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mmu_circPsma7_375
Basic information of circular RNA
PanCircBase ID:
mmu_circPsma7_375
mm39_Chr. Position ID:
chr2|179679857|179681272|-
Gene name:
Psma7
Transcript:
ENSMUST00000126021.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
4,3,2
Exon/intron offsets:
0,660,1288
Genomic length:
1415
Exon/intron sizes in nt:
12,31,25,127
Flanking exon/introns:
chr2:179679295-179679857|chr2:179681272-179683431
Splice length:
375
Other database IDs:
circBase: hsa_circ_0003456, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_34897
Human Ortholog IDs:
Mature spliced Sequence:
GTTGGTGTTCGAGGAAAGGACATTGTTGTTCTTGGTGTGGAAAAAAAATCAGTGGCCAAGCTACAAGATGAAAGAACAGTACGAAAAATCTGCGCCTTGGACGATAACGTCTGTATGGCCTTTGCAGGTCTCACCGCTGATGCAAGGATAGTCATCAACAGAGCCCGGGTAGAGTGCCAGAGCCACCGGCTGACAGTGGAGGACCCAGTGACTGTGGAGTACATCACCCGCTACATTGCGAGTCTGAAGCAGCGTTATACACAGAGCAATGGGCGCAGGCCATTTGGTATCTCGGCCCTAATTGTGGGTTTTGACTTTGATGGCACTCCCAGACTCTATCAGACTGACCCCTCGGGCACATACCATGCTTGGAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CTCGGCCCTAATTGTGGGTT
60.03
TCTTGTAGCTTGGCCACTGA
58.94
153
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGGCCATTTGGTATCTCGGC
60.18
TCTTGTAGCTTGGCCACTGA
58.94
167
PCR template sequence:
CAGGCCATTTGGTATCTCGGCCCTAATTGTGGGTTTTGACTTTGATGGCACTCCCAGACTCTATCAGACTGACCCCTCGGGCACATACCATGCTTGGAAGGTTGGTGTTCGAGGAAAGGACATTGTTGTTCTTGGTGTGGAAAAAAAATCAGTGGCCAAGCTACAAGATGAAAGAACAGTACGAAAAATCTGCGCCTTGG
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
CCATGCTTGGAAGGTTGGTGTTCGAG
siRNA sets
AACACCAACCTTCCAAGCA, CTCGAACACCAACCTTCCA, GAACACCAACCTTCCAAGC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCPSMA7_375_ORF_1
1.0404
0.324219
0.930169451
636
ORF sequence:
ATGGCCTTTGCAGGTCTCACCGCTGATGCAAGGATAGTCATCAACAGAGCCCGGGTAGAGTGCCAGAGCCACCGGCTGACAGTGGAGGACCCAGTGACTGTGGAGTACATCACCCGCTACATTGCGAGTCTGAAGCAGCGTTATACACAGAGCAATGGGCGCAGGCCATTTGGTATCTCGGCCCTAATTGTGGGTTTTGACTTTGATGGCACTCCCAGACTCTATCAGACTGACCCCTCGGGCACATACCATGCTTGGAAGGTTGGTGTTCGAGGAAAGGACATTGTTGTTCTTGGTGTGGAAAAAAAATCAGTGGCCAAGCTACAAGATGAAAGAACAGTACGAAAAATCTGCGCCTTGGACGATAACGTCTGTATGGCCTTTGCAGGTCTCACCGCTGATGCAAGGATAGTCATCAACAGAGCCCGGGTAGAGTGCCAGAGCCACCGGCTGACAGTGGAGGACCCAGTGACTGTGGAGTACATCACCCGCTACATTGCGAGTCTGAAGCAGCGTTATACACAGAGCAATGGGCGCAGGCCATTTGGTATCTCGGCCCTAATTGTGGGTTTTGACTTTGATGGCACTCCCAGACTCTATCAGACTGACCCCTCGGGCACATACCATGCTTGGAAG
Peptide sequence:
MAFAGLTADARIVINRARVECQSHRLTVEDPVTVEYITRYIASLKQRYTQSNGRRPFGISALIVGFDFDGTPRLYQTDPSGTYHAWKVGVRGKDIVVLGVEKKSVAKLQDERTVRKICALDDNVCMAFAGLTADARIVINRARVECQSHRLTVEDPVTVEYITRYIASLKQRYTQSNGRRPFGISALIVGFDFDGTPRLYQTDPSGTYHAWK
IRESfinder result
IRESfinder score
0.395482544
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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