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mmu_circTmem128_301
Basic information of circular RNA
PanCircBase ID:
mmu_circTmem128_301
mm39_Chr. Position ID:
chr5|38419340|38422314|+
Gene name:
Tmem128
Transcript:
ENSMUST00000087511.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
2,3
Exon/intron offsets:
0,2815
Genomic length:
2974
Exon/intron sizes in nt:
1,42,159
Flanking exon/introns:
chr5:38417836-38419340|chr5:38422314-38424522
Splice length:
301
Other database IDs:
circBase: hsa_circ_0069031, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_48678
Human Ortholog IDs:
Mature spliced Sequence:
AAACACCCACAGCTGTTGAGAAAAAGGAGCGACCTCTTCCAAGACTTAACATTCATTCTGGATTCTGGATTTTGGCATCCATCGTTGTGACCTATTATGTTGACTTCTTTAAAACCTTTAAAGAAAATTTTCACACCAATAGTTGGTTTCTCTTTGGCGGAGCCTTGTTATTTGTCAGCCTGTCAATTGCATTTTACTGCATAGTCTATCTGGAATGGTACCGTGGGATTGAAGAATATGATGTCAAATACCCAACACTGGTGCCCATCACAACTGCAACTTTCATTGCGGCAGGGATTTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AATACCCAACACTGGTGCCC
60.25
AGGTCACAACGATGGATGCC
60.39
148
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AATACCCAACACTGGTGCCC
60.25
GGTCACAACGATGGATGCCA
60.68
147
PCR template sequence:
TAGTCTATCTGGAATGGTACCGTGGGATTGAAGAATATGATGTCAAATACCCAACACTGGTGCCCATCACAACTGCAACTTTCATTGCGGCAGGGATTTGAAACACCCACAGCTGTTGAGAAAAAGGAGCGACCTCTTCCAAGACTTAACATTCATTCTGGATTCTGGATTTTGGCATCCATCGTTGTGACCTATTATGT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
1
Interacting miRNAs (#binding sites)
mmu-miR-539-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CGGCAGGGATTTGAAACACCCACAGC
siRNA sets
GTGTTTCAAATCCCTGCCG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCTMEM128_301_ORF_1
0.5697
0.00408047
0.173421322
363
ORF sequence:
ATGATGTCAAATACCCAACACTGGTGCCCATCACAACTGCAACTTTCATTGCGGCAGGGATTTGAAACACCCACAGCTGTTGAGAAAAAGGAGCGACCTCTTCCAAGACTTAACATTCATTCTGGATTCTGGATTTTGGCATCCATCGTTGTGACCTATTATGTTGACTTCTTTAAAACCTTTAAAGAAAATTTTCACACCAATAGTTGGTTTCTCTTTGGCGGAGCCTTGTTATTTGTCAGCCTGTCAATTGCATTTTACTGCATAGTCTATCTGGAATGGTACCGTGGGATTGAAGAATATGATGTCAAATACCCAACACTGGTGCCCATCACAACTGCAACTTTCATTGCGGCAGGGATT
Peptide sequence:
MMSNTQHWCPSQLQLSLRQGFETPTAVEKKERPLPRLNIHSGFWILASIVVTYYVDFFKTFKENFHTNSWFLFGGALLFVSLSIAFYCIVYLEWYRGIEEYDVKYPTLVPITTATFIAAGI
IRESfinder result
IRESfinder score
0.889944839
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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