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mmu_circAgps_686
Basic information of circular RNA
PanCircBase ID:
mmu_circAgps_686
mm39_Chr. Position ID:
chr2|75692277|75724501|+
Gene name:
Agps
Transcript:
ENSMUST00000047232.14
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
8,9,10,11,12,13,14
Exon/intron offsets:
0,4813,6371,15537,26182,29858,32111
Genomic length:
32224
Exon/intron sizes in nt:
8,11,26,10,91,28,52,77,000
Flanking exon/introns:
chr2:75689322-75692277|chr2:75724501-75730525
Splice length:
686
Other database IDs:
circBase: mmu_circ_0010184, CIRCpedia: MMU_CIRCpedia_29163, circAtlas: mmu-Agps_0019
circAtlas: hsa-SCAF8_0001
Human Ortholog IDs:
Mature spliced Sequence:
AACCGGATTCTCTGGGTTGATGAGAACAATCTGACAGCTCACGTAGAGGCTGGGATAACAGGACAAGATTTGGAAAGACAGCTTAAAGAAAGTGGTTATTGTACAGGTCATGAACCGGACTCCCTGGAATTCAGCACCGTGGGAGGATGGATATCTACTCGAGCGTCAGGCATGAAGAAAAATATCTATGGCAATATTGAGGACCTGGTGGTTCATATGAAAATGGTAACACCTAGAGGTGTAATAGAGAAAAGCTCCCAAGGACCTCGTATGTCAACGGGCCCTGATATCCATCACTTCATTATGGGATCTGAAGGAACTCTTGGTGTAATAACAGAAGCTACAATAAAGATCAGACCAACCCCTGAGTACCAGAAGTACGGTTCGGTGGCTTTCCCTAACTTTGAACAAGGTGTAGCCTGTTTAAGAGAAATTGCAAAGCAGAGATGTGCTCCTGCATCTATCCGCCTCATGGACAACCAGCAGTTCCAGTTTGGTCATGCTCTTAAACCTCAGGTCTCTTCTATTTTTACATCATTTTTGGATGGATTAAAAAAGTTTTATATTACAAAGTTTAAAGGATTTGATCCAAATCAAATAAGTGTAGCCACATTACTGTTCGAGGGAGACCGTGAGAAGGTTCTTCAGCACGAAAAACAAGTGTATGACATCGCAGCAAAATTTGG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGCCACATTACTGTTCGAGGG
60.07
TGTCCTGTTATCCCAGCCTC
58.8
146
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCCACATTACTGTTCGAGGGA
60.07
TGTCCTGTTATCCCAGCCTC
58.8
145
PCR template sequence:
ATCCAAATCAAATAAGTGTAGCCACATTACTGTTCGAGGGAGACCGTGAGAAGGTTCTTCAGCACGAAAAACAAGTGTATGACATCGCAGCAAAATTTGGAACCGGATTCTCTGGGTTGATGAGAACAATCTGACAGCTCACGTAGAGGCTGGGATAACAGGACAAGATTTGGAAAGACAGCTTAAAGAAAGTGGTTATT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
NA
Interacting miRNAs (#binding sites)
NA
siRNAs for circular RNA silencing
Junction sequence
CAGCAAAATTTGGAACCGGATTCTCT
siRNA sets
ATCCGGTTCCAAATTTTGC, AATCCGGTTCCAAATTTTG, TCCGGTTCCAAATTTTGCT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCAGPS_686_ORF_1
0.8359
0.04533839
0.605018482
549
ORF sequence:
ATGAAGAAAAATATCTATGGCAATATTGAGGACCTGGTGGTTCATATGAAAATGGTAACACCTAGAGGTGTAATAGAGAAAAGCTCCCAAGGACCTCGTATGTCAACGGGCCCTGATATCCATCACTTCATTATGGGATCTGAAGGAACTCTTGGTGTAATAACAGAAGCTACAATAAAGATCAGACCAACCCCTGAGTACCAGAAGTACGGTTCGGTGGCTTTCCCTAACTTTGAACAAGGTGTAGCCTGTTTAAGAGAAATTGCAAAGCAGAGATGTGCTCCTGCATCTATCCGCCTCATGGACAACCAGCAGTTCCAGTTTGGTCATGCTCTTAAACCTCAGGTCTCTTCTATTTTTACATCATTTTTGGATGGATTAAAAAAGTTTTATATTACAAAGTTTAAAGGATTTGATCCAAATCAAATAAGTGTAGCCACATTACTGTTCGAGGGAGACCGTGAGAAGGTTCTTCAGCACGAAAAACAAGTGTATGACATCGCAGCAAAATTTGGAACCGGATTCTCTGGGTTGATGAGAACAATCTGA
Peptide sequence:
MKKNIYGNIEDLVVHMKMVTPRGVIEKSSQGPRMSTGPDIHHFIMGSEGTLGVITEATIKIRPTPEYQKYGSVAFPNFEQGVACLREIAKQRCAPASIRLMDNQQFQFGHALKPQVSSIFTSFLDGLKKFYITKFKGFDPNQISVATLLFEGDREKVLQHEKQVYDIAAKFGTGFSGLMRTI
IRESfinder result
IRESfinder score
0.618082952
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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