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mmu_circAtf2_762
Basic information of circular RNA
PanCircBase ID:
mmu_circAtf2_762
mm39_Chr. Position ID:
chr2|73672703|73701029|-
Gene name:
Atf2
Transcript:
ENSMUST00000112007.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
10,9,8,7,6,5,4
Exon/intron offsets:
0,3079,3837,8229,8504,20809,28263
Genomic length:
28326
Exon/intron sizes in nt:
87,115,179,129,119,70,63
Flanking exon/introns:
chr2:73660285-73672703|chr2:73701029-73704013
Splice length:
762
Other database IDs:
circAtlas: mmu-Atf2_0036
Human Ortholog IDs:
Mature spliced Sequence:
ATACTGGATTTATGACTTAAAACCTTCCCACAGAGAAAATCCCAGGCTCATATAGCTTCACTGATAAAACACGGACCTGTGGAATATGAGTGATGACAAACCCTTTCTATGCACTGCCCCTGGGTGTGGCCAGATCAGACTCCAACGCCAACAAGATTCCTAAAAAACTGTGAAGAAGTGGGTTTGTTCAATGAGTTGGCAAGTCCATTTGAAAATGAATTCAAGAAGGCTTCCGAAGATGACATTAAAAAAATGCCTCTAGATTTGTCCCCTCTTGCAACACCCATCATAAGAAGCAAAATTGAGGAGCCTTCTGTTGTAGAAACAACTCACCAGGACAGCCCTTTACCTCACCCCGAGTCGACTACCAGTGATGAAAAGGAAGTACCATTGGCACAAACTGCACAGCCCACATCAGCTATCGTTCGTCCAGCATCATTACAGGTTCCCAATGTGCTGCTCACAAGTTCTGACTCAAGTGTAATTATTCAACAAGCAGTACCTTCACCAACCTCAAGTACTGTAATCACCCAGGCACCATCCTCTAACAGGCCAATTGTTCCTGTACCAGGCCCATTTCCTCTTCTCTTACATCTTCCTAATGGACAAACCATGCCCGTTGCTATTCCTGCATCAATTACAAGTTCTAATGTGCATGTTCCAGCTGCAGTCCCACTTGTTCGGCCAGTCACCATGGTGCCTAGTGTTCCAGGAATCCCAGGCCCTTCCTCTCCTCAACCAGTCCAGTCAGAAGCAAAAATG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGCTGCAGTCCCACTTGTTC
60.54
AGCCTGGGATTTTCTCTGTGG
59.99
148
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGCTGCAGTCCCACTTGTTC
60.54
GCCTGGGATTTTCTCTGTGG
58.53
147
PCR template sequence:
AGCTGCAGTCCCACTTGTTCGGCCAGTCACCATGGTGCCTAGTGTTCCAGGAATCCCAGGCCCTTCCTCTCCTCAACCAGTCCAGTCAGAAGCAAAAATGATACTGGATTTATGACTTAAAACCTTCCCACAGAGAAAATCCCAGGCTCATATAGCTTCACTGATAAAACACGGACCTGTGGAATATGAGTGATGACAAA
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-134-5p(1), mmu-miR-16-5p(1), mmu-miR-15a-5p(1), mmu-miR-34a-5p(1), mmu-miR-101a-3p(1), mmu-miR-15b-5p(1), mmu-miR-152-3p(1), mmu-miR-148b-3p(1), mmu-miR-148a-3p(1), mmu-miR-101b-3p(1), mmu-miR-127-5p(1), mmu-miR-129-5p(1), mmu-miR-335-3p(1), mmu-miR-193b-3p(1)
siRNAs for circular RNA silencing
Junction sequence
AGAAGCAAAAATGATACTGGATTTAT
siRNA sets
AATCCAGTATCATTTTTGC,TAAATCCAGTATCATTTTT,AAATCCAGTATCATTTTTG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCATF2_762_ORF_1
1.1957
0.002210126
0.855898023
669
ORF sequence:
ATGCACTGCCCCTGGGTGTGGCCAGATCAGACTCCAACGCCAACAAGATTCCTAAAAAACTGTGAAGAAGTGGGTTTGTTCAATGAGTTGGCAAGTCCATTTGAAAATGAATTCAAGAAGGCTTCCGAAGATGACATTAAAAAAATGCCTCTAGATTTGTCCCCTCTTGCAACACCCATCATAAGAAGCAAAATTGAGGAGCCTTCTGTTGTAGAAACAACTCACCAGGACAGCCCTTTACCTCACCCCGAGTCGACTACCAGTGATGAAAAGGAAGTACCATTGGCACAAACTGCACAGCCCACATCAGCTATCGTTCGTCCAGCATCATTACAGGTTCCCAATGTGCTGCTCACAAGTTCTGACTCAAGTGTAATTATTCAACAAGCAGTACCTTCACCAACCTCAAGTACTGTAATCACCCAGGCACCATCCTCTAACAGGCCAATTGTTCCTGTACCAGGCCCATTTCCTCTTCTCTTACATCTTCCTAATGGACAAACCATGCCCGTTGCTATTCCTGCATCAATTACAAGTTCTAATGTGCATGTTCCAGCTGCAGTCCCACTTGTTCGGCCAGTCACCATGGTGCCTAGTGTTCCAGGAATCCCAGGCCCTTCCTCTCCTCAACCAGTCCAGTCAGAAGCAAAAATGATACTGGATTTATGA
Peptide sequence:
MHCPWVWPDQTPTPTRFLKNCEEVGLFNELASPFENEFKKASEDDIKKMPLDLSPLATPIIRSKIEEPSVVETTHQDSPLPHPESTTSDEKEVPLAQTAQPTSAIVRPASLQVPNVLLTSSDSSVIIQQAVPSPTSSTVITQAPSSNRPIVPVPGPFPLLLHLPNGQTMPVAIPASITSSNVHVPAAVPLVRPVTMVPSVPGIPGPSSPQPVQSEAKMILDL
IRESfinder result
IRESfinder score
0.601217604
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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