top of page
mmu_circApool_589
Basic information of circular RNA
PanCircBase ID:
mmu_circApool_589
mm39_Chr. Position ID:
chrX|111255934|111274267|+
Gene name:
Apool
Transcript:
ENSMUST00000026599.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
3,4,5,6,7,8
Exon/intron offsets:
0,3563,5062,7923,17919,18224
Genomic length:
18333
Exon/intron sizes in nt:
12,05,59,99,21,14,109
Flanking exon/introns:
chrX:111243602-111255934|chrX:111274267-111281890
Splice length:
589
Other database IDs:
circAtlas: hsa-APOOL_0004, CIRCpedia: HSA_CIRCpedia_126370
Human Ortholog IDs:
Mature spliced Sequence:
CTCCCCATATATACTGCACCACCCCTCCATTCTAAATATGTTGAAGAACAGCCTGGTAATTTACAAAGGGGCTTTGCATCCATCCGTACTACAACCGTGTATTATATTGGCTGGTGCAAGAGCATTTATCTCTTTATGAAGAATGGGGTTATGGATACAGTACAGTTTGGAAAAGATGCATATGTCTATCTGAAGAATCCTCCGCAAGATTTTCTCCCCAAAATGGGAGTGATTACAGCTTCGGGACTGGCAGGTTTGCTTTCAGCAAGAAAAGGTTCCAGGTTTAAGAAGATTGCTTATCCACTAGGACTGGCCACATTAGGAGCGACTGTTTGCTACCCAGCTCAGTCAGTAATAATTGCAAAGATAACTGGGAAAAAGGCATATGCTACAAGCCAGCAAATTTTTCAAGCCATTAAGTCATTGTGGACACAAAAAAGTGAAAACGAATCACTCCCTGAACCAAAGGAAGAAAGCAAGGAAGGAAGGTCTGATGAAATCCATGCCAGCTTGCCTGACCTGAAACATTCAGTGTCTTTGCCAAAAGAACTTGCCTCTGCAACAGTGATTAAATCAGAATCTACCTCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGCTTGCCTGACCTGAAACA
59.82
TACGGATGGATGCAAAGCCC
60.47
170
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGCTTGCCTGACCTGAAACA
59.82
GTACGGATGGATGCAAAGCC
59.34
171
PCR template sequence:
TCTGATGAAATCCATGCCAGCTTGCCTGACCTGAAACATTCAGTGTCTTTGCCAAAAGAACTTGCCTCTGCAACAGTGATTAAATCAGAATCTACCTCAGCTCCCCATATATACTGCACCACCCCTCCATTCTAAATATGTTGAAGAACAGCCTGGTAATTTACAAAGGGGCTTTGCATCCATCCGTACTACAACCGTGT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
3
Interacting miRNAs (#binding sites)
mmu-miR-298-5p(1), mmu-miR-182-5p(1), mmu-miR-369-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GAATCTACCTCAGCTCCCCATATATA
siRNA sets
TATATATGGGGAGCTGAGG, ATATATGGGGAGCTGAGGT, TATGGGGAGCTGAGGTAGA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCAPOOL_589_ORF_1
0.9021
-0.023822235
0.459668665
489
ORF sequence:
ATGAAGAATGGGGTTATGGATACAGTACAGTTTGGAAAAGATGCATATGTCTATCTGAAGAATCCTCCGCAAGATTTTCTCCCCAAAATGGGAGTGATTACAGCTTCGGGACTGGCAGGTTTGCTTTCAGCAAGAAAAGGTTCCAGGTTTAAGAAGATTGCTTATCCACTAGGACTGGCCACATTAGGAGCGACTGTTTGCTACCCAGCTCAGTCAGTAATAATTGCAAAGATAACTGGGAAAAAGGCATATGCTACAAGCCAGCAAATTTTTCAAGCCATTAAGTCATTGTGGACACAAAAAAGTGAAAACGAATCACTCCCTGAACCAAAGGAAGAAAGCAAGGAAGGAAGGTCTGATGAAATCCATGCCAGCTTGCCTGACCTGAAACATTCAGTGTCTTTGCCAAAAGAACTTGCCTCTGCAACAGTGATTAAATCAGAATCTACCTCAGCTCCCCATATATACTGCACCACCCCTCCATTCTAA
Peptide sequence:
MKNGVMDTVQFGKDAYVYLKNPPQDFLPKMGVITASGLAGLLSARKGSRFKKIAYPLGLATLGATVCYPAQSVIIAKITGKKAYATSQQIFQAIKSLWTQKSENESLPEPKEESKEGRSDEIHASLPDLKHSVSLPKELASATVIKSESTSAPHIYCTTPPF
IRESfinder result
IRESfinder score
0.675596293
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page