top of page
mmu_ciAtl2_1223
Basic information of circular RNA
PanCircBase ID:
mmu_ciAtl2_1223
mm39_Chr. Position ID:
chr17|80167308|80168531|-
Gene name:
Atl2
Transcript:
ENSMUST00000068282.7
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
6
Exon/intron offsets:
0
Genomic length:
1223
Exon/intron sizes in nt:
1223
Flanking exon/introns:
chr17:80167308-80168531
Splice length:
1223
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAAGCACTTTAAAAATGCACCTGTGAGAAGCTTCAAGCCACAGGACATTATAAACTCATTTGACACCAGAATCAGAACAACGCTATTGCTGTATCATCATCAGCTTACTACTGGTTGAAGCCCAACTGTCTAGGAAACACAGAAATGACTCTAGATTTGTTTGCAATATTTTAAATTGTGGAGGGTGCTTCTCTTCATCGAATGTTATTTAATTCTAGAACTTAAGACAGTAGCGAAATGAAGACGGTATCATGATAAAGTTATAAAATGTCATGCAGGCTTCCTTTTTTGTGATGTTTTACAAGTTGAAGTTGGCCCCTGCTACTCTTCGTTTCCTAGACAGGCTCAGGGTTGCAGGCTGCTGCTCATGTTGCTCTTGGCTGCAGGGACTGGGAGGGAGCAGTCAGTGTGTTTGCCTGTTGCTATGTGGAGTGCATCTAGTGACTATAATATTAGTGGGCTTACATTAATTTTGCCTCATTTTTATCTGACACAGCTGCTTTAGGCAATCAGTTTTATGAAACAGTTGGGCAGATCCTGGCTTCCTTTTGTATATATGGGTAAAATACACTGTGTTTGGTTTATGGTTTTTCTAATCTAGAATGATTATCCACTTAGGAGACATGATGTCTTGATTGTTACAGTTTTGTGGGGTGTCTAATTCTACTGGCATGTGATGCAGAGGGCAGAAATAGTTCTCCATACTGCAAAGGACAGCCATGCACAAGGAATTACCTGGTTCAAAATGCCAGTAGTGCTGAGAAGTCAAATACTGTGGGGATAAGACATTTGTAAGAATGGCCGCTTTATACCAAATCTATAACCAGTGTGGAATTAGCCATCTAAAAGTGTAGGATGGTTTAAAGTGGTGATTCCCTATATAACTTTTGTTCATTTTTGGCTTTGGGTGTTAGTACTCCAATGACTCCTTCTGTGTATGACATTCTCAAGAGGAGCTGAGCAGTTGGTGCCAGGGCTGGGCTGGGCTTTCAGTGGCATTGATCGTAACCACGGAGAGCAGACTCACTATTTGGTTACTGGAACCATTTTTATTTTTAAATTTTTGGTGCTGAGAGTTGAACCCAGGACCTCATCAAGAGTGACAGTCATATATGTTCTACCCACCAAGCTACTCATTCTAGTCTTGATTAACGTTGTTTATATAGGAGGAAGTTTTAAGTAATTTTAGGATTTTGTAACAAGTATTTTTTTCTGTATGTAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CACCAAGCTACTCATTCTAGTCT
57.41
TGTCCTGTGGCTTGAAGCTT
59.82
148
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACCAAGCTACTCATTCTAGTCTTGA
59.28
TGTCCTGTGGCTTGAAGCTT
59.82
147
PCR template sequence:
CACCAAGCTACTCATTCTAGTCTTGATTAACGTTGTTTATATAGGAGGAAGTTTTAAGTAATTTTAGGATTTTGTAACAAGTATTTTTTTCTGTATGTAGGTAAGCACTTTAAAAATGCACCTGTGAGAAGCTTCAAGCCACAGGACATTATAAACTCATTTGACACCAGAATCAGAACAACGCTATTGCTGTATCATCA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
18
Interacting miRNAs (#binding sites)
mmu-miR-106a-5p(1), mmu-miR-20a-5p(1), mmu-miR-17-5p(1), mmu-miR-106b-5p(1), mmu-miR-29b-3p(1), mmu-miR-335-5p(1), mmu-miR-29c-3p(1), mmu-miR-433-3p(1), mmu-miR-125a-5p(1), mmu-miR-199b-3p(1), mmu-miR-199a-3p(1), mmu-miR-384-3p(1), mmu-miR-802-5p(1), mmu-miR-335-3p(1), mmu-miR-452-3p(1), mmu-miR-466b-3p(1), mmu-miR-544-5p(1), mmu-miR-7a-1-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TTTCTGTATGTAGGTAAGCACTTTAA
siRNA sets
AAAGTGCTTACCTACATAC, TTAAAGTGCTTACCTACAT, TAAAGTGCTTACCTACATA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
NA
NA
NA
NA
NA
ORF sequence:
NA
Peptide sequence:
NA
IRESfinder result
IRESfinder score
0.75863888
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page