTGAGATATGAAGGATTTGAAAATGATTCTTCTCTGGACTTCTGGTGCAATATATGTGGGTCTGATATTCATCCAGTTGGTTGGTGTGCAGCTAGTGGAAAACCTCTCGTTCCTCCTAGAACTGTTCAACATAAATATACAAACTGGAAAGCTTTTCTAGTAAAAAGACTTACTGGTGCCAAAACACTTCCTCCTGATTTCTCACAAAAGGTTTCTGAGAGTATGCAATATCCTTTCAAACCTTGCATGAGAGTAGAAGTAGTTGACAAGAGGCATTTATGTCGAACAAGAGTAGCAGTGGTGGAAAGTGTAATTGGAGGACGACTACGGCTGGTGTATGAAGAGAGTGAAGATAGAACAGACGACTTCTGGTGCCACATGCACAGCCCCTTAATCCACCATATTGGATGGTCAAGAAGCATAGGCCATCGATTCAAGAGATCAGATATTACGAAGAAACAGGACGGACATTTCGATACACCTCCACACTTATTTGCTAAGACAGAACATTCTTCACAATCCAAAAGAAAAAGCAGACTGGTTCGGGATGTTTGA
Peptide sequence:
MFDGYDSCSEDTSSSSSSEESEEEVAPLPSNLPIIKNNGQVYTYPDGKSGMATCEMCGMVGVRDAFYSKTKRFCSVSCSRSYSSNSKKASILARLQGKPPTKKAKVLQKQPLVAKLAAYAQYQATLQNQAKTKAGNSAISVEGFSWGNYINSNSFIAAPVACFKHAPMGTCWGDISENVRIEVPNTDCSLPTKVFWIAGIIKLAGYNALLRYEGFENDSSLDFWCNICGSDIHPVGWCAASGKPLVPPRTVQHKYTNWKAFLVKRLTGAKTLPPDFSQKVSESMQYPFKPCMRVEVVDKRHLCRTRVAVVESVIGGRLRLVYEESEDRTDDFWCHMHSPLIHHIGWSRSIGHRFKRSDITKKQDGHFDTPPHLFAKTEHSSQSKRKSRLVRDV
IRESfinder result
IRESfinder score
0.590864467
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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