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mmu_circAifm3_1251
Basic information of circular RNA
PanCircBase ID:
mmu_circAifm3_1251
mm39_Chr. Position ID:
chr16|17317411|17320821|+
Gene name:
Aifm3
Transcript:
ENSMUST00000115685.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
12
Exon/intron indexes:
3,4,5,6,7,8,9,10,11,12,13,14
Exon/intron offsets:
0,453,741,942,1199,1378,1905,2543,2718,2948,3165,3346
Genomic length:
3410
Exon/intron sizes in nt:
214,110,110,45,97,113,87,92,131,116,72,64
Flanking exon/introns:
chr16:17309967-17317411|chr16:17320821-17321329
Splice length:
1251
Other database IDs:
CIRCpedia: MMU_CIRCpedia_11969, circAtlas: mmu-Aifm3_0001
Human Ortholog IDs:
Mature spliced Sequence:
TGGAGCTCAAGATTGAAGTGGTGCTGCCAGAGAAAGAGCGGGGCAAGGAGGAGCTGTCAGCCAGCGGAAAGGGCAGCCCCCGGGGTTACCAGGGCAACGGCACAGCACGCCACTTCCATGCTGAAGAGCGGCTGCCCACCCCACAACCCTATCCCAGCCCTCAGGACTGTGTGGAGGCTACTGTCTGCCATGTCAAGGACCTCGAGAATGGCCAGATGCGGGAAGTGGAGCTGGGCTGGGGAAAGGTGTTGCTGGTGAAGGACAATGGGGAATTCCATGCCCTGGGCCATAAGTGTCCTCACTATGGAGCGCCCCTGGTGAAAGGTGTACTGTCCCGGGGACGTGTGCGCTGCCCCTGGCATGGTGCCTGCTTCAACATTAGTACTGGGGACCTAGAGGACTTCCCAGGCCTGGACAGCCTGCATAAGTTCCAGGTGAAGATTGAGAAGGAGAAGGTGACCATTCGGGCAAGCAAGCAGGCCCTGCAGCTACAGCGGAGGACAAAGGTGATGGCCAAGTGTATCTCTCCAAGTGCTGGCCACAGCAGTAGCACCAACGTGCTCATAGTGGGTGCAGGTGCTGCTGGCCTAGTGTGTGCAGAAACACTGAGGCAGGAGGGCTTCTCAGACCGGATTGTCCTTTGCACACTGGATCGACATCTGCCCTATGACCGGGCCAAGCTCAGCAAGTCCCTGGATGCACAACCCGAACAGCTGGCCCTGAGACCCAAGGAATTCTTCCGGGCCTATGGCATTGAGATGCTCACTGAGGCTCAGGTAGTCACAGTGGACGTGAGAAATAAGAAGGTTGTGTTCAAGGATGGCTTCAAGCTAGAGTACAGCAAGCTGCTGCTGGCACCAGGAAGTAGCCCTAAGACCCTGACCTGCAAAGGGAAAGATGTAGAGAATGTGTTCACCATTCGCACGCCCGAGGATGCCAACCGCGTGCTGCGGCTCGCCCGGGGCCGCAATGCTGTTGTTGTGGGAGCAGGCTTTCTGGGAATGGAGGTTGCTGCTTATCTGACTGAGAAAGCCCACTCAGTATCCGTGGTAGAGCTGGAGGAGACACCCTTCCGGAGGTTCCTGGGGGAACGTGTTGGTCGTGCACTTATGAAGATGTTTGAAAACAACCGGGTGAAGTTCTATATGCAGACAGAGGTGTCAGAGTTGCGGGCTCAAGAGGGCAAGCTGCAGGAGGTGGTGCTGAAGAGCAGCAAAGTCCTGCGAGCAGATGTCTGCGTGTTAGGCATTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACAGAGGTGTCAGAGTTGCG
59.97
TTGCCCCGCTCTTTCTCTG
60
146
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACAGAGGTGTCAGAGTTGCG
59.97
CTTGCCCCGCTCTTTCTCTG
61.02
147
PCR template sequence:
ACAGAGGTGTCAGAGTTGCGGGCTCAAGAGGGCAAGCTGCAGGAGGTGGTGCTGAAGAGCAGCAAAGTCCTGCGAGCAGATGTCTGCGTGTTAGGCATTGTGGAGCTCAAGATTGAAGTGGTGCTGCCAGAGAAAGAGCGGGGCAAGGAGGAGCTGTCAGCCAGCGGAAAGGGCAGCCCCCGGGGTTACCAGGGCAACGG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
14
Interacting miRNAs (#binding sites)
mmu-miR-322-5p(2), mmu-miR-29a-3p(2), mmu-miR-207(2), mmu-miR-16-5p(1), mmu-miR-199a-5p(1), mmu-miR-15b-5p(1), mmu-miR-29b-3p(1), mmu-miR-29c-3p(1), mmu-miR-199b-3p(1), mmu-miR-199a-3p(1), mmu-miR-541-5p(1), mmu-miR-362-5p(1), mmu-miR-384-3p(1), mmu-miR-296-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GTGTTAGGCATTGTGGAGCTCAAGAT
siRNA sets
TCTTGAGCTCCACAATGCC, ATCTTGAGCTCCACAATGC, CTTGAGCTCCACAATGCCT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCAIFM3_1251_ORF_1
1.215
0.455910245
0.999999778
2286
ORF sequence:
ATGCGGGAAGTGGAGCTGGGCTGGGGAAAGGTGTTGCTGGTGAAGGACAATGGGGAATTCCATGCCCTGGGCCATAAGTGTCCTCACTATGGAGCGCCCCTGGTGAAAGGTGTACTGTCCCGGGGACGTGTGCGCTGCCCCTGGCATGGTGCCTGCTTCAACATTAGTACTGGGGACCTAGAGGACTTCCCAGGCCTGGACAGCCTGCATAAGTTCCAGGTGAAGATTGAGAAGGAGAAGGTGACCATTCGGGCAAGCAAGCAGGCCCTGCAGCTACAGCGGAGGACAAAGGTGATGGCCAAGTGTATCTCTCCAAGTGCTGGCCACAGCAGTAGCACCAACGTGCTCATAGTGGGTGCAGGTGCTGCTGGCCTAGTGTGTGCAGAAACACTGAGGCAGGAGGGCTTCTCAGACCGGATTGTCCTTTGCACACTGGATCGACATCTGCCCTATGACCGGGCCAAGCTCAGCAAGTCCCTGGATGCACAACCCGAACAGCTGGCCCTGAGACCCAAGGAATTCTTCCGGGCCTATGGCATTGAGATGCTCACTGAGGCTCAGGTAGTCACAGTGGACGTGAGAAATAAGAAGGTTGTGTTCAAGGATGGCTTCAAGCTAGAGTACAGCAAGCTGCTGCTGGCACCAGGAAGTAGCCCTAAGACCCTGACCTGCAAAGGGAAAGATGTAGAGAATGTGTTCACCATTCGCACGCCCGAGGATGCCAACCGCGTGCTGCGGCTCGCCCGGGGCCGCAATGCTGTTGTTGTGGGAGCAGGCTTTCTGGGAATGGAGGTTGCTGCTTATCTGACTGAGAAAGCCCACTCAGTATCCGTGGTAGAGCTGGAGGAGACACCCTTCCGGAGGTTCCTGGGGGAACGTGTTGGTCGTGCACTTATGAAGATGTTTGAAAACAACCGGGTGAAGTTCTATATGCAGACAGAGGTGTCAGAGTTGCGGGCTCAAGAGGGCAAGCTGCAGGAGGTGGTGCTGAAGAGCAGCAAAGTCCTGCGAGCAGATGTCTGCGTGTTAGGCATTGTGGAGCTCAAGATTGAAGTGGTGCTGCCAGAGAAAGAGCGGGGCAAGGAGGAGCTGTCAGCCAGCGGAAAGGGCAGCCCCCGGGGTTACCAGGGCAACGGCACAGCACGCCACTTCCATGCTGAAGAGCGGCTGCCCACCCCACAACCCTATCCCAGCCCTCAGGACTGTGTGGAGGCTACTGTCTGCCATGTCAAGGACCTCGAGAATGGCCAGATGCGGGAAGTGGAGCTGGGCTGGGGAAAGGTGTTGCTGGTGAAGGACAATGGGGAATTCCATGCCCTGGGCCATAAGTGTCCTCACTATGGAGCGCCCCTGGTGAAAGGTGTACTGTCCCGGGGACGTGTGCGCTGCCCCTGGCATGGTGCCTGCTTCAACATTAGTACTGGGGACCTAGAGGACTTCCCAGGCCTGGACAGCCTGCATAAGTTCCAGGTGAAGATTGAGAAGGAGAAGGTGACCATTCGGGCAAGCAAGCAGGCCCTGCAGCTACAGCGGAGGACAAAGGTGATGGCCAAGTGTATCTCTCCAAGTGCTGGCCACAGCAGTAGCACCAACGTGCTCATAGTGGGTGCAGGTGCTGCTGGCCTAGTGTGTGCAGAAACACTGAGGCAGGAGGGCTTCTCAGACCGGATTGTCCTTTGCACACTGGATCGACATCTGCCCTATGACCGGGCCAAGCTCAGCAAGTCCCTGGATGCACAACCCGAACAGCTGGCCCTGAGACCCAAGGAATTCTTCCGGGCCTATGGCATTGAGATGCTCACTGAGGCTCAGGTAGTCACAGTGGACGTGAGAAATAAGAAGGTTGTGTTCAAGGATGGCTTCAAGCTAGAGTACAGCAAGCTGCTGCTGGCACCAGGAAGTAGCCCTAAGACCCTGACCTGCAAAGGGAAAGATGTAGAGAATGTGTTCACCATTCGCACGCCCGAGGATGCCAACCGCGTGCTGCGGCTCGCCCGGGGCCGCAATGCTGTTGTTGTGGGAGCAGGCTTTCTGGGAATGGAGGTTGCTGCTTATCTGACTGAGAAAGCCCACTCAGTATCCGTGGTAGAGCTGGAGGAGACACCCTTCCGGAGGTTCCTGGGGGAACGTGTTGGTCGTGCACTTATGAAGATGTTTGAAAACAACCGGGTGAAGTTCTATATGCAGACAGAGGTGTCAGAGTTGCGGGCTCAAGAGGGCAAGCTGCAGGAGGTGGTGCTGAAGAGCAGCAAAGTCCTGCGAGCAGATGTCTGCGTGTTAGGCATT
Peptide sequence:
MREVELGWGKVLLVKDNGEFHALGHKCPHYGAPLVKGVLSRGRVRCPWHGACFNISTGDLEDFPGLDSLHKFQVKIEKEKVTIRASKQALQLQRRTKVMAKCISPSAGHSSSTNVLIVGAGAAGLVCAETLRQEGFSDRIVLCTLDRHLPYDRAKLSKSLDAQPEQLALRPKEFFRAYGIEMLTEAQVVTVDVRNKKVVFKDGFKLEYSKLLLAPGSSPKTLTCKGKDVENVFTIRTPEDANRVLRLARGRNAVVVGAGFLGMEVAAYLTEKAHSVSVVELEETPFRRFLGERVGRALMKMFENNRVKFYMQTEVSELRAQEGKLQEVVLKSSKVLRADVCVLGIVELKIEVVLPEKERGKEELSASGKGSPRGYQGNGTARHFHAEERLPTPQPYPSPQDCVEATVCHVKDLENGQMREVELGWGKVLLVKDNGEFHALGHKCPHYGAPLVKGVLSRGRVRCPWHGACFNISTGDLEDFPGLDSLHKFQVKIEKEKVTIRASKQALQLQRRTKVMAKCISPSAGHSSSTNVLIVGAGAAGLVCAETLRQEGFSDRIVLCTLDRHLPYDRAKLSKSLDAQPEQLALRPKEFFRAYGIEMLTEAQVVTVDVRNKKVVFKDGFKLEYSKLLLAPGSSPKTLTCKGKDVENVFTIRTPEDANRVLRLARGRNAVVVGAGFLGMEVAAYLTEKAHSVSVVELEETPFRRFLGERVGRALMKMFENNRVKFYMQTEVSELRAQEGKLQEVVLKSSKVLRADVCVLGI
IRESfinder result
IRESfinder score
0.214034638
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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