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mmu_circAtad3a_587
Basic information of circular RNA
PanCircBase ID:
mmu_circAtad3a_587
mm39_Chr. Position ID:
chr4|155833127|155836049|-
Gene name:
Atad3a
Transcript:
ENSMUST00000030903.12
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
13,12,11,10,9,8
Exon/intron offsets:
0,486,1461,1802,2197,2766
Genomic length:
2922
Exon/intron sizes in nt:
71,52,12,51,26,57,156
Flanking exon/introns:
chr4:155831938-155833127|chr4:155836049-155838023
Splice length:
587
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTGGCTGGGTTGACACTATTAGCTGTTGGAGTCTATTCTGCAAAGAATGCTACTTCTGTTGCTGGTCGGTATATTGAGGCCCGATTGGGAAAGCCGTCCTTGGTGAGAGAGACCTCCCGAATCTCAGTGCTAGAGGCATTGAGGCATCCCATCCAGGTCAGCAGGCGACTGGTCAGCAGACCCCAGGATGCATTGGAGGGCGTCATCCTCAGTCCTAGCCTGGAGGCACGGGTCCGAGATATTGCCATCGCAACAAGAAATACCAAGAAGAACAAAAGCCTGTATAGGAACGTTCTGATGTATGGGCCCCCGGGGACTGGCAAGACACTATTTGCCAAGAAACTTGCACTGCATTCAGGCATGGACTACGCCATCATGACAGGCGGGGACGTGGCCCCAATGGGGCGGGAGGGTGTGACTGCCATGCACAAGGTCTTCGACTGGGCAAGCACCAGCCGACGAGGCCTCCTGCTCTTTGTGGATGAAGCAGACGCCTTCCTCAGGAAACGAGCGACTGAAAAGATAAGTGAAGACCTCAGGGCTACTCTGAATGCCTTCCTACACAGGACAGGACAGCACAGTAGTAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TTCCTCAGGAAACGAGCGAC
60.04
ACCGACCAGCAACAGAAGTAG
60
162
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TTCCTCAGGAAACGAGCGAC
60.04
GGGCCTCAATATACCGACCAG
60
174
PCR template sequence:
CAGACGCCTTCCTCAGGAAACGAGCGACTGAAAAGATAAGTGAAGACCTCAGGGCTACTCTGAATGCCTTCCTACACAGGACAGGACAGCACAGTAGTAAGTGGCTGGGTTGACACTATTAGCTGTTGGAGTCTATTCTGCAAAGAATGCTACTTCTGTTGCTGGTCGGTATATTGAGGCCCGATTGGGAAAGCCGTCCT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
8
Interacting miRNAs (#binding sites)
mmu-miR-125b-5p(1), mmu-miR-138-5p(1), mmu-miR-433-3p(1), mmu-miR-125a-5p(1), mmu-miR-676-3p(1), mmu-miR-301b-3p(1), mmu-miR-370-3p(1), mmu-miR-301a-3p(1)
siRNAs for circular RNA silencing
Junction sequence
AGCACAGTAGTAAGTGGCTGGGTTGA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCATAD3A_587_ORF_1
0.9785
0.297704806
0.488209536
303
ORF sequence:
ATGTATGGGCCCCCGGGGACTGGCAAGACACTATTTGCCAAGAAACTTGCACTGCATTCAGGCATGGACTACGCCATCATGACAGGCGGGGACGTGGCCCCAATGGGGCGGGAGGGTGTGACTGCCATGCACAAGGTCTTCGACTGGGCAAGCACCAGCCGACGAGGCCTCCTGCTCTTTGTGGATGAAGCAGACGCCTTCCTCAGGAAACGAGCGACTGAAAAGATAAGTGAAGACCTCAGGGCTACTCTGAATGCCTTCCTACACAGGACAGGACAGCACAGTAGTAAGTGGCTGGGTTGA
Peptide sequence:
MYGPPGTGKTLFAKKLALHSGMDYAIMTGGDVAPMGREGVTAMHKVFDWASTSRRGLLLFVDEADAFLRKRATEKISEDLRATLNAFLHRTGQHSSKWLG
IRESfinder result
IRESfinder score
0.383496989
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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