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mmu_circAtad2_509
Basic information of circular RNA
PanCircBase ID:
mmu_circAtad2_509
mm39_Chr. Position ID:
chr15|57967826|57970307|-
Gene name:
Atad2
Transcript:
ENSMUST00000038194.5
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
20,19,18
Exon/intron offsets:
0,1046,2294
Genomic length:
2481
Exon/intron sizes in nt:
136,186,187
Flanking exon/introns:
chr15:57966790-57967826|chr15:57970307-57971476
Splice length:
509
Other database IDs:
CIRCpedia: MMU_CIRCpedia_36795, circAtlas: mmu-Atad2_0004
circAtlas: hsa-ATAD2_0025
Human Ortholog IDs:
Mature spliced Sequence:
AAATGCCTGTTACCAGCCTATGTCTTTTCGACCAAGACTATTGATAGTGGGAGAACCAGGATTTGGACAGAGTTCTCACTTGGCACCAGCTGTCATCCATGCTTTGGAAAAATTTACTGTATATACATTAGACATTCCTGTTCTTTTTGGCATCAGTACAACATCTCCTGAAGAGGCATGTTCCCAAATGATTCGTGAAGCTAAGAGAACAGCACCCAGCATAGTCTATGTCCCACATATCCATTTGTGGTGGGAAATAGTTGGACCGACACTCAAAGCCACATTTACAACATTATTACAGACTATACCTTCATTTGCTCCAGTTTTATTACTTGCAACTTCTGAGAAACCATACTCAGCTTTGCCGGAAGAGGTACAAGAATTGTTTACCCATGATTATGGAGAAATTTTTAATGTACAGTTACCAGATAAAGAAGAACGAACCAAATTTTTTGAAGACTTAATTTTAAAACAAGCTTCAAAGCCTCCTGTGTCACAAAAGAAAGCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACCAGATAAAGAAGAACGAACCA
57.78
CAGCTGGTGCCAAGTGAGAA
60.54
178
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACCAGATAAAGAAGAACGAACCA
57.78
GCTGGTGCCAAGTGAGAACT
60.54
176
PCR template sequence:
TTTAATGTACAGTTACCAGATAAAGAAGAACGAACCAAATTTTTTGAAGACTTAATTTTAAAACAAGCTTCAAAGCCTCCTGTGTCACAAAAGAAAGCAGAAATGCCTGTTACCAGCCTATGTCTTTTCGACCAAGACTATTGATAGTGGGAGAACCAGGATTTGGACAGAGTTCTCACTTGGCACCAGCTGTCATCCAT
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-1a-3p(1), mmu-miR-206-3p(1), mmu-miR-30e-5p(1), mmu-miR-320-3p(1), mmu-miR-29b-2-5p(1), mmu-miR-190b-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CAAAAGAAAGCAGAAATGCCTGTTAC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCATAD2_509_ORF_1
0.9536
-0.126227307
0.461051262
534
ORF sequence:
ATGTCTTTTCGACCAAGACTATTGATAGTGGGAGAACCAGGATTTGGACAGAGTTCTCACTTGGCACCAGCTGTCATCCATGCTTTGGAAAAATTTACTGTATATACATTAGACATTCCTGTTCTTTTTGGCATCAGTACAACATCTCCTGAAGAGGCATGTTCCCAAATGATTCGTGAAGCTAAGAGAACAGCACCCAGCATAGTCTATGTCCCACATATCCATTTGTGGTGGGAAATAGTTGGACCGACACTCAAAGCCACATTTACAACATTATTACAGACTATACCTTCATTTGCTCCAGTTTTATTACTTGCAACTTCTGAGAAACCATACTCAGCTTTGCCGGAAGAGGTACAAGAATTGTTTACCCATGATTATGGAGAAATTTTTAATGTACAGTTACCAGATAAAGAAGAACGAACCAAATTTTTTGAAGACTTAATTTTAAAACAAGCTTCAAAGCCTCCTGTGTCACAAAAGAAAGCAGAAATGCCTGTTACCAGCCTATGTCTTTTCGACCAAGACTATTGA
Peptide sequence:
MSFRPRLLIVGEPGFGQSSHLAPAVIHALEKFTVYTLDIPVLFGISTTSPEEACSQMIREAKRTAPSIVYVPHIHLWWEIVGPTLKATFTTLLQTIPSFAPVLLLATSEKPYSALPEEVQELFTHDYGEIFNVQLPDKEERTKFFEDLILKQASKPPVSQKKAEMPVTSLCLFDQDY
IRESfinder result
IRESfinder score
0.839084431
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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