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mmu_circAgap1_790
Basic information of circular RNA
PanCircBase ID:
mmu_circAgap1_790
mm39_Chr. Position ID:
chr1|89694027|89770965|+
Gene name:
Agap1
Transcript:
ENSMUST00000027521.15
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
12,13,14,15,16
Exon/intron offsets:
0,22857,68128,71406,76715
Genomic length:
76938
Exon/intron sizes in nt:
1,59,16,21,55,91,223
Flanking exon/introns:
chr1:89671618-89694027|chr1:89770965-89815227
Splice length:
790
Other database IDs:
circAtlas: hsa-AGAP1_0024
Human Ortholog IDs:
Mature spliced Sequence:
GGAATGTCACTAGTGCGTCTGGGTCTCAGATGGCAAGCGGCATCAGCCTGGTCTCCTTCAACAGCCGACCCGATGGCATGCACCAGCGCTCCTACTCAGTCTCCAGTGCCGACCAGTGGAGTGACGCTACAGTCATTGCAAACTCAGCCATCAGCAGTGACACGGGGCTGGGTGACTCGGTGTGTTCCAGCCCAAGTATCTCCAGCAGCACCAGCCCCAAGCTCGACCCACCCCCCTCCCCCCACGCCAACAGAAAGAAGCACCGGAGGAAGAAAAGTACCAGCAACTTCAAGGCTGACGGGCTCTCAGGCACTGCTGAAGAGCAAGAAGAAAACTTGGAGTTTATCATTGTGTCCCTCACTGGCCAGACGTGGCACTTTGAAGCCACCACATACGAGGAGCGAGACGCATGGGTCCAAGCCATCGAGAGCCAGATCCTCGCCAGCCTGCAGTCGTGCGAGAGCAGCAAGAATAAGTCCCGACTAACCAGCCAGAGCGAAGCCATGGCCCTGCAGTCCATCCGTAACATGAGAGGGAACTCGCACTGCGTGGACTGTGACACCCAAAACCCTAACTGGGCCAGTTTGAACTTGGGAGCCCTCATGTGTATCGAGTGCTCGGGGATCCACCGGAATCTCGGCACCCACCTCTCTCGGGTCAGATCGCTAGACCTGGACGACTGGCCCATGGAGCTGATCAAGGTGATGTCATCCATCGGGAATGAGCTGGCCAACAGCGTGTGGGAAGAGGGCAGCCAGGGACGGACAAAGCCCTCACTGGACTCCACCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGGAATGAGCTGGCCAACA
60.3
GGCTGTTGAAGGAGACCAGG
60.32
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGGAATGAGCTGGCCAACA
60.3
GTCGGCTGTTGAAGGAGACC
60.67
143
PCR template sequence:
AGCTGATCAAGGTGATGTCATCCATCGGGAATGAGCTGGCCAACAGCGTGTGGGAAGAGGGCAGCCAGGGACGGACAAAGCCCTCACTGGACTCCACCAGGGAATGTCACTAGTGCGTCTGGGTCTCAGATGGCAAGCGGCATCAGCCTGGTCTCCTTCAACAGCCGACCCGATGGCATGCACCAGCGCTCCTACTCAGT
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-138-5p(2), mmu-miR-93-5p(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
TGGACTCCACCAGGGAATGTCACTAG
siRNA sets
TAGTGACATTCCCTGGTGG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCAGAP1_790_ORF_1
0.9344
0.396370523
0.986208134
858
ORF sequence:
ATGAGCTGGCCAACAGCGTGTGGGAAGAGGGCAGCCAGGGACGGACAAAGCCCTCACTGGACTCCACCAGGGAATGTCACTAGTGCGTCTGGGTCTCAGATGGCAAGCGGCATCAGCCTGGTCTCCTTCAACAGCCGACCCGATGGCATGCACCAGCGCTCCTACTCAGTCTCCAGTGCCGACCAGTGGAGTGACGCTACAGTCATTGCAAACTCAGCCATCAGCAGTGACACGGGGCTGGGTGACTCGGTGTGTTCCAGCCCAAGTATCTCCAGCAGCACCAGCCCCAAGCTCGACCCACCCCCCTCCCCCCACGCCAACAGAAAGAAGCACCGGAGGAAGAAAAGTACCAGCAACTTCAAGGCTGACGGGCTCTCAGGCACTGCTGAAGAGCAAGAAGAAAACTTGGAGTTTATCATTGTGTCCCTCACTGGCCAGACGTGGCACTTTGAAGCCACCACATACGAGGAGCGAGACGCATGGGTCCAAGCCATCGAGAGCCAGATCCTCGCCAGCCTGCAGTCGTGCGAGAGCAGCAAGAATAAGTCCCGACTAACCAGCCAGAGCGAAGCCATGGCCCTGCAGTCCATCCGTAACATGAGAGGGAACTCGCACTGCGTGGACTGTGACACCCAAAACCCTAACTGGGCCAGTTTGAACTTGGGAGCCCTCATGTGTATCGAGTGCTCGGGGATCCACCGGAATCTCGGCACCCACCTCTCTCGGGTCAGATCGCTAGACCTGGACGACTGGCCCATGGAGCTGATCAAGGTGATGTCATCCATCGGGAATGAGCTGGCCAACAGCGTGTGGGAAGAGGGCAGCCAGGGACGGACAAAGCCCTCACTGGACTCCACC
Peptide sequence:
MSWPTACGKRAARDGQSPHWTPPGNVTSASGSQMASGISLVSFNSRPDGMHQRSYSVSSADQWSDATVIANSAISSDTGLGDSVCSSPSISSSTSPKLDPPPSPHANRKKHRRKKSTSNFKADGLSGTAEEQEENLEFIIVSLTGQTWHFEATTYEERDAWVQAIESQILASLQSCESSKNKSRLTSQSEAMALQSIRNMRGNSHCVDCDTQNPNWASLNLGALMCIECSGIHRNLGTHLSRVRSLDLDDWPMELIKVMSSIGNELANSVWEEGSQGRTKPSLDST
IRESfinder result
IRESfinder score
0.341477431
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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