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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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