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mmu_ciAmotl1_632
Basic information of circular RNA
PanCircBase ID:
mmu_ciAmotl1_632
mm39_Chr. Position ID:
chr9|14459194|14459826|-
Gene name:
Amotl1
Transcript:
ENSMUST00000013220.8
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
12
Exon/intron offsets:
0
Genomic length:
632
Exon/intron sizes in nt:
632
Flanking exon/introns:
chr9:14459194-14459826
Splice length:
632
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTATGTGGCCCCTCCCTCCACTGTGCCTGGAGAGGTCAGGAAGCCACGTCAGACCATGTGTTCCAGTGCTGGTCACCACGTCAGACCATGTGTTCTTTGTTGTCATGGGACTAAAGTGTACCTAGCTATGCTTAGTCCATTGCTGCAGAAGAAGAGCACCCAGCTTTAGTGACCTGGTGACATGTGACATGTGTGTTCTATCCTCCTCCCCCCTGGGGTGGGGTAGGTAGAACAAACATAAGTAATTTGAGAGAAGGAGGTCTTACTTTGGTTCATGGTTTGGGGGACGGGACAATCTGTCATGGTATAGTCAATGTAGCAGTGTCTGAAGGGTGAGGCACTTGTTCACATCTGGGCAGACAGGAAACGGGGGAGGGGAGTCTGATTTGCAGCTGGCTTTCTCTTTGATTTTTACTCGGTCCAGAATCCGAAGACACTGTCTTCTCTGGGAGCCCCCTCCAGCCATTCTGCACCTCCCACTGGGAGATTCTCATAGTCTCCCCATGACTACACCAGGGTGTAGATGCTTGGACAAGGCATGACATTAGAAATGGTTCCATAATAAAGAGTGCTCAGAAAGCCAAGGTACCCACTGAAGAGCAGGCTGCTGATGTTTGCTCTCTGTTTGGCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCCAAGGTACCCACTGAAGA
59.31
CACATGGTCTGACGTGGTGA
59.97
145
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCCAAGGTACCCACTGAAGA
59.31
ACATGGTCTGACGTGGTGAC
59.97
144
PCR template sequence:
CAAGGCATGACATTAGAAATGGTTCCATAATAAAGAGTGCTCAGAAAGCCAAGGTACCCACTGAAGAGCAGGCTGCTGATGTTTGCTCTCTGTTTGGCAGGTATGTGGCCCCTCCCTCCACTGTGCCTGGAGAGGTCAGGAAGCCACGTCAGACCATGTGTTCCAGTGCTGGTCACCACGTCAGACCATGTGTTCTTTGT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
7
Interacting miRNAs (#binding sites)
mmu-miR-150-5p(1), mmu-miR-221-3p(1), mmu-miR-222-3p(1), mmu-miR-320-3p(1), mmu-miR-705(1), mmu-miR-3065-5p(1), mmu-miR-7a-2-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CTCTGTTTGGCAGGTATGTGGCCCCT
siRNA sets
ACATACCTGCCAAACAGAG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIAMOTL1_632_ORF_1
0.7851
-0.113818381
0.038523192
147
ORF sequence:
ATGTTTGCTCTCTGTTTGGCAGGTATGTGGCCCCTCCCTCCACTGTGCCTGGAGAGGTCAGGAAGCCACGTCAGACCATGTGTTCCAGTGCTGGTCACCACGTCAGACCATGTGTTCTTTGTTGTCATGGGACTAAAGTGTACCTAG
Peptide sequence:
MFALCLAGMWPLPPLCLERSGSHVRPCVPVLVTTSDHVFFVVMGLKCT
IRESfinder result
IRESfinder score
0.732243491
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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