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mmu_circFtx_838
Basic information of circular RNA
PanCircBase ID:
mmu_circFtx_838
mm39_Chr. Position ID:
chrX|102649923|102658798|-
Gene name:
Ftx
Transcript:
ENSMUST00000130063.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
7,6,5,4,3,2
Exon/intron offsets:
0,606,1219,2986,6705,8747
Genomic length:
8875
Exon/intron sizes in nt:
65,10,32,56,11,31,73,100
Flanking exon/introns:
chrX:102646695-102649923|chrX:102658798-102667152
Splice length:
838
Other database IDs:
CIRCpedia: MMU_CIRCpedia_988, circAtlas: mmu-Ftx_0013
Human Ortholog IDs:
Mature spliced Sequence:
ATTTTATTGGCTGCAGACACACGCAGCATCTTCTTGCGCTCCTCCTTGAGGTGGATGGGCAGCTAGCTGGAGATGACACAGGATGATGCGCATCTTTCGCACGCTGGCTCCAAGATCTCCGCTGCCAGATGCAGCAACAAAGCTTCTTTGTACAGACAGCCCTGGACACACTTCCAGCAGCAATTCTTCTTGCAGGAACTGGTGCAAGAACAGGATTTATTCGTGGCACAGGAGCAGTTGGTGTCCACTGGGAGTGGAGGCAGAAGAGAGACCAGAGCGGGTATGTTAGGAGAGAAAGCAGTGACTTCAACAGAAGTGGAGTAAATAAAGATGATCACAGAACTTGGAAGCTGACGAAATTAATTTTGGAAAAGAGCTGGCTTGGAGCATGACAGAAGAATTCGATGGAAAGAGTGCTGGGAGCCCAACTCAAGACTGATGTGTGCTTGGCAGGCAGTCTACCCCCGATCTCAGTCCTCCAGCCTTTCGGCCTTTTTTCCTTTTTGGAGACAGAATTGCATCATATGGCATCCTACACAGTCCTGCCTCAGTCTCTGCAGTGCTGGGATTGTAGGCCTATGCCACCTAGCCTTTCTACAATACAAACAAATATGAAAAGAAGAGGGACTTCTTTGGAAAGGAGTACAGGGACTATGGAAGAGATGAAAAGATAATATTGTCAGAAATTATGCCGCTTTTGAAGAGATAAACTGAACTCTTGATTCTGTGAGGTTATTAAAGAATATTAATTTTCAAATCACGGTAAAATCTTGATTCAGCAACACATGAGGATAATCATTGTGTCCATGGAAACCTTGGGAAGCAGTTGAAAGCCTGG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGATTCAGCAACACATGAGGA
57.58
TGCGCATCATCCTGTGTCAT
60.11
159
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGATTCAGCAACACATGAGGA
57.58
ATGCGCATCATCCTGTGTCA
60.11
160
PCR template sequence:
AAGAATATTAATTTTCAAATCACGGTAAAATCTTGATTCAGCAACACATGAGGATAATCATTGTGTCCATGGAAACCTTGGGAAGCAGTTGAAAGCCTGGATTTTATTGGCTGCAGACACACGCAGCATCTTCTTGCGCTCCTCCTTGAGGTGGATGGGCAGCTAGCTGGAGATGACACAGGATGATGCGCATCTTTCGC
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-136-5p(1), mmu-miR-690(1), mmu-miR-1198-5p(1), mmu-miR-5101(1), mmu-miR-335-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GTTGAAAGCCTGGATTTTATTGGCTG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
NA
NA
NA
NA
NA
ORF sequence:
NA
Peptide sequence:
NA
IRESfinder result
IRESfinder score
0.59488834
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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