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mmu_circTex2_735
Basic information of circular RNA
PanCircBase ID:
mmu_circTex2_735
mm39_Chr. Position ID:
chr11|106424696|106437829|-
Gene name:
Tex2
Transcript:
ENSMUST00000042780.14
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
6,5,4
Exon/intron offsets:
0,10301,12793
Genomic length:
13133
Exon/intron sizes in nt:
14,72,48,340
Flanking exon/introns:
chr11:106420187-106424696|chr11:106437829-106439539
Splice length:
735
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
ATTTATCTTGTACCTAAAAGCTTGGCTCGAAAGCGAATCTGGAATAAGAAGTACCCCATTTGCATTGAACTTGGTCGGCAAGATGACTTTATGTCTAAGGCGCAGTCTGATAAGGAAGCTACTGAGGAGAAGCCGCCTCCTGAGAAAGAGCTGCCGAGCGAAGACCTCAAGAAGCCACCCCAGCCTCAAGAGGGGACGAAGTCTAGCCAGCGAGACCCAATACTGTATCTGTTTGGGAGAACGGGCCGAGAGAAAGAGGAGTGGTTCAGGCGGTTCATCCTGGCCTCGAGGCTGAAGTCAGAGCTCAGGAAGCCGGCGGGTGTTTCTGGAAGTAAATCAGGGCTTCTGCCCGCACACAGCAGGCACAGCAGTCCCTCGGGGCACCTGAGCCACAGCCGCAGCAGCAGCAAAGGCAGCGTGGAGGAAATGATGTCCCAGCCAAAGCAGAAGGAACTGGTGGGCAGCGTGCGACAGAAGATGCTCCTAGACTACAGTGTGTACATGGGCAGGTGTGTGCCCCAGGACAACCGAAGCCCCCACAGGAGCCCCGTGCAGAGTGCAGAGAGCAGCCCCACAGCTTCGAAGAAGTTGCCAGAGGCCCCACCCTCTGAGGAGGAAGAACAGGAAGCCTGGGTGAATGCTTTGCTTGGAAGAATATTTTGGGACTTCTTGGGCGAGAAATACTGGTCTGATGTGGTGTCGAAGAAAATCCAGATGAAACTCAGCAAAATTAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGGACTTCTTGGGCGAGAAA
59.96
GCCGACCAAGTTCAATGCAA
59.69
153
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGGACTTCTTGGGCGAGAAA
59.96
TTGCCGACCAAGTTCAATGC
59.69
155
PCR template sequence:
GAATGCTTTGCTTGGAAGAATATTTTGGGACTTCTTGGGCGAGAAATACTGGTCTGATGTGGTGTCGAAGAAAATCCAGATGAAACTCAGCAAAATTAAGATTTATCTTGTACCTAAAAGCTTGGCTCGAAAGCGAATCTGGAATAAGAAGTACCCCATTTGCATTGAACTTGGTCGGCAAGATGACTTTATGTCTAAGG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
5
Interacting miRNAs (#binding sites)
mmu-miR-24-3p(1), mmu-miR-370-3p(1), mmu-miR-666-5p(1), mmu-miR-207(1), mmu-miR-3470b(1)
siRNAs for circular RNA silencing
Junction sequence
CAGCAAAATTAAGATTTATCTTGTAC
siRNA sets
AGATAAATCTTAATTTTGC, ATAAATCTTAATTTTGCTG, GATAAATCTTAATTTTGCT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCTEX2_735_ORF_1
0.9516
0.341282893
0.999608856
1380
ORF sequence:
ATGTCTAAGGCGCAGTCTGATAAGGAAGCTACTGAGGAGAAGCCGCCTCCTGAGAAAGAGCTGCCGAGCGAAGACCTCAAGAAGCCACCCCAGCCTCAAGAGGGGACGAAGTCTAGCCAGCGAGACCCAATACTGTATCTGTTTGGGAGAACGGGCCGAGAGAAAGAGGAGTGGTTCAGGCGGTTCATCCTGGCCTCGAGGCTGAAGTCAGAGCTCAGGAAGCCGGCGGGTGTTTCTGGAAGTAAATCAGGGCTTCTGCCCGCACACAGCAGGCACAGCAGTCCCTCGGGGCACCTGAGCCACAGCCGCAGCAGCAGCAAAGGCAGCGTGGAGGAAATGATGTCCCAGCCAAAGCAGAAGGAACTGGTGGGCAGCGTGCGACAGAAGATGCTCCTAGACTACAGTGTGTACATGGGCAGGTGTGTGCCCCAGGACAACCGAAGCCCCCACAGGAGCCCCGTGCAGAGTGCAGAGAGCAGCCCCACAGCTTCGAAGAAGTTGCCAGAGGCCCCACCCTCTGAGGAGGAAGAACAGGAAGCCTGGGTGAATGCTTTGCTTGGAAGAATATTTTGGGACTTCTTGGGCGAGAAATACTGGTCTGATGTGGTGTCGAAGAAAATCCAGATGAAACTCAGCAAAATTAAGATTTATCTTGTACCTAAAAGCTTGGCTCGAAAGCGAATCTGGAATAAGAAGTACCCCATTTGCATTGAACTTGGTCGGCAAGATGACTTTATGTCTAAGGCGCAGTCTGATAAGGAAGCTACTGAGGAGAAGCCGCCTCCTGAGAAAGAGCTGCCGAGCGAAGACCTCAAGAAGCCACCCCAGCCTCAAGAGGGGACGAAGTCTAGCCAGCGAGACCCAATACTGTATCTGTTTGGGAGAACGGGCCGAGAGAAAGAGGAGTGGTTCAGGCGGTTCATCCTGGCCTCGAGGCTGAAGTCAGAGCTCAGGAAGCCGGCGGGTGTTTCTGGAAGTAAATCAGGGCTTCTGCCCGCACACAGCAGGCACAGCAGTCCCTCGGGGCACCTGAGCCACAGCCGCAGCAGCAGCAAAGGCAGCGTGGAGGAAATGATGTCCCAGCCAAAGCAGAAGGAACTGGTGGGCAGCGTGCGACAGAAGATGCTCCTAGACTACAGTGTGTACATGGGCAGGTGTGTGCCCCAGGACAACCGAAGCCCCCACAGGAGCCCCGTGCAGAGTGCAGAGAGCAGCCCCACAGCTTCGAAGAAGTTGCCAGAGGCCCCACCCTCTGAGGAGGAAGAACAGGAAGCCTGGGTGAATGCTTTGCTTGGAAGAATATTTTGGGACTTCTTGGGCGAGAAATACTGGTCTGATGTGGTGTCGAAGAAAATCCAGATGAAACTCAGCAAAATTAAG
Peptide sequence:
MSKAQSDKEATEEKPPPEKELPSEDLKKPPQPQEGTKSSQRDPILYLFGRTGREKEEWFRRFILASRLKSELRKPAGVSGSKSGLLPAHSRHSSPSGHLSHSRSSSKGSVEEMMSQPKQKELVGSVRQKMLLDYSVYMGRCVPQDNRSPHRSPVQSAESSPTASKKLPEAPPSEEEEQEAWVNALLGRIFWDFLGEKYWSDVVSKKIQMKLSKIKIYLVPKSLARKRIWNKKYPICIELGRQDDFMSKAQSDKEATEEKPPPEKELPSEDLKKPPQPQEGTKSSQRDPILYLFGRTGREKEEWFRRFILASRLKSELRKPAGVSGSKSGLLPAHSRHSSPSGHLSHSRSSSKGSVEEMMSQPKQKELVGSVRQKMLLDYSVYMGRCVPQDNRSPHRSPVQSAESSPTASKKLPEAPPSEEEEQEAWVNALLGRIFWDFLGEKYWSDVVSKKIQMKLSKIK
IRESfinder result
IRESfinder score
0.358209356
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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