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mmu_circAatf_1426
Basic information of circular RNA
PanCircBase ID:
mmu_circAatf_1426
mm39_Chr. Position ID:
chr11|84333391|84403155|-
Gene name:
Aatf
Transcript:
ENSMUST00000018841.3
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
11
Exon/intron indexes:
12,11,10,9,8,7,6,5,4,3,2
Exon/intron offsets:
0,3061,6554,24895,27998,28522,30486,67093,67633,68917,69575
Genomic length:
69764
Exon/intron sizes in nt:
7,28,16,88,41,65,19,91,00,00,00,00,00,000
Flanking exon/introns:
chr11:84313845-84333391|chr11:84403155-84404117
Splice length:
1426
Other database IDs:
circAtlas: mmu-Aatf_0028
Human Ortholog IDs:
Mature spliced Sequence:
CCACTAGAGCCAGAGTGATTGACAGGTTTGATGAAGGGGAAGAGGAGAAAGATGATCTGGCAGTGAGTAGCATTAGAAAGTTGGCACCAGTCTCCCTCTTGGACACCGACAAAAGGTATTCTGGCAAGACCACTTCTAGGAAAGCTTGGAAAGAAGACCATTGGGAGCAGGCTCTGCCAAGTTCATCTGATAACGAAGCATCTGATGAGGGAGGATCTGAAGATGGGGATTCAGAGGGCCTGGGCCTGGAGGAGATCTCAGAAGATGTTGACGAAGACTTAGAAGACAACAAAATATCTGATGAGGGAGGATCTGAAGATGGGGATTCAGAGGGCCTGGGCCTGGAAGAGTTCTCAGAAGATGTTGAGGAGGACTTAGAAGGTGAGGATGAGGAAGACAGAGAAGAAGACAGGAACAGTGAAGATGATGGTGTGGTGGCAGCCTTCTCCAGTGTCAAAGTTTCTGAGGAAGTGGAAAAAGGAAGAGCTGTGAAGAATCAGATAGCATTGTGGGACCAGCTCTTGGAAGGAAGGATCAAGCTACAAAAAGCTCTCTTGACTACCAATCAGTTGCCTCAACCAGATGTTTTCCCTGTCTTCAAGGACAAAGGTGGCCCAGAATTTGCCAGTGCTCTGAAAAATAGTCACAAAGCACTTAAAGCCTTGTTAAGGTCATTGGTGGATCTTCAGGAAGAGTTGCTTTTCCAGTACCCAGACACGAGACATATAGTAAATGGGGCGAAACCCAATACAGAGAGTGAGGAGATTTCCAGTGAAGATGATGAGCTAGTGGGAGAGAAGAAGAAACAACGAAAGGCCCCACCCAAGAGGAAGCTAGAGATGGAGGACTATCCCAGCTTCATGGCAAAGCGCTTTGCTGACTTCACCATCTATAGGAATCACACACTACAGAAATGGCATGATAAAACCAAGCTTGCTTCTGGAAAACTGGGCAAGGGTTTTGGTGCCTTCGAACGCTCGATCTTGACTCAGATCGATCATATCATGATGGACAAAGAAAGATTGCTTCGGAGGACACAGACCAAGCGCTCTGCCTACCGAGTTCTTGGCAAACCGGAGCCAGTCCCTGAGCCTGTTGCAGAGACCTTGCCAGGAGAACCAGAGACGCTTCCTCAGGGCCCTGCCAATGCCCACCTGAGGGACTTGGATGAGGAGATATTTGATGATGATGACTTTTACCACCAGCTCCTTCGAGAACTCATAGAGCGGAAAACCAGCTCTTTGGATCCAAATGATCAGGTGGCCATGGGAAGGCAGTGGCTTGCAATCCAGAAACTACGAAGCAAAATCCGCAAGAAGGTAGATAGAAAAGCCAGCAAAGGAAGGAAACTTCGGTTCCATGTCCTTAGCAAGCTCCTGAGTTTCATGGCACCTATTGACCACACCGCAATGAGTGATGATGCCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGGCACCTATTGACCACACC
59.96
AAGAGGGAGACTGGTGCCAA
60.77
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGCTCCTGAGTTTCATGGCA
59.31
GGGAGACTGGTGCCAACTTT
60.18
151
PCR template sequence:
GAAAAGCCAGCAAAGGAAGGAAACTTCGGTTCCATGTCCTTAGCAAGCTCCTGAGTTTCATGGCACCTATTGACCACACCGCAATGAGTGATGATGCCAGCCACTAGAGCCAGAGTGATTGACAGGTTTGATGAAGGGGAAGAGGAGAAAGATGATCTGGCAGTGAGTAGCATTAGAAAGTTGGCACCAGTCTCCCTCTT
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-149-5p(2), mmu-miR-127-5p(2), mmu-miR-155-5p(1), mmu-miR-205-5p(1), mmu-miR-146a-5p(1), mmu-miR-138-5p(1), mmu-miR-214-3p(1), mmu-miR-433-3p(1), mmu-miR-351-5p(1), mmu-miR-384-3p(1), mmu-miR-673-5p(1), mmu-miR-3087-3p(1), mmu-miR-484(1), mmu-miR-1199-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GTGATGATGCCAGCCACTAGAGCCAG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCAATF_1426_ORF_1
1.0834
0.332213515
0.999777746
1434
ORF sequence:
ATGATGCCAGCCACTAGAGCCAGAGTGATTGACAGGTTTGATGAAGGGGAAGAGGAGAAAGATGATCTGGCAGTGAGTAGCATTAGAAAGTTGGCACCAGTCTCCCTCTTGGACACCGACAAAAGGTATTCTGGCAAGACCACTTCTAGGAAAGCTTGGAAAGAAGACCATTGGGAGCAGGCTCTGCCAAGTTCATCTGATAACGAAGCATCTGATGAGGGAGGATCTGAAGATGGGGATTCAGAGGGCCTGGGCCTGGAGGAGATCTCAGAAGATGTTGACGAAGACTTAGAAGACAACAAAATATCTGATGAGGGAGGATCTGAAGATGGGGATTCAGAGGGCCTGGGCCTGGAAGAGTTCTCAGAAGATGTTGAGGAGGACTTAGAAGGTGAGGATGAGGAAGACAGAGAAGAAGACAGGAACAGTGAAGATGATGGTGTGGTGGCAGCCTTCTCCAGTGTCAAAGTTTCTGAGGAAGTGGAAAAAGGAAGAGCTGTGAAGAATCAGATAGCATTGTGGGACCAGCTCTTGGAAGGAAGGATCAAGCTACAAAAAGCTCTCTTGACTACCAATCAGTTGCCTCAACCAGATGTTTTCCCTGTCTTCAAGGACAAAGGTGGCCCAGAATTTGCCAGTGCTCTGAAAAATAGTCACAAAGCACTTAAAGCCTTGTTAAGGTCATTGGTGGATCTTCAGGAAGAGTTGCTTTTCCAGTACCCAGACACGAGACATATAGTAAATGGGGCGAAACCCAATACAGAGAGTGAGGAGATTTCCAGTGAAGATGATGAGCTAGTGGGAGAGAAGAAGAAACAACGAAAGGCCCCACCCAAGAGGAAGCTAGAGATGGAGGACTATCCCAGCTTCATGGCAAAGCGCTTTGCTGACTTCACCATCTATAGGAATCACACACTACAGAAATGGCATGATAAAACCAAGCTTGCTTCTGGAAAACTGGGCAAGGGTTTTGGTGCCTTCGAACGCTCGATCTTGACTCAGATCGATCATATCATGATGGACAAAGAAAGATTGCTTCGGAGGACACAGACCAAGCGCTCTGCCTACCGAGTTCTTGGCAAACCGGAGCCAGTCCCTGAGCCTGTTGCAGAGACCTTGCCAGGAGAACCAGAGACGCTTCCTCAGGGCCCTGCCAATGCCCACCTGAGGGACTTGGATGAGGAGATATTTGATGATGATGACTTTTACCACCAGCTCCTTCGAGAACTCATAGAGCGGAAAACCAGCTCTTTGGATCCAAATGATCAGGTGGCCATGGGAAGGCAGTGGCTTGCAATCCAGAAACTACGAAGCAAAATCCGCAAGAAGGTAGATAGAAAAGCCAGCAAAGGAAGGAAACTTCGGTTCCATGTCCTTAGCAAGCTCCTGAGTTTCATGGCACCTATTGACCACACCGCAATGAGTGATGATGCC
Peptide sequence:
MMPATRARVIDRFDEGEEEKDDLAVSSIRKLAPVSLLDTDKRYSGKTTSRKAWKEDHWEQALPSSSDNEASDEGGSEDGDSEGLGLEEISEDVDEDLEDNKISDEGGSEDGDSEGLGLEEFSEDVEEDLEGEDEEDREEDRNSEDDGVVAAFSSVKVSEEVEKGRAVKNQIALWDQLLEGRIKLQKALLTTNQLPQPDVFPVFKDKGGPEFASALKNSHKALKALLRSLVDLQEELLFQYPDTRHIVNGAKPNTESEEISSEDDELVGEKKKQRKAPPKRKLEMEDYPSFMAKRFADFTIYRNHTLQKWHDKTKLASGKLGKGFGAFERSILTQIDHIMMDKERLLRRTQTKRSAYRVLGKPEPVPEPVAETLPGEPETLPQGPANAHLRDLDEEIFDDDDFYHQLLRELIERKTSSLDPNDQVAMGRQWLAIQKLRSKIRKKVDRKASKGRKLRFHVLSKLLSFMAPIDHTAMSDDA
IRESfinder result
IRESfinder score
0.385372648
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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