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mmu_circPsmd14_372
Basic information of circular RNA
PanCircBase ID:
mmu_circPsmd14_372
mm39_Chr. Position ID:
chr2|61550787|61591438|+
Gene name:
Psmd14
Transcript:
ENSMUST00000028278.14
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
2,3,4,5
Exon/intron offsets:
0,2266,40192,40531
Genomic length:
40651
Exon/intron sizes in nt:
1,28,52,72,120
Flanking exon/introns:
chr2:61542217-61550787|chr2:61591438-61594180
Splice length:
372
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GAGAGAGAGGAAAAACTACTTGTGAAAAATTGTATCTGCCAGAATTAGCAAGACTTGGAGTTAATAACAAATTTGTCAAATTCAACAAATTGAAGTTTAACACTGTAAGAATTACAGTTACTGAACAGAAATATGGACAGACTTCTTAGACTTGGAGGAGGTATGCCTGGACTGGGCCAGGGCCCACCTACAGATGCTCCTGCCGTGGACACAGCAGAACAAGTTTATATCTCTTCCTTGGCCTTGCTAAAGATGTTAAAACATGGTCGTGCTGGAGTGCCTATGGAAGTTATGGGTCTAATGCTTGGTGAATTTGTTGATGATTACACCGTCAGAGTGATTGATGTGTTTGCTATGCCACAGTCAGGAACT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGTGCCTATGGAAGTTATGGGT
58.88
CCAAGTCTTGCTAATTCTGGCA
58.92
155
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGGAGTGCCTATGGAAGTTATGG
59.86
CCAAGTCTTGCTAATTCTGGCA
58.92
158
PCR template sequence:
TGGAGTGCCTATGGAAGTTATGGGTCTAATGCTTGGTGAATTTGTTGATGATTACACCGTCAGAGTGATTGATGTGTTTGCTATGCCACAGTCAGGAACTGAGAGAGAGGAAAAACTACTTGTGAAAAATTGTATCTGCCAGAATTAGCAAGACTTGGAGTTAATAACAAATTTGTCAAATTCAACAAATTGAAGTTTAA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
2
Interacting miRNAs (#binding sites)
mmu-miR-802-5p(1), mmu-miR-3065-5p(1)
siRNAs for circular RNA silencing
Junction sequence
ACAGTCAGGAACTGAGAGAGAGGAAA
siRNA sets
TTTCCTCTCTCTCAGTTCC, TTCCTCTCTCTCAGTTCCT, CTCTCTCTCAGTTCCTGAC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCPSMD14_372_ORF_1
1.0481
0.026622782
0.245223288
288
ORF sequence:
ATGGACAGACTTCTTAGACTTGGAGGAGGTATGCCTGGACTGGGCCAGGGCCCACCTACAGATGCTCCTGCCGTGGACACAGCAGAACAAGTTTATATCTCTTCCTTGGCCTTGCTAAAGATGTTAAAACATGGTCGTGCTGGAGTGCCTATGGAAGTTATGGGTCTAATGCTTGGTGAATTTGTTGATGATTACACCGTCAGAGTGATTGATGTGTTTGCTATGCCACAGTCAGGAACTGAGAGAGAGGAAAAACTACTTGTGAAAAATTGTATCTGCCAGAATTAG
Peptide sequence:
MDRLLRLGGGMPGLGQGPPTDAPAVDTAEQVYISSLALLKMLKHGRAGVPMEVMGLMLGEFVDDYTVRVIDVFAMPQSGTEREEKLLVKNCICQN
IRESfinder result
IRESfinder score
0.702361272
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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