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mmu_ciPsip1_1167
Basic information of circular RNA
PanCircBase ID:
mmu_ciPsip1_1167
mm39_Chr. Position ID:
chr4|83380664|83381831|-
Gene name:
Psip1
Transcript:
ENSMUST00000030207.15
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
10
Exon/intron offsets:
0
Genomic length:
1167
Exon/intron sizes in nt:
1167
Flanking exon/introns:
chr4:83379478-83381831
Splice length:
1167
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAAGTATTCTTTTTAGTTTTCAATCTTGCATTCTTTTTTAAAGAGTTAAACCTTTAAGTAGCCTCTCATTTCCAGAGTTGATGAAGCCTTTTAAAGTGACTTCCCATACTAGAAAATCTTCCATATGTGCTATTTCAGGCTCTATTCTTTTTTCAGAGGATGAGATTCACTGAGGTAATCCTCTTGTGAACTGTTTTGTAATATAAGTGAAAGTAGAGTTAGGCTTTGTGTAACATGTTAAACATAGAATTATGAAACTATATAGGTGACGAAAGAATGCAATCCCAGTTGGAAACCTAGACGCTGATAAAAGCTAGCTCAAAGGCTTGCTAGCATTGGCTAGATCCTGTATGACTCAAGCTTTAATTGGAGTTTGACACTTGGATAGATACTTACCATGAGAACTTTCTTCCCCCCTTACTGTATCAGTATTCTATCAGTATAAGGAATAGTCATTACAGTCATTAGACATCACGGCTCTTGTGCACATTTGTTTTCCTAGTTTATCACTGTCCCTTTTTCCCATTTATAAAGTCATCCTCTTAGTAAACTTCTGTGGGCTTTCTACTGATAGTGAGGAGATAATTTGAAAACATGTTGTAGGTCACTTATACAGTGGCCAATAGTAAAAGGAAACATTTCTTCACTTGTTTTTATGATGTATCTACAAAGTAACCACTTTTATAGGTACATTGTCTCTGCTTCTGTAGCTGTTTGGAGGATACAGAGCAGTTTAGCTGCTTTAGGGAGTTTTTAAAAGTAATTAAAATGCTGGATTATGGCCACATCTGTAAATGCCATTATTCCTGTCCTTTCTCTCCACTGAATACTGTGACTGTTGTTGCTTTTAACTCTGTGCTCCCGTAAGTCAGGCATAAATTAGTTGTTGCTTAGTGAATCTAGCCCAAATCTTCAGAATCTCAAGATATCTTTTTTGTATTTCAGTTTCTTTTGAATGTCCTCCAATGTAACTTTCTCAAATTCTAATATTTGTGTTTTCTTTCCTTCTCCTGTTATTACAAAACTTTGTACTTGGACAGTTTTGCTCTGTAAAGCATTTCAGATGCAACTTGTGTGAAATGCATTATGCAAAATAAAGTTTATTGTATTGTATTCCCAGCCAAACAACATGTAATCTACAGTAATAAAAATATATCTCATTTTGG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TTCCCAGCCAAACAACATGT
58.21
AGGCTTCATCAACTCTGGAA
56.44
143
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TTCCCAGCCAAACAACATGT
58.21
AAGGCTTCATCAACTCTGGA
56.44
144
PCR template sequence:
CAACTTGTGTGAAATGCATTATGCAAAATAAAGTTTATTGTATTGTATTCCCAGCCAAACAACATGTAATCTACAGTAATAAAAATATATCTCATTTTGGGTAAGTATTCTTTTTAGTTTTCAATCTTGCATTCTTTTTTAAAGAGTTAAACCTTTAAGTAGCCTCTCATTTCCAGAGTTGATGAAGCCTTTTAAAGTGA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
15
Interacting miRNAs (#binding sites)
mmu-miR-137-3p(1), mmu-miR-429-3p(1), mmu-miR-322-5p(1), mmu-miR-132-3p(1), mmu-miR-203-3p(1), mmu-miR-185-5p(1), mmu-miR-192-5p(1), mmu-miR-215-5p(1), mmu-miR-301a-3p(1), mmu-miR-224-5p(1), mmu-miR-377-3p(1), mmu-miR-300-3p(1), mmu-miR-5101(1), mmu-miR-344-3p(1), mmu-miR-338-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TATCTCATTTTGGGTAAGTATTCTTT
siRNA sets
ATACTTACCCAAAATGAGA,GAATACTTACCCAAAATGA,AATACTTACCCAAAATGAG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
NA
NA
NA
NA
NA
ORF sequence:
NA
Peptide sequence:
NA
IRESfinder result
IRESfinder score
0.906461332
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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