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mmu_circAtad5_1021
Basic information of circular RNA
PanCircBase ID:
mmu_circAtad5_1021
mm39_Chr. Position ID:
chr11|80022029|80024132|+
Gene name:
Atad5
Transcript:
ENSMUST00000017694.7
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
20,21
Exon/intron offsets:
0,1261
Genomic length:
2103
Exon/intron sizes in nt:
1,79,842
Flanking exon/introns:
chr11:80018263-80022029|chr11:80024132-80024854
Splice length:
1021
Other database IDs:
CIRCpedia: MMU_CIRCpedia_30375, circAtlas: mmu-Atad5_0022
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_129630
Human Ortholog IDs:
Mature spliced Sequence:
GAGAAAATAGCAGAAATACACTGGTTTGTTCAGAAGATGGCTCTGATGCAAACATCAACTCTAAAAAACCCAAAAGGAACCGTGTGGCCCTCCCCAGGTGTGACACTGGCTGTGCAGAGGCTTTGTTTGGACTCAAGAACATTGCCTCCCCATCCCAGGACTTACTTTCATTATTGAAGCACAAGATCACAACAAAGGAAGAATGGCAGAAACTCATTCAGGTTCTCACCGAATTCCACGTGCAAAATATCGATCTGCTACATAGTAACCTTGAGGTCATCCTGCCACTGCCAGTTCATGTGGTTCCAGATGTAAGGGGTGCTTATGGCTTCCCAGTGACTACACAGGCCAGTGCACCAGCAAGCATGGGGCATCTTACCAGGAAGCAGTCAAAAGACCAGCCATTGAGAAAGTCACAGAAAAGGAAACAGAAAAAGATGGTGATCCTAGATGACAGTGACCTGTTTGACACTGGCCTAGACTTTTCTGGTGAACTGCCTAGCCTATCTCCTGCACCCTCCTTGTCTGTAGAAGACAACATAAGAAGAGACAGCAATCCAGAGATTAAGACACAGAACAGTGGTTTCAAGCCCCACTCTGTACCTCAGCCCCCTAAGACACTAGCAGAGAAGAAGTGTTGCATGCTCGTTTCCCACTGTTTAAATTCTCTCAGTGAGTTCATGGAGAACATGTCCTTCATAGATGCTCTTTTAACAGATCCAGGGGAACAGAATGAATTGGGTAGAAGTGCCTTTCACTGGACAAATGGAAGGGTTAAAAGTGGACTTTGTGATGAGTTTAGTCTTGAGAATAGAGACAGGTGGGCTCCTCAGAGCGCTGGAGAATTAAAAGCAACTGCAGAAGCACTGAGCTTTACTGAGTGTTCTTCTACCATTTCAAAAGCACTGGAGTCCTTGAATTCATGCAAGCAATTAGAAAGAGACCCAACCAATGAACTCACAGTCTGTGTTTCACAAAGGCGCCATGATGCATGCTTCCGCCAATCAGCAGCTAATCTAGA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGTTTCACAAAGGCGCCATG
59.97
CCACACGGTTCCTTTTGGGT
60.75
141
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GTGTTTCACAAAGGCGCCAT
59.97
CCACACGGTTCCTTTTGGGT
60.75
142
PCR template sequence:
CATGCAAGCAATTAGAAAGAGACCCAACCAATGAACTCACAGTCTGTGTTTCACAAAGGCGCCATGATGCATGCTTCCGCCAATCAGCAGCTAATCTAGAGAGAAAATAGCAGAAATACACTGGTTTGTTCAGAAGATGGCTCTGATGCAAACATCAACTCTAAAAAACCCAAAAGGAACCGTGTGGCCCTCCCCAGGTG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
6
Interacting miRNAs (#binding sites)
mmu-miR-199a-5p(2), mmu-miR-203-3p(1), mmu-miR-495-3p(1), mmu-miR-690(1), mmu-miR-3087-3p(1), mmu-miR-350-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CAGCTAATCTAGAGAGAAAATAGCAG
siRNA sets
TTTCTCTCTAGATTAGCTG, TTTTCTCTCTAGATTAGCT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCATAD5_1021_ORF_1
0.6399
0.004987664
0.67383773
666
ORF sequence:
ATGGGGCATCTTACCAGGAAGCAGTCAAAAGACCAGCCATTGAGAAAGTCACAGAAAAGGAAACAGAAAAAGATGGTGATCCTAGATGACAGTGACCTGTTTGACACTGGCCTAGACTTTTCTGGTGAACTGCCTAGCCTATCTCCTGCACCCTCCTTGTCTGTAGAAGACAACATAAGAAGAGACAGCAATCCAGAGATTAAGACACAGAACAGTGGTTTCAAGCCCCACTCTGTACCTCAGCCCCCTAAGACACTAGCAGAGAAGAAGTGTTGCATGCTCGTTTCCCACTGTTTAAATTCTCTCAGTGAGTTCATGGAGAACATGTCCTTCATAGATGCTCTTTTAACAGATCCAGGGGAACAGAATGAATTGGGTAGAAGTGCCTTTCACTGGACAAATGGAAGGGTTAAAAGTGGACTTTGTGATGAGTTTAGTCTTGAGAATAGAGACAGGTGGGCTCCTCAGAGCGCTGGAGAATTAAAAGCAACTGCAGAAGCACTGAGCTTTACTGAGTGTTCTTCTACCATTTCAAAAGCACTGGAGTCCTTGAATTCATGCAAGCAATTAGAAAGAGACCCAACCAATGAACTCACAGTCTGTGTTTCACAAAGGCGCCATGATGCATGCTTCCGCCAATCAGCAGCTAATCTAGAGAGAAAATAG
Peptide sequence:
MGHLTRKQSKDQPLRKSQKRKQKKMVILDDSDLFDTGLDFSGELPSLSPAPSLSVEDNIRRDSNPEIKTQNSGFKPHSVPQPPKTLAEKKCCMLVSHCLNSLSEFMENMSFIDALLTDPGEQNELGRSAFHWTNGRVKSGLCDEFSLENRDRWAPQSAGELKATAEALSFTECSSTISKALESLNSCKQLERDPTNELTVCVSQRRHDACFRQSAANLERK
IRESfinder result
IRESfinder score
0.712909147
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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