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mmu_circAtf2_1132
Basic information of circular RNA
PanCircBase ID:
mmu_circAtf2_1132
mm39_Chr. Position ID:
chr2|73658815|73704089|-
Gene name:
Atf2
Transcript:
ENSMUST00000112010.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
9
Exon/intron indexes:
11,10,9,8,7,6,5,4,3
Exon/intron offsets:
0,1320,13888,16967,17725,22117,22392,34697,45198
Genomic length:
45274
Exon/intron sizes in nt:
207,150,87,115,179,129,119,70,76
Flanking exon/introns:
chr2:73653650-73658815|chr2:73704089-73710628
Splice length:
1132
Other database IDs:
circAtlas: hsa-ATF2_0031, CIRCpedia: HSA_CIRCpedia_375996
Human Ortholog IDs:
Mature spliced Sequence:
TGTCTTTGCCATGAAACAGAGGACATGATAAACTGTTTACCTTAATGAAATTCAAGTTGCATGTGAATTCTGCCAGATAAAACACGGACCTGTGGAATATGAGTGATGACAAACCCTTTCTATGCACTGCCCCTGGGTGTGGCCAGATCAGACTCCAACGCCAACAAGATTCCTAAAAAACTGTGAAGAAGTGGGTTTGTTCAATGAGTTGGCAAGTCCATTTGAAAATGAATTCAAGAAGGCTTCCGAAGATGACATTAAAAAAATGCCTCTAGATTTGTCCCCTCTTGCAACACCCATCATAAGAAGCAAAATTGAGGAGCCTTCTGTTGTAGAAACAACTCACCAGGACAGCCCTTTACCTCACCCCGAGTCGACTACCAGTGATGAAAAGGAAGTACCATTGGCACAAACTGCACAGCCCACATCAGCTATCGTTCGTCCAGCATCATTACAGGTTCCCAATGTGCTGCTCACAAGTTCTGACTCAAGTGTAATTATTCAACAAGCAGTACCTTCACCAACCTCAAGTACTGTAATCACCCAGGCACCATCCTCTAACAGGCCAATTGTTCCTGTACCAGGCCCATTTCCTCTTCTCTTACATCTTCCTAATGGACAAACCATGCCCGTTGCTATTCCTGCATCAATTACAAGTTCTAATGTGCATGTTCCAGCTGCAGTCCCACTTGTTCGGCCAGTCACCATGGTGCCTAGTGTTCCAGGAATCCCAGGCCCTTCCTCTCCTCAACCAGTCCAGTCAGAAGCAAAAATGAGATTAAAAGCTGCTTTGACCCAGCAACACCCTCCAGTTACCAATGGTGATACTGTAAAAGGCCATGGCAGTGGATTGGTTAGGACTCAGTCAGAAGAGTCTCGCCCACAGTCCTTGCAGCAGCCAGCCACCTCCACTACAGAAACTCCGGCTTCTCCAGCTCACACAACTCCTCAGACCCAAAATACAAGTGGCCGTCGAAGAAGAGCAGCTAATGAAGATCCTGATGAGAAAAGGAGGAAGTTTCTAGAACGAAATAGAGCAGCAGCTTCAAGATGCCGACAAAAAAGGAAAGTGTGGGTTCAGTCCTTAGAGAAGAAAGCAGAAGACTTGAGTTCACTAAATGGCCAGCTGCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGAAAGTGTGGGTTCAGTCCT
59.86
AGGTCCGTGTTTTATCTGGCA
59.65
159
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGGAAAGTGTGGGTTCAGTCC
59.86
AGGTCCGTGTTTTATCTGGCA
59.65
160
PCR template sequence:
TAGAGCAGCAGCTTCAAGATGCCGACAAAAAAGGAAAGTGTGGGTTCAGTCCTTAGAGAAGAAAGCAGAAGACTTGAGTTCACTAAATGGCCAGCTGCAGTGTCTTTGCCATGAAACAGAGGACATGATAAACTGTTTACCTTAATGAAATTCAAGTTGCATGTGAATTCTGCCAGATAAAACACGGACCTGTGGAATAT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
15
Interacting miRNAs (#binding sites)
mmu-miR-335-3p(2), 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-129-5p(1), mmu-miR-1199-5p(1), mmu-miR-1904(1), mmu-miR-193b-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TGGCCAGCTGCAGTGTCTTTGCCATG
siRNA sets
AAAGACACTGCAGCTGGCC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCATF2_1132_ORF_1
1.0844
0.02329319
0.988298528
1056
ORF sequence:
ATGCACTGCCCCTGGGTGTGGCCAGATCAGACTCCAACGCCAACAAGATTCCTAAAAAACTGTGAAGAAGTGGGTTTGTTCAATGAGTTGGCAAGTCCATTTGAAAATGAATTCAAGAAGGCTTCCGAAGATGACATTAAAAAAATGCCTCTAGATTTGTCCCCTCTTGCAACACCCATCATAAGAAGCAAAATTGAGGAGCCTTCTGTTGTAGAAACAACTCACCAGGACAGCCCTTTACCTCACCCCGAGTCGACTACCAGTGATGAAAAGGAAGTACCATTGGCACAAACTGCACAGCCCACATCAGCTATCGTTCGTCCAGCATCATTACAGGTTCCCAATGTGCTGCTCACAAGTTCTGACTCAAGTGTAATTATTCAACAAGCAGTACCTTCACCAACCTCAAGTACTGTAATCACCCAGGCACCATCCTCTAACAGGCCAATTGTTCCTGTACCAGGCCCATTTCCTCTTCTCTTACATCTTCCTAATGGACAAACCATGCCCGTTGCTATTCCTGCATCAATTACAAGTTCTAATGTGCATGTTCCAGCTGCAGTCCCACTTGTTCGGCCAGTCACCATGGTGCCTAGTGTTCCAGGAATCCCAGGCCCTTCCTCTCCTCAACCAGTCCAGTCAGAAGCAAAAATGAGATTAAAAGCTGCTTTGACCCAGCAACACCCTCCAGTTACCAATGGTGATACTGTAAAAGGCCATGGCAGTGGATTGGTTAGGACTCAGTCAGAAGAGTCTCGCCCACAGTCCTTGCAGCAGCCAGCCACCTCCACTACAGAAACTCCGGCTTCTCCAGCTCACACAACTCCTCAGACCCAAAATACAAGTGGCCGTCGAAGAAGAGCAGCTAATGAAGATCCTGATGAGAAAAGGAGGAAGTTTCTAGAACGAAATAGAGCAGCAGCTTCAAGATGCCGACAAAAAAGGAAAGTGTGGGTTCAGTCCTTAGAGAAGAAAGCAGAAGACTTGAGTTCACTAAATGGCCAGCTGCAGTGTCTTTGCCATGAAACAGAGGACATGATAAACTGTTTACCTTAA
Peptide sequence:
MHCPWVWPDQTPTPTRFLKNCEEVGLFNELASPFENEFKKASEDDIKKMPLDLSPLATPIIRSKIEEPSVVETTHQDSPLPHPESTTSDEKEVPLAQTAQPTSAIVRPASLQVPNVLLTSSDSSVIIQQAVPSPTSSTVITQAPSSNRPIVPVPGPFPLLLHLPNGQTMPVAIPASITSSNVHVPAAVPLVRPVTMVPSVPGIPGPSSPQPVQSEAKMRLKAALTQQHPPVTNGDTVKGHGSGLVRTQSEESRPQSLQQPATSTTETPASPAHTTPQTQNTSGRRRRAANEDPDEKRRKFLERNRAAASRCRQKRKVWVQSLEKKAEDLSSLNGQLQCLCHETEDMINCLP
IRESfinder result
IRESfinder score
0.559968607
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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