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mmu_circAgps_444
Basic information of circular RNA
PanCircBase ID:
mmu_circAgps_444
mm39_Chr. Position ID:
chr2|75692277|75707942|+
Gene name:
Agps
Transcript:
ENSMUST00000047232.14
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
8,9,10,11
Exon/intron offsets:
0,4813,6371,15537
Genomic length:
15665
Exon/intron sizes in nt:
81,12,61,09,128
Flanking exon/introns:
chr2:75689322-75692277|chr2:75707942-75718459
Splice length:
444
Other database IDs:
circBase: mmu_circ_0010183, CIRCpedia: MMU_CIRCpedia_29162, circAtlas: mmu-Agps_0008
circBase: hsa_circ_0118168, circAtlas: hsa-AGPS_0010, CIRCpedia: HSA_CIRCpedia_122755
Human Ortholog IDs:
Mature spliced Sequence:
AACCGGATTCTCTGGGTTGATGAGAACAATCTGACAGCTCACGTAGAGGCTGGGATAACAGGACAAGATTTGGAAAGACAGCTTAAAGAAAGTGGTTATTGTACAGGTCATGAACCGGACTCCCTGGAATTCAGCACCGTGGGAGGATGGATATCTACTCGAGCGTCAGGCATGAAGAAAAATATCTATGGCAATATTGAGGACCTGGTGGTTCATATGAAAATGGTAACACCTAGAGGTGTAATAGAGAAAAGCTCCCAAGGACCTCGTATGTCAACGGGCCCTGATATCCATCACTTCATTATGGGATCTGAAGGAACTCTTGGTGTAATAACAGAAGCTACAATAAAGATCAGACCAACCCCTGAGTACCAGAAGTACGGTTCGGTGGCTTTCCCTAACTTTGAACAAGGTGTAGCCTGTTTAAGAGAAATTGCAAAGCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACCAACCCCTGAGTACCAGA
59.81
CAGCCTCTACGTGAGCTGTC
60.18
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGACCAACCCCTGAGTACCA
59.81
GCCTCTACGTGAGCTGTCAG
60.18
140
PCR template sequence:
AATAAAGATCAGACCAACCCCTGAGTACCAGAAGTACGGTTCGGTGGCTTTCCCTAACTTTGAACAAGGTGTAGCCTGTTTAAGAGAAATTGCAAAGCAGAACCGGATTCTCTGGGTTGATGAGAACAATCTGACAGCTCACGTAGAGGCTGGGATAACAGGACAAGATTTGGAAAGACAGCTTAAAGAAAGTGGTTATT
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
AATTGCAAAGCAGAACCGGATTCTCT
siRNA sets
GAATCCGGTTCTGCTTTGC,AATCCGGTTCTGCTTTGCA,ATCCGGTTCTGCTTTGCAA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCAGPS_444_ORF_1
0.9873
0.109541873
0.899721351
717
ORF sequence:
ATGAAGAAAAATATCTATGGCAATATTGAGGACCTGGTGGTTCATATGAAAATGGTAACACCTAGAGGTGTAATAGAGAAAAGCTCCCAAGGACCTCGTATGTCAACGGGCCCTGATATCCATCACTTCATTATGGGATCTGAAGGAACTCTTGGTGTAATAACAGAAGCTACAATAAAGATCAGACCAACCCCTGAGTACCAGAAGTACGGTTCGGTGGCTTTCCCTAACTTTGAACAAGGTGTAGCCTGTTTAAGAGAAATTGCAAAGCAGAACCGGATTCTCTGGGTTGATGAGAACAATCTGACAGCTCACGTAGAGGCTGGGATAACAGGACAAGATTTGGAAAGACAGCTTAAAGAAAGTGGTTATTGTACAGGTCATGAACCGGACTCCCTGGAATTCAGCACCGTGGGAGGATGGATATCTACTCGAGCGTCAGGCATGAAGAAAAATATCTATGGCAATATTGAGGACCTGGTGGTTCATATGAAAATGGTAACACCTAGAGGTGTAATAGAGAAAAGCTCCCAAGGACCTCGTATGTCAACGGGCCCTGATATCCATCACTTCATTATGGGATCTGAAGGAACTCTTGGTGTAATAACAGAAGCTACAATAAAGATCAGACCAACCCCTGAGTACCAGAAGTACGGTTCGGTGGCTTTCCCTAACTTTGAACAAGGTGTAGCCTGTTTAAGAGAAATTGCAAAGCAG
Peptide sequence:
MKKNIYGNIEDLVVHMKMVTPRGVIEKSSQGPRMSTGPDIHHFIMGSEGTLGVITEATIKIRPTPEYQKYGSVAFPNFEQGVACLREIAKQNRILWVDENNLTAHVEAGITGQDLERQLKESGYCTGHEPDSLEFSTVGGWISTRASGMKKNIYGNIEDLVVHMKMVTPRGVIEKSSQGPRMSTGPDIHHFIMGSEGTLGVITEATIKIRPTPEYQKYGSVAFPNFEQGVACLREIAKQ
IRESfinder result
IRESfinder score
0.528824235
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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