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mmu_circPsma7_252
Basic information of circular RNA
PanCircBase ID:
mmu_circPsma7_252
mm39_Chr. Position ID:
chr2|179680517|179681272|-
Gene name:
Psma7
Transcript:
ENSMUST00000126021.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
3,2
Exon/intron offsets:
0,628
Genomic length:
755
Exon/intron sizes in nt:
1,25,127
Flanking exon/introns:
chr2:179679980-179680517|chr2:179681272-179683431
Splice length:
252
Other database IDs:
circAtlas: mmu-Psma7_0001
circBase: hsa_circ_0061037, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_34899
Human Ortholog IDs:
Mature spliced Sequence:
GTTGGTGTTCGAGGAAAGGACATTGTTGTTCTTGGTGTGGAAAAAAAATCAGTGGCCAAGCTACAAGATGAAAGAACAGTACGAAAAATCTGCGCCTTGGACGATAACGTCTGTATGGCCTTTGCAGGTCTCACCGCTGATGCAAGGATAGTCATCAACAGAGCCCGGGTAGAGTGCCAGAGCCACCGGCTGACAGTGGAGGACCCAGTGACTGTGGAGTACATCACCCGCTACATTGCGAGTCTGAAGCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CTGTGGAGTACATCACCCGC
60.46
CCAAGGCGCAGATTTTTCGT
59.76
141
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GAGGACCCAGTGACTGTGGA
60.83
CCAAGGCGCAGATTTTTCGT
59.76
154
PCR template sequence:
CATCAACAGAGCCCGGGTAGAGTGCCAGAGCCACCGGCTGACAGTGGAGGACCCAGTGACTGTGGAGTACATCACCCGCTACATTGCGAGTCTGAAGCAGGTTGGTGTTCGAGGAAAGGACATTGTTGTTCTTGGTGTGGAAAAAAAATCAGTGGCCAAGCTACAAGATGAAAGAACAGTACGAAAAATCTGCGCCTTGG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
1
Interacting miRNAs (#binding sites)
mmu-miR-362-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GAGTCTGAAGCAGGTTGGTGTTCGAG
siRNA sets
AACACCAACCTGCTTCAGA, ACACCAACCTGCTTCAGAC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCPSMA7_252_ORF_1
1.141
0.446369524
0.818516428
390
ORF sequence:
ATGGCCTTTGCAGGTCTCACCGCTGATGCAAGGATAGTCATCAACAGAGCCCGGGTAGAGTGCCAGAGCCACCGGCTGACAGTGGAGGACCCAGTGACTGTGGAGTACATCACCCGCTACATTGCGAGTCTGAAGCAGGTTGGTGTTCGAGGAAAGGACATTGTTGTTCTTGGTGTGGAAAAAAAATCAGTGGCCAAGCTACAAGATGAAAGAACAGTACGAAAAATCTGCGCCTTGGACGATAACGTCTGTATGGCCTTTGCAGGTCTCACCGCTGATGCAAGGATAGTCATCAACAGAGCCCGGGTAGAGTGCCAGAGCCACCGGCTGACAGTGGAGGACCCAGTGACTGTGGAGTACATCACCCGCTACATTGCGAGTCTGAAGCAG
Peptide sequence:
MAFAGLTADARIVINRARVECQSHRLTVEDPVTVEYITRYIASLKQVGVRGKDIVVLGVEKKSVAKLQDERTVRKICALDDNVCMAFAGLTADARIVINRARVECQSHRLTVEDPVTVEYITRYIASLKQ
IRESfinder result
IRESfinder score
0.291228705
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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