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mmu_circTex26_484
Basic information of circular RNA
PanCircBase ID:
mmu_circTex26_484
mm39_Chr. Position ID:
chr5|149380282|149386743|+
Gene name:
Tex26
Transcript:
ENSMUST00000031667.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
4,5,6
Exon/intron offsets:
0,4003,6299
Genomic length:
6461
Exon/intron sizes in nt:
14,51,77,162
Flanking exon/introns:
chr5:149376924-149380282|chr5:149386743-149393808
Splice length:
484
Other database IDs:
circAtlas: mmu-Tex26_0007
circAtlas: hsa-SCAF8_0001
Human Ortholog IDs:
Mature spliced Sequence:
GAATTCTTTCAGTGGACACACCCTAAAGGAAAACAAACCCAAAAGCTCCCTTGGATAGAGCCTCCTTCCGAGGAAAGCATACAGAACGCAGTAGCCAGCCAGTTCATCTCCTGTACCAAGAGGGACTTCGTAGACCTGACTCAATCTAAGAAGACCATGAAAAGATTTCCAAGGTCCCAGGACAGGAAATCACTCCTTCCCCGGCCTCTGGACACTGAATTTCGATATAATTACCAAATTCCAGCTCAAATTCCTGAATTGAAGGACTTTAGTTTCAAATATGGGTGCTACGCAAGCCTGCCTGTTGCCTCCCAGGGTCTAGTGCCCTCTGTGCTGTCTAGCTATATTCGGAACGAGGAACGCACAAAGAAGCAGACCACGTACGAGTGCGACTACGGGAAAGCCTGCCTGGACTTCTTGACAATCTTAGACTCATTCACGCCCTCCCAAGTCCACGACTACCTGCAAAGTGTTTCCTACAAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCTGCCTGGACTTCTTGACA
59.6
GCTGGCTACTGCGTTCTGTA
60.11
180
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GAAAGCCTGCCTGGACTTCT
59.96
TCGGAAGGAGGCTCTATCCA
59.44
157
PCR template sequence:
GAGTGCGACTACGGGAAAGCCTGCCTGGACTTCTTGACAATCTTAGACTCATTCACGCCCTCCCAAGTCCACGACTACCTGCAAAGTGTTTCCTACAAAGGAATTCTTTCAGTGGACACACCCTAAAGGAAAACAAACCCAAAAGCTCCCTTGGATAGAGCCTCCTTCCGAGGAAAGCATACAGAACGCAGTAGCCAGCC
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-709(1), mmu-miR-669d-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GTTTCCTACAAAGGAATTCTTTCAGT
siRNA sets
ACTGAAAGAATTCCTTTGT, GAAAGAATTCCTTTGTAGG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCTEX26_484_ORF_1
0.7509
0.187928495
0.366695063
354
ORF sequence:
ATGAAAAGATTTCCAAGGTCCCAGGACAGGAAATCACTCCTTCCCCGGCCTCTGGACACTGAATTTCGATATAATTACCAAATTCCAGCTCAAATTCCTGAATTGAAGGACTTTAGTTTCAAATATGGGTGCTACGCAAGCCTGCCTGTTGCCTCCCAGGGTCTAGTGCCCTCTGTGCTGTCTAGCTATATTCGGAACGAGGAACGCACAAAGAAGCAGACCACGTACGAGTGCGACTACGGGAAAGCCTGCCTGGACTTCTTGACAATCTTAGACTCATTCACGCCCTCCCAAGTCCACGACTACCTGCAAAGTGTTTCCTACAAAGGAATTCTTTCAGTGGACACACCCTAA
Peptide sequence:
MKRFPRSQDRKSLLPRPLDTEFRYNYQIPAQIPELKDFSFKYGCYASLPVASQGLVPSVLSSYIRNEERTKKQTTYECDYGKACLDFLTILDSFTPSQVHDYLQSVSYKGILSVDTP
IRESfinder result
IRESfinder score
0.644229361
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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