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mmu_circRpgrip1l_873
Basic information of circular RNA
PanCircBase ID:
mmu_circRpgrip1l_873
mm39_Chr. Position ID:
chr8|92012861|92031645|-
Gene name:
Rpgrip1l
Transcript:
ENSMUST00000047783.14
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
9,8,7,6,5,4
Exon/intron offsets:
0,1352,3389,12995,14544,18485
Genomic length:
18784
Exon/intron sizes in nt:
74,14,71,06,14,41,03,200
Flanking exon/introns:
chr8:92007485-92012861|chr8:92031645-92034669
Splice length:
873
Other database IDs:
circAtlas: hsa-RPGRIP1L_0023
Human Ortholog IDs:
Mature spliced Sequence:
AATGGCCACCAAGTTAATACGGCTAGTTAATGACAAGAAAAGATATGAGCGGGTTGGTGGCGGCCCCAAGCGGCTGGGACGAGATGTGGAAATGGAAGAAATGATTGAGCAGCTGCAAGAAAAAGTTCATGAGCTTGAAAGACAAAATGAAGTTCTCAAAAACAGGCTGATATCAGCCAAACAGCAGCTCCAAGTCCAGGGACACAGGCAGACGTCGTACAGTCGAGTGCAGGCTCGAGTTAACACCGGCCGCCGGAGAGCAAGTGCCAGTGCAGGCTCGCAGGAATGCCCTGGGAAAGGTCTAAGATTTCAAAATGTGGATGAAGCAGAAACTGTACAACCCACGCTCACAAAATACAGCAATAGTTTACTTGAAGAAGCCAGAGGAGAAATAAGAAATTTGGAAAATGTTATTCAGTCACAGAGAGGCCAGATAGAAGAGTTAGAGCACTTGGCAGAGATCCTGAAAACTCAGTTGAAGAGAAAAGAAAATGAAATCGAGCTATCTCTTCTTCAGCTTCGAGAACAGCAGGCTACAGATCAGAGGTCAAATATTCGGGACAATGTAGAAACGATTAAGCTTCATAAACAACTAGTGGAGAAAAGCAATGCTCTTTCAGTCATAGAAGGAAAATTTATTCAGCTTCAAGAGAAGCAAAGAACACTCAGGATCAGCCATGATGCCTTGATGGCCAATGGAGATGAGCTGAACAAGCAGCTTAAGGAGCAGCGTCTGAAGTGCTGCAGCCTTGAGAAGCAGCTGCACTCGGTGAGGTTTTCAGAAAGGAGAGTAGAGGAGCTGCAGGATAGAATTAATGATTTAGAAAAGGAGCGGGAACTATTAAAGGAAAACTATGATAAACTTTATAACAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGAGTAGAGGAGCTGCAGGA
59.37
TTTCCACATCTCGTCCCAGC
60.04
178
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GAGAGTAGAGGAGCTGCAGG
58.97
TTTCCACATCTCGTCCCAGC
60.04
179
PCR template sequence:
GGTTTTCAGAAAGGAGAGTAGAGGAGCTGCAGGATAGAATTAATGATTTAGAAAAGGAGCGGGAACTATTAAAGGAAAACTATGATAAACTTTATAACAGAATGGCCACCAAGTTAATACGGCTAGTTAATGACAAGAAAAGATATGAGCGGGTTGGTGGCGGCCCCAAGCGGCTGGGACGAGATGTGGAAATGGAAGAA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
4
Interacting miRNAs (#binding sites)
mmu-miR-136-5p(2), mmu-miR-134-5p(1), mmu-miR-127-5p(1), mmu-miR-370-3p(1)
siRNAs for circular RNA silencing
Junction sequence
AACTTTATAACAGAATGGCCACCAAG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCRPGRIP1L_873_ORF_1
1.0557
0.230280962
0.99996279
1743
ORF sequence:
ATGGCCACCAAGTTAATACGGCTAGTTAATGACAAGAAAAGATATGAGCGGGTTGGTGGCGGCCCCAAGCGGCTGGGACGAGATGTGGAAATGGAAGAAATGATTGAGCAGCTGCAAGAAAAAGTTCATGAGCTTGAAAGACAAAATGAAGTTCTCAAAAACAGGCTGATATCAGCCAAACAGCAGCTCCAAGTCCAGGGACACAGGCAGACGTCGTACAGTCGAGTGCAGGCTCGAGTTAACACCGGCCGCCGGAGAGCAAGTGCCAGTGCAGGCTCGCAGGAATGCCCTGGGAAAGGTCTAAGATTTCAAAATGTGGATGAAGCAGAAACTGTACAACCCACGCTCACAAAATACAGCAATAGTTTACTTGAAGAAGCCAGAGGAGAAATAAGAAATTTGGAAAATGTTATTCAGTCACAGAGAGGCCAGATAGAAGAGTTAGAGCACTTGGCAGAGATCCTGAAAACTCAGTTGAAGAGAAAAGAAAATGAAATCGAGCTATCTCTTCTTCAGCTTCGAGAACAGCAGGCTACAGATCAGAGGTCAAATATTCGGGACAATGTAGAAACGATTAAGCTTCATAAACAACTAGTGGAGAAAAGCAATGCTCTTTCAGTCATAGAAGGAAAATTTATTCAGCTTCAAGAGAAGCAAAGAACACTCAGGATCAGCCATGATGCCTTGATGGCCAATGGAGATGAGCTGAACAAGCAGCTTAAGGAGCAGCGTCTGAAGTGCTGCAGCCTTGAGAAGCAGCTGCACTCGGTGAGGTTTTCAGAAAGGAGAGTAGAGGAGCTGCAGGATAGAATTAATGATTTAGAAAAGGAGCGGGAACTATTAAAGGAAAACTATGATAAACTTTATAACAGAATGGCCACCAAGTTAATACGGCTAGTTAATGACAAGAAAAGATATGAGCGGGTTGGTGGCGGCCCCAAGCGGCTGGGACGAGATGTGGAAATGGAAGAAATGATTGAGCAGCTGCAAGAAAAAGTTCATGAGCTTGAAAGACAAAATGAAGTTCTCAAAAACAGGCTGATATCAGCCAAACAGCAGCTCCAAGTCCAGGGACACAGGCAGACGTCGTACAGTCGAGTGCAGGCTCGAGTTAACACCGGCCGCCGGAGAGCAAGTGCCAGTGCAGGCTCGCAGGAATGCCCTGGGAAAGGTCTAAGATTTCAAAATGTGGATGAAGCAGAAACTGTACAACCCACGCTCACAAAATACAGCAATAGTTTACTTGAAGAAGCCAGAGGAGAAATAAGAAATTTGGAAAATGTTATTCAGTCACAGAGAGGCCAGATAGAAGAGTTAGAGCACTTGGCAGAGATCCTGAAAACTCAGTTGAAGAGAAAAGAAAATGAAATCGAGCTATCTCTTCTTCAGCTTCGAGAACAGCAGGCTACAGATCAGAGGTCAAATATTCGGGACAATGTAGAAACGATTAAGCTTCATAAACAACTAGTGGAGAAAAGCAATGCTCTTTCAGTCATAGAAGGAAAATTTATTCAGCTTCAAGAGAAGCAAAGAACACTCAGGATCAGCCATGATGCCTTGATGGCCAATGGAGATGAGCTGAACAAGCAGCTTAAGGAGCAGCGTCTGAAGTGCTGCAGCCTTGAGAAGCAGCTGCACTCGGTGAGGTTTTCAGAAAGGAGAGTAGAGGAGCTGCAGGATAGAATTAATGATTTAGAAAAGGAGCGGGAACTATTAAAGGAAAACTATGATAAACTTTATAAC
Peptide sequence:
MATKLIRLVNDKKRYERVGGGPKRLGRDVEMEEMIEQLQEKVHELERQNEVLKNRLISAKQQLQVQGHRQTSYSRVQARVNTGRRRASASAGSQECPGKGLRFQNVDEAETVQPTLTKYSNSLLEEARGEIRNLENVIQSQRGQIEELEHLAEILKTQLKRKENEIELSLLQLREQQATDQRSNIRDNVETIKLHKQLVEKSNALSVIEGKFIQLQEKQRTLRISHDALMANGDELNKQLKEQRLKCCSLEKQLHSVRFSERRVEELQDRINDLEKERELLKENYDKLYNRMATKLIRLVNDKKRYERVGGGPKRLGRDVEMEEMIEQLQEKVHELERQNEVLKNRLISAKQQLQVQGHRQTSYSRVQARVNTGRRRASASAGSQECPGKGLRFQNVDEAETVQPTLTKYSNSLLEEARGEIRNLENVIQSQRGQIEELEHLAEILKTQLKRKENEIELSLLQLREQQATDQRSNIRDNVETIKLHKQLVEKSNALSVIEGKFIQLQEKQRTLRISHDALMANGDELNKQLKEQRLKCCSLEKQLHSVRFSERRVEELQDRINDLEKERELLKENYDKLYN
IRESfinder result
IRESfinder score
0.426288338
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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