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mmu_circAtf6_614
Basic information of circular RNA
PanCircBase ID:
mmu_circAtf6_614
mm39_Chr. Position ID:
chr1|170574674|170627314|-
Gene name:
Atf6
Transcript:
ENSMUST00000027974.7
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
15,14,13,12,11,10
Exon/intron offsets:
0,40240,41502,46851,47551,52508
Genomic length:
52640
Exon/intron sizes in nt:
85,115,68,100,114,132
Flanking exon/introns:
chr1:170537656-170574674|chr1:170627314-170642991
Splice length:
614
Other database IDs:
CIRCpedia: MMU_CIRCpedia_11809, circAtlas: mmu-Atf6_0001
circBase: hsa_circ_0110995, circAtlas: hsa-ATF6_0001, CIRCpedia: HSA_CIRCpedia_109940
Human Ortholog IDs:
Mature spliced Sequence:
CATGCTGGAGCAAGAATCCCGAAGAGTGAAACCTAGTGTGAGCCCTGCCAATCAGAGGAGGCATCTCTTGGAATTTTCAGCAAAAGAAGTTAAAGACACATCAGATGGTGACAACCAGAAAGACAGTTACAGCTATGATCACTCTGTGTCCAATGACAAAGCTTTAATGGTGCTAAGTGAAGAGCCATTGCTTTATATGCCTCCACCTCCATGTCAACCCCTGATTAACACAACAGAGTCTCTCAGGTTGAACCATGAACTTCGAGGCTGGGTTCATAGACATGAAGTGGAAAGGACCAAATCTAGAAGAATGACAAATAGCCAACAGAAAGCCCGCATTCTCCAGGGTGCTCTGGAACAGGGCTCTAATTCTCAGCTGATGGCTGTCCAGTACACAGAAACCACTAGCATCAGTAGGAATTCTGGGAGTGAGCTGCAAGTGTATTACGCCTCCCCTGGAAGTTACCAAGGCTTCTTTGACGCCATCCGCAGGAGGGGAGATACGTTTTACGTTGTCTCATTTCGAAGGGATCATCTGCTATTACCAGCTACCACCCACAACAAGACCACAAGACCAAAAATGTCAATTGTATTACCAGCAATAAACATAAATG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCAGCTACCACCCACAACAA
60.18
TCCAAGAGATGCCTCCTCTGA
59.99
142
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCAGCTACCACCCACAACAA
60.18
CCAAGAGATGCCTCCTCTGA
58.51
141
PCR template sequence:
GTCTCATTTCGAAGGGATCATCTGCTATTACCAGCTACCACCCACAACAAGACCACAAGACCAAAAATGTCAATTGTATTACCAGCAATAAACATAAATGCATGCTGGAGCAAGAATCCCGAAGAGTGAAACCTAGTGTGAGCCCTGCCAATCAGAGGAGGCATCTCTTGGAATTTTCAGCAAAAGAAGTTAAAGACACA
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-140-5p(1), mmu-miR-29b-3p(1), mmu-miR-29a-3p(1), mmu-miR-29c-3p(1), mmu-miR-340-5p(1), mmu-miR-342-3p(1)
siRNAs for circular RNA silencing
Junction sequence
ATAAACATAAATGCATGCTGGAGCAA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCATF6_614_ORF_1
0.5528
0.101354511
0.690708835
642
ORF sequence:
ATGCTGGAGCAAGAATCCCGAAGAGTGAAACCTAGTGTGAGCCCTGCCAATCAGAGGAGGCATCTCTTGGAATTTTCAGCAAAAGAAGTTAAAGACACATCAGATGGTGACAACCAGAAAGACAGTTACAGCTATGATCACTCTGTGTCCAATGACAAAGCTTTAATGGTGCTAAGTGAAGAGCCATTGCTTTATATGCCTCCACCTCCATGTCAACCCCTGATTAACACAACAGAGTCTCTCAGGTTGAACCATGAACTTCGAGGCTGGGTTCATAGACATGAAGTGGAAAGGACCAAATCTAGAAGAATGACAAATAGCCAACAGAAAGCCCGCATTCTCCAGGGTGCTCTGGAACAGGGCTCTAATTCTCAGCTGATGGCTGTCCAGTACACAGAAACCACTAGCATCAGTAGGAATTCTGGGAGTGAGCTGCAAGTGTATTACGCCTCCCCTGGAAGTTACCAAGGCTTCTTTGACGCCATCCGCAGGAGGGGAGATACGTTTTACGTTGTCTCATTTCGAAGGGATCATCTGCTATTACCAGCTACCACCCACAACAAGACCACAAGACCAAAAATGTCAATTGTATTACCAGCAATAAACATAAATGCATGCTGGAGCAAGAATCCCGAAGAGTGA
Peptide sequence:
MLEQESRRVKPSVSPANQRRHLLEFSAKEVKDTSDGDNQKDSYSYDHSVSNDKALMVLSEEPLLYMPPPPCQPLINTTESLRLNHELRGWVHRHEVERTKSRRMTNSQQKARILQGALEQGSNSQLMAVQYTETTSISRNSGSELQVYYASPGSYQGFFDAIRRRGDTFYVVSFRRDHLLLPATTHNKTTRPKMSIVLPAININACWSKNPEE
IRESfinder result
IRESfinder score
0.507794757
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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