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mmu_circTbcd_475
Basic information of circular RNA
PanCircBase ID:
mmu_circTbcd_475
mm39_Chr. Position ID:
chr11|121451500|121473610|+
Gene name:
Tbcd
Transcript:
ENSMUST00000103013.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
17,18,19,20,21,22,23
Exon/intron offsets:
0,13121,14611,15451,18040,19473,22078
Genomic length:
22110
Exon/intron sizes in nt:
86,81,74,118,61,23,32
Flanking exon/introns:
chr11:121447811-121451500|chr11:121473610-121481169
Splice length:
475
Other database IDs:
circAtlas: mmu-Tbcd_0007
circBase: hsa_circ_0046557, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_22964
Human Ortholog IDs:
Mature spliced Sequence:
GGTACTTTCCCTCATGGAATTGATATTTTGACTACAGCAGACTATTTTGCAGTTGGTAACATATCTAACTGTTTCCTGATTATAAGTGTGTTTATTGCTGGCTTCCAGGAATACACCAAGCCCATGATTGATCACCTGGTCTCCATGAAAATCAACCATTGGGATGGGGCCATCCGAGAACTGTCTGCAAAGGCATTGCACAACCTGACTCCACAAGTACCCGAGTACATAGCCATGCACGTATTCCCTGCACTACTGTTGATGACACAGAGTCCAGATCTACACACGAGACATGGTGCCATCCTTGCCTGTGCAGAGGTCACCTATGCCCTGTACAAGCTGGCCACACAGAGTAACAGGCTTGTCACAGACTATCTGGATGAGAAGGCAGTGCAAAGCCTGAAGCAGATCCACCAGCAGCTTTGTGACCGCCATCTCTATAGGGGTCTTGGAGGAGAGCTTATGAGACAAGCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CTGGATGAGAAGGCAGTGCA
60.04
ACCAACTGCAAAATAGTCTGCTG
59.75
157
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CTGGATGAGAAGGCAGTGCA
60.04
ACCAACTGCAAAATAGTCTGCT
58.51
157
PCR template sequence:
CTGGATGAGAAGGCAGTGCAAAGCCTGAAGCAGATCCACCAGCAGCTTTGTGACCGCCATCTCTATAGGGGTCTTGGAGGAGAGCTTATGAGACAAGCAGGGTACTTTCCCTCATGGAATTGATATTTTGACTACAGCAGACTATTTTGCAGTTGGTAACATATCTAACTGTTTCCTGATTATAAGTGTGTTTATTGCTG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
2
Interacting miRNAs (#binding sites)
mmu-miR-138-5p(1), mmu-miR-350-3p(1)
siRNAs for circular RNA silencing
Junction sequence
ATGAGACAAGCAGGGTACTTTCCCTC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCTBCD_475_ORF_1
1.1319
0.21598188
0.605586371
375
ORF sequence:
ATGATTGATCACCTGGTCTCCATGAAAATCAACCATTGGGATGGGGCCATCCGAGAACTGTCTGCAAAGGCATTGCACAACCTGACTCCACAAGTACCCGAGTACATAGCCATGCACGTATTCCCTGCACTACTGTTGATGACACAGAGTCCAGATCTACACACGAGACATGGTGCCATCCTTGCCTGTGCAGAGGTCACCTATGCCCTGTACAAGCTGGCCACACAGAGTAACAGGCTTGTCACAGACTATCTGGATGAGAAGGCAGTGCAAAGCCTGAAGCAGATCCACCAGCAGCTTTGTGACCGCCATCTCTATAGGGGTCTTGGAGGAGAGCTTATGAGACAAGCAGGGTACTTTCCCTCATGGAATTGA
Peptide sequence:
MIDHLVSMKINHWDGAIRELSAKALHNLTPQVPEYIAMHVFPALLLMTQSPDLHTRHGAILACAEVTYALYKLATQSNRLVTDYLDEKAVQSLKQIHQQLCDRHLYRGLGGELMRQAGYFPSWN
IRESfinder result
IRESfinder score
0.656150108
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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