top of page
mmu_circCasp8ap2_351
Basic information of circular RNA
PanCircBase ID:
mmu_circCasp8ap2_351
mm39_Chr. Position ID:
chr4|32630177|32634883|+
Gene name:
Casp8ap2
Transcript:
ENSMUST00000127619.2
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
3,4,5,6
Exon/intron offsets:
0,888,1638,4590
Genomic length:
4706
Exon/intron sizes in nt:
69,101,65,116
Flanking exon/introns:
chr4:32624166-32630177|chr4:32634883-32639363
Splice length:
351
Other database IDs:
circAtlas: mmu-Casp8ap2_0002
circBase: hsa_circ_0001622, circAtlas: hsa-CASP8AP2_0002, CIRCpedia: HSA_CIRCpedia_55842
Human Ortholog IDs:
Mature spliced Sequence:
CCTCTCCACTTAAAAATAATGATGAAGGCTCATTGGACATATATGCTGGGTTGGACAGTGCTGTTTCTGACAGTACTGCTAGATCCTGTGTGTCATTCAGAAACTGTTTAGATTTGTATGAAGAGATCCTGACTGAAGAAGGAACTGCGAAGGAGGCAACGTACAATGACAATATGGGAAATGTCAGCAGCAAATGAAAGACCTGATGAAAAGGTTTAAGGAAATACAGACACAGAACTTGAACTTAAAAAATGAAAACCAGTCTCTTAAGAAGAATATCTCAGCACTTATCAAAACTGCCAGAGTGGAGATAAACCGTAAGGATGAAGAGATAAATCATCTTCACCAAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGCCAGAGTGGAGATAAACCG
59.79
TGACACACAGGATCTAGCAGT
58.47
149
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCCAGAGTGGAGATAAACCGT
59.79
TGACACACAGGATCTAGCAGT
58.47
148
PCR template sequence:
ATGAAAACCAGTCTCTTAAGAAGAATATCTCAGCACTTATCAAAACTGCCAGAGTGGAGATAAACCGTAAGGATGAAGAGATAAATCATCTTCACCAAAGCCTCTCCACTTAAAAATAATGATGAAGGCTCATTGGACATATATGCTGGGTTGGACAGTGCTGTTTCTGACAGTACTGCTAGATCCTGTGTGTCATTCAG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
3
Interacting miRNAs (#binding sites)
mmu-miR-29b-1-5p(1), mmu-miR-467b-5p(1), mmu-miR-335-3p(1)
siRNAs for circular RNA silencing
Junction sequence
ATCTTCACCAAAGCCTCTCCACTTAA
siRNA sets
TTAAGTGGAGAGGCTTTGG, TAAGTGGAGAGGCTTTGGT, AGTGGAGAGGCTTTGGTGA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCCASP8AP2_351_ORF_1
1.1442
0.052059429
0.156452493
171
ORF sequence:
ATGAAAGACCTGATGAAAAGGTTTAAGGAAATACAGACACAGAACTTGAACTTAAAAAATGAAAACCAGTCTCTTAAGAAGAATATCTCAGCACTTATCAAAACTGCCAGAGTGGAGATAAACCGTAAGGATGAAGAGATAAATCATCTTCACCAAAGCCTCTCCACTTAA
Peptide sequence:
MKDLMKRFKEIQTQNLNLKNENQSLKKNISALIKTARVEINRKDEEINHLHQSLST
IRESfinder result
IRESfinder score
0.572549212
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page