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mmu_circAgap1_631
Basic information of circular RNA
PanCircBase ID:
mmu_circAgap1_631
mm39_Chr. Position ID:
chr1|89716884|89770965|+
Gene name:
Agap1
Transcript:
ENSMUST00000027521.15
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
13,14,15,16
Exon/intron offsets:
0,45271,48549,53858
Genomic length:
54081
Exon/intron sizes in nt:
16,21,55,91,223
Flanking exon/introns:
chr1:89694186-89716884|chr1:89770965-89815227
Splice length:
631
Other database IDs:
CIRCpedia: MMU_CIRCpedia_33532, circAtlas: mmu-Agap1_0032
circBase: hsa_circ_0058812, circAtlas: hsa-AGAP1_0032, CIRCpedia: HSA_CIRCpedia_40127
Human Ortholog IDs:
Mature spliced Sequence:
ACACGGGGCTGGGTGACTCGGTGTGTTCCAGCCCAAGTATCTCCAGCAGCACCAGCCCCAAGCTCGACCCACCCCCCTCCCCCCACGCCAACAGAAAGAAGCACCGGAGGAAGAAAAGTACCAGCAACTTCAAGGCTGACGGGCTCTCAGGCACTGCTGAAGAGCAAGAAGAAAACTTGGAGTTTATCATTGTGTCCCTCACTGGCCAGACGTGGCACTTTGAAGCCACCACATACGAGGAGCGAGACGCATGGGTCCAAGCCATCGAGAGCCAGATCCTCGCCAGCCTGCAGTCGTGCGAGAGCAGCAAGAATAAGTCCCGACTAACCAGCCAGAGCGAAGCCATGGCCCTGCAGTCCATCCGTAACATGAGAGGGAACTCGCACTGCGTGGACTGTGACACCCAAAACCCTAACTGGGCCAGTTTGAACTTGGGAGCCCTCATGTGTATCGAGTGCTCGGGGATCCACCGGAATCTCGGCACCCACCTCTCTCGGGTCAGATCGCTAGACCTGGACGACTGGCCCATGGAGCTGATCAAGGTGATGTCATCCATCGGGAATGAGCTGGCCAACAGCGTGTGGGAAGAGGGCAGCCAGGGACGGACAAAGCCCTCACTGGACTCCACCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AACAGCGTGTGGGAAGAGG
59.93
TTCTTTCTGTTGGCGTGGGG
60.82
159
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCAACAGCGTGTGGGAAGA
60.23
TTCTTTCTGTTGGCGTGGGG
60.82
161
PCR template sequence:
AGCTGATCAAGGTGATGTCATCCATCGGGAATGAGCTGGCCAACAGCGTGTGGGAAGAGGGCAGCCAGGGACGGACAAAGCCCTCACTGGACTCCACCAGACACGGGGCTGGGTGACTCGGTGTGTTCCAGCCCAAGTATCTCCAGCAGCACCAGCCCCAAGCTCGACCCACCCCCCTCCCCCCACGCCAACAGAAAGAA
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-93-5p(1), mmu-miR-138-5p(1), mmu-miR-149-5p(1), mmu-miR-351-5p(1), mmu-miR-125a-5p(1), mmu-miR-188-3p(1), mmu-miR-193b-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TGGACTCCACCAGACACGGGGCTGGG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCAGAP1_631_ORF_1
1.0369
0.393332144
0.96470299
699
ORF sequence:
ATGAGCTGGCCAACAGCGTGTGGGAAGAGGGCAGCCAGGGACGGACAAAGCCCTCACTGGACTCCACCAGACACGGGGCTGGGTGACTCGGTGTGTTCCAGCCCAAGTATCTCCAGCAGCACCAGCCCCAAGCTCGACCCACCCCCCTCCCCCCACGCCAACAGAAAGAAGCACCGGAGGAAGAAAAGTACCAGCAACTTCAAGGCTGACGGGCTCTCAGGCACTGCTGAAGAGCAAGAAGAAAACTTGGAGTTTATCATTGTGTCCCTCACTGGCCAGACGTGGCACTTTGAAGCCACCACATACGAGGAGCGAGACGCATGGGTCCAAGCCATCGAGAGCCAGATCCTCGCCAGCCTGCAGTCGTGCGAGAGCAGCAAGAATAAGTCCCGACTAACCAGCCAGAGCGAAGCCATGGCCCTGCAGTCCATCCGTAACATGAGAGGGAACTCGCACTGCGTGGACTGTGACACCCAAAACCCTAACTGGGCCAGTTTGAACTTGGGAGCCCTCATGTGTATCGAGTGCTCGGGGATCCACCGGAATCTCGGCACCCACCTCTCTCGGGTCAGATCGCTAGACCTGGACGACTGGCCCATGGAGCTGATCAAGGTGATGTCATCCATCGGGAATGAGCTGGCCAACAGCGTGTGGGAAGAGGGCAGCCAGGGACGGACAAAGCCCTCACTGGACTCCACC
Peptide sequence:
MSWPTACGKRAARDGQSPHWTPPDTGLGDSVCSSPSISSSTSPKLDPPPSPHANRKKHRRKKSTSNFKADGLSGTAEEQEENLEFIIVSLTGQTWHFEATTYEERDAWVQAIESQILASLQSCESSKNKSRLTSQSEAMALQSIRNMRGNSHCVDCDTQNPNWASLNLGALMCIECSGIHRNLGTHLSRVRSLDLDDWPMELIKVMSSIGNELANSVWEEGSQGRTKPSLDST
IRESfinder result
IRESfinder score
0.368201304
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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