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mmu_circOsbpl3_838
Basic information of circular RNA
PanCircBase ID:
mmu_circOsbpl3_838
mm39_Chr. Position ID:
chr6|50321853|50330081|-
Gene name:
Osbpl3
Transcript:
ENSMUST00000114468.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
9,8,7,6,5,4,3
Exon/intron offsets:
0,1454,2492,3097,6970,7910,8111
Genomic length:
8228
Exon/intron sizes in nt:
157,104,124,168,114,54,117
Flanking exon/introns:
chr6:50313325-50321853|chr6:50330081-50347102
Splice length:
838
Other database IDs:
circAtlas: mmu-Osbpl3_0003
circAtlas: hsa-OSBPL3_0002, CIRCpedia: HSA_CIRCpedia_57734
Human Ortholog IDs:
Mature spliced Sequence:
GACAGCTGGGAAGTCGTGGAAGGATTGAGAGGGGAAATGACTTACACCCAGGAGCCGCCAGTGCAGAAAGGATTTTTGCTGAAAAAGAGGAAGTGGCCCTTAAAAGGCTGGCACAAGAGATTCTTCTGCCTGGAAAAGGGAATCTTGAAATATGCCAAGAGCCAAGCTGATATTGAGCGGGAGAAGTTGCATGGCTGCATTGACGTGGGGCTCTCTGTGATGTCTGTGAAGAAGTCGTCTAAGTGTATCGACCTAGACACGGAGGAGCACATCTACCACCTGAAGGTGAAGTCAGAAGAACTCTTTGACGAGTGGGTGTCCAAGCTCCGTCACCACAGAATGTACCGGCAGAATGAGATCGCCATGTTTCCCCGGGATGTCAATCACTTTTTCTCAGGGTCCTCTGTCACAGATTCTGCCCCAGGAGTGTTCGAGTCAGTTTCCAGTAGGAAGCGTAGCAGTCTATCAAAGCAGAATTCATTTCCACCCGGAAGCAATTTGTCATTTTCTTGTGGTGGCGACACTCGAGTTCCTTTCTGGCTACAGTCTTCAGAGGACATGGAAAAATGTTCAAAAGACATGGCACACTGCCATGCCTACCTGCTGGAAATGAGCCAGCTCTTAGAAAGCATGGACGTCCTGCATCGGACATACTCGGCGCCAGCCATCAACGCCATCCAGGTCCCTAAGCCTTTTTCTGGCCCTGTGAGACTGCACTCCTCCAATCCTAACTTGTCGACGCTGGACTTTGGAGAAGAGAAGTCTTACTCGGATGGTTCTGAAGCCTCGTCGGAGTTCTCCAAGATGCAGGAGGATCTGTGCCATGTCGCCCACAAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ATGGTTCTGAAGCCTCGTCG
60.11
AAATCCTTTCTGCACTGGCG
59.12
141
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGATGGTTCTGAAGCCTCGT
59.75
AAATCCTTTCTGCACTGGCG
59.12
143
PCR template sequence:
ACGCTGGACTTTGGAGAAGAGAAGTCTTACTCGGATGGTTCTGAAGCCTCGTCGGAGTTCTCCAAGATGCAGGAGGATCTGTGCCATGTCGCCCACAAAGGACAGCTGGGAAGTCGTGGAAGGATTGAGAGGGGAAATGACTTACACCCAGGAGCCGCCAGTGCAGAAAGGATTTTTGCTGAAAAAGAGGAAGTGGCCCT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
8
Interacting miRNAs (#binding sites)
mmu-miR-296-5p(1), mmu-miR-34c-5p(1), mmu-miR-34a-5p(1), mmu-miR-214-3p(1), mmu-miR-127-3p(1), mmu-miR-351-5p(1), mmu-miR-207(1), mmu-miR-452-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GTCGCCCACAAAGGACAGCTGGGAAG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCOSBPL3_838_ORF_1
0.8683
0.251687895
0.98757746
972
ORF sequence:
ATGACTTACACCCAGGAGCCGCCAGTGCAGAAAGGATTTTTGCTGAAAAAGAGGAAGTGGCCCTTAAAAGGCTGGCACAAGAGATTCTTCTGCCTGGAAAAGGGAATCTTGAAATATGCCAAGAGCCAAGCTGATATTGAGCGGGAGAAGTTGCATGGCTGCATTGACGTGGGGCTCTCTGTGATGTCTGTGAAGAAGTCGTCTAAGTGTATCGACCTAGACACGGAGGAGCACATCTACCACCTGAAGGTGAAGTCAGAAGAACTCTTTGACGAGTGGGTGTCCAAGCTCCGTCACCACAGAATGTACCGGCAGAATGAGATCGCCATGTTTCCCCGGGATGTCAATCACTTTTTCTCAGGGTCCTCTGTCACAGATTCTGCCCCAGGAGTGTTCGAGTCAGTTTCCAGTAGGAAGCGTAGCAGTCTATCAAAGCAGAATTCATTTCCACCCGGAAGCAATTTGTCATTTTCTTGTGGTGGCGACACTCGAGTTCCTTTCTGGCTACAGTCTTCAGAGGACATGGAAAAATGTTCAAAAGACATGGCACACTGCCATGCCTACCTGCTGGAAATGAGCCAGCTCTTAGAAAGCATGGACGTCCTGCATCGGACATACTCGGCGCCAGCCATCAACGCCATCCAGGTCCCTAAGCCTTTTTCTGGCCCTGTGAGACTGCACTCCTCCAATCCTAACTTGTCGACGCTGGACTTTGGAGAAGAGAAGTCTTACTCGGATGGTTCTGAAGCCTCGTCGGAGTTCTCCAAGATGCAGGAGGATCTGTGCCATGTCGCCCACAAAGGACAGCTGGGAAGTCGTGGAAGGATTGAGAGGGGAAATGACTTACACCCAGGAGCCGCCAGTGCAGAAAGGATTTTTGCTGAAAAAGAGGAAGTGGCCCTTAAAAGGCTGGCACAAGAGATTCTTCTGCCTGGAAAAGGGAATCTTGAAATATGCCAAGAGCCAAGCTGA
Peptide sequence:
MTYTQEPPVQKGFLLKKRKWPLKGWHKRFFCLEKGILKYAKSQADIEREKLHGCIDVGLSVMSVKKSSKCIDLDTEEHIYHLKVKSEELFDEWVSKLRHHRMYRQNEIAMFPRDVNHFFSGSSVTDSAPGVFESVSSRKRSSLSKQNSFPPGSNLSFSCGGDTRVPFWLQSSEDMEKCSKDMAHCHAYLLEMSQLLESMDVLHRTYSAPAINAIQVPKPFSGPVRLHSSNPNLSTLDFGEEKSYSDGSEASSEFSKMQEDLCHVAHKGQLGSRGRIERGNDLHPGAASAERIFAEKEEVALKRLAQEILLPGKGNLEICQEPS
IRESfinder result
IRESfinder score
0.384282564
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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