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mmu_circAmotl1_434
Basic information of circular RNA
PanCircBase ID:
mmu_circAmotl1_434
mm39_Chr. Position ID:
chr9|14483970|14486735|-
Gene name:
Amotl1
Transcript:
ENSMUST00000013220.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
5,4
Exon/intron offsets:
0,2476
Genomic length:
2765
Exon/intron sizes in nt:
1,45,289
Flanking exon/introns:
chr9:14483008-14483970|chr9:14486735-14504049
Splice length:
434
Other database IDs:
circBase: hsa_circ_0024051
Human Ortholog IDs:
Mature spliced Sequence:
CCGGCCCTGCCAGCTGCCTTTTCCATCTACGGTGCAGCAGCATAGCCCCATGTCCTCTCAGACCTCCTCCATCGGTGGTACTCTGCACTCCGTCTCCCTGCCTCTTCCACTTCCCATAAGCCTGGCGGCTTCACAGCCCCTACCAGCCTCCCCCAACCAGCAGCTTGGACCGGATGCCTTTGCGATTGTGGAGCGAGCCCAGCAAATGGTAGAGATCCTGACAGAGGAGAACCGTGTGCTTCACCAGGAGCTTCAGGGCTGCTATGACAACGCTGACAAGCTCCACAAGTTTGAAAAAGAGCTGCAGAGTATTTCGGAGGCCTACGAGAGCCTGGTCAAGTCCACCACCAAGCGTGAGTCTCTGGACAAGGCAATGAGAACCAAGCTCGAAGGCGAGATAAGGAGACTTCATGACTTCAACAGAGATCTCCGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CAAGCGTGAGTCTCTGGACA
59.68
GAGAGGACATGGGGCTATGC
59.96
145
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CAAGCGTGAGTCTCTGGACA
59.68
CCGATGGAGGAGGTCTGAGA
60.11
161
PCR template sequence:
GTCAAGTCCACCACCAAGCGTGAGTCTCTGGACAAGGCAATGAGAACCAAGCTCGAAGGCGAGATAAGGAGACTTCATGACTTCAACAGAGATCTCCGAGCCGGCCCTGCCAGCTGCCTTTTCCATCTACGGTGCAGCAGCATAGCCCCATGTCCTCTCAGACCTCCTCCATCGGTGGTACTCTGCACTCCGTCTCCCTG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
1
Interacting miRNAs (#binding sites)
mmu-miR-709(1)
siRNAs for circular RNA silencing
Junction sequence
AGAGATCTCCGAGCCGGCCCTGCCAG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCAMOTL1_434_ORF_1
1.0532
0.278412093
0.813134148
504
ORF sequence:
ATGTCCTCTCAGACCTCCTCCATCGGTGGTACTCTGCACTCCGTCTCCCTGCCTCTTCCACTTCCCATAAGCCTGGCGGCTTCACAGCCCCTACCAGCCTCCCCCAACCAGCAGCTTGGACCGGATGCCTTTGCGATTGTGGAGCGAGCCCAGCAAATGGTAGAGATCCTGACAGAGGAGAACCGTGTGCTTCACCAGGAGCTTCAGGGCTGCTATGACAACGCTGACAAGCTCCACAAGTTTGAAAAAGAGCTGCAGAGTATTTCGGAGGCCTACGAGAGCCTGGTCAAGTCCACCACCAAGCGTGAGTCTCTGGACAAGGCAATGAGAACCAAGCTCGAAGGCGAGATAAGGAGACTTCATGACTTCAACAGAGATCTCCGAGCCGGCCCTGCCAGCTGCCTTTTCCATCTACGGTGCAGCAGCATAGCCCCATGTCCTCTCAGACCTCCTCCATCGGTGGTACTCTGCACTCCGTCTCCCTGCCTCTTCCACTTCCCATAA
Peptide sequence:
MSSQTSSIGGTLHSVSLPLPLPISLAASQPLPASPNQQLGPDAFAIVERAQQMVEILTEENRVLHQELQGCYDNADKLHKFEKELQSISEAYESLVKSTTKRESLDKAMRTKLEGEIRRLHDFNRDLRAGPASCLFHLRCSSIAPCPLRPPPSVVLCTPSPCLFHFP
IRESfinder result
IRESfinder score
0.346871463
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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