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mmu_circOsbpl2_1093
Basic information of circular RNA
PanCircBase ID:
mmu_circOsbpl2_1093
mm39_Chr. Position ID:
chr2|179778771|179795115|+
Gene name:
Osbpl2
Transcript:
ENSMUST00000040668.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
9
Exon/intron indexes:
2,3,4,5,6,7,8,9,10
Exon/intron offsets:
0,1234,4126,7853,8110,11447,13200,14037,16220
Genomic length:
16344
Exon/intron sizes in nt:
1,34,14,57,61,35,98,18,00,00,00,000
Flanking exon/introns:
chr2:179761262-179778771|chr2:179795115-179797059
Splice length:
1093
Other database IDs:
CIRCpedia: MMU_CIRCpedia_228531, circAtlas: mmu-Osbpl2_0012
Human Ortholog IDs:
Mature spliced Sequence:
ATTTCCAGGATCCACACAACTTCAACATAAATATAGATCAGATATGATCCAGTAGGAGGACCAAACCCCAGAACAGTGACAGTCTTGTCACTGAAGGATGAACGGGGAGGAAGAATTCTTTGATGCCGTCACAGGCTTTGATTCTGATAATTCTTCTATAGGGGAATTTTCAGAGGCAAATAAAATTAGTGGGATGATTGACTTGGATACCAGCAAAAGTACTAGGAGTGGGAAAAATGGGGAGAAACCACAACAAGAGAATGGAATTCAAAAGCACAGGACAGCCCTTCCTGCTCCCATGTTCACCAGAAGCGACTTCAGTGTGTGGAGTATCCTGAAGAAATGCATTGGCTTGGAACTCTCCAAGATCACAATGCCAATTGCCTTCAATGAGCCACTGAGCTTCCTGCAGCGGATCACAGAGTACATGGAGCATGTGTACCTCATTCACAAAGCCTCAAGTCAGTCCCAGCCGCTGGAGAGAATGCAGTCTGTCGCTGCCTTTGCGGTCTCAGCTGTGGCTTCCCAGTGGGAGAGAACTGGCAAACCCTTTAACCCACTCTTGGGAGAGACATATGAGTTGATCAGGGAAGACTTAGGGTTCAGATTTATATCTGAGCAGGTCAGTCACCACCCTCCTATTAGCGCATTTTATTCAGAAGGTCTCAATCAAGACTTCAGGTTCCACGGTTCCATCTACCCAAAGCTGAAGTTCTGGGGCAAGAGTGTGGAGGCGGAGCCCCGGGGGACCATCACACTGGAGCTGCTCAAACATAATGAAGCCTATACCTGGACCAACCCTACCTGCTGTGTACACAATGTCATCCTTGGGCAGCTATGGATAGAGCAGTATGGGATAGTGGAGATTGTAAATCACAGAACTGGAGATAAGTGTATACTTCACTTCAAGCCTTGTGGATTGTTTGGGAAGGAACTTCACAGAGTAGAAGGGTACATTCAAGACAAAAACAGGAAGAAGCTCTTTATCATGTATGGCAAGTGGACAGAGTGCTTGTGGGGAATAGATCCTGCTTCATACGAGTCCTTTAAGAAGCAAGAGAAGAGAGGTGACCAGGCCAGGAAGGCCAAGATG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGTGGACAGAGTGCTTGTGG
59.89
ACTGTTCTGGGGTTTGGTCC
59.81
172
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GACAGAGTGCTTGTGGGGAA
59.89
ACTGTTCTGGGGTTTGGTCC
59.81
168
PCR template sequence:
TGGCAAGTGGACAGAGTGCTTGTGGGGAATAGATCCTGCTTCATACGAGTCCTTTAAGAAGCAAGAGAAGAGAGGTGACCAGGCCAGGAAGGCCAAGATGATTTCCAGGATCCACACAACTTCAACATAAATATAGATCAGATATGATCCAGTAGGAGGACCAAACCCCAGAACAGTGACAGTCTTGTCACTGAAGGATG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
3
Interacting miRNAs (#binding sites)
mmu-miR-134-5p(1), mmu-miR-3470b(1), mmu-miR-296-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GAAGGCCAAGATGATTTCCAGGATCC
siRNA sets
GATCCTGGAAATCATCTTG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCOSBPL2_1093_ORF_1
0.9717
0.166031396
0.990004725
1026
ORF sequence:
ATGAACGGGGAGGAAGAATTCTTTGATGCCGTCACAGGCTTTGATTCTGATAATTCTTCTATAGGGGAATTTTCAGAGGCAAATAAAATTAGTGGGATGATTGACTTGGATACCAGCAAAAGTACTAGGAGTGGGAAAAATGGGGAGAAACCACAACAAGAGAATGGAATTCAAAAGCACAGGACAGCCCTTCCTGCTCCCATGTTCACCAGAAGCGACTTCAGTGTGTGGAGTATCCTGAAGAAATGCATTGGCTTGGAACTCTCCAAGATCACAATGCCAATTGCCTTCAATGAGCCACTGAGCTTCCTGCAGCGGATCACAGAGTACATGGAGCATGTGTACCTCATTCACAAAGCCTCAAGTCAGTCCCAGCCGCTGGAGAGAATGCAGTCTGTCGCTGCCTTTGCGGTCTCAGCTGTGGCTTCCCAGTGGGAGAGAACTGGCAAACCCTTTAACCCACTCTTGGGAGAGACATATGAGTTGATCAGGGAAGACTTAGGGTTCAGATTTATATCTGAGCAGGTCAGTCACCACCCTCCTATTAGCGCATTTTATTCAGAAGGTCTCAATCAAGACTTCAGGTTCCACGGTTCCATCTACCCAAAGCTGAAGTTCTGGGGCAAGAGTGTGGAGGCGGAGCCCCGGGGGACCATCACACTGGAGCTGCTCAAACATAATGAAGCCTATACCTGGACCAACCCTACCTGCTGTGTACACAATGTCATCCTTGGGCAGCTATGGATAGAGCAGTATGGGATAGTGGAGATTGTAAATCACAGAACTGGAGATAAGTGTATACTTCACTTCAAGCCTTGTGGATTGTTTGGGAAGGAACTTCACAGAGTAGAAGGGTACATTCAAGACAAAAACAGGAAGAAGCTCTTTATCATGTATGGCAAGTGGACAGAGTGCTTGTGGGGAATAGATCCTGCTTCATACGAGTCCTTTAAGAAGCAAGAGAAGAGAGGTGACCAGGCCAGGAAGGCCAAGATGATTTCCAGGATCCACACAACTTCAACATAA
Peptide sequence:
MNGEEEFFDAVTGFDSDNSSIGEFSEANKISGMIDLDTSKSTRSGKNGEKPQQENGIQKHRTALPAPMFTRSDFSVWSILKKCIGLELSKITMPIAFNEPLSFLQRITEYMEHVYLIHKASSQSQPLERMQSVAAFAVSAVASQWERTGKPFNPLLGETYELIREDLGFRFISEQVSHHPPISAFYSEGLNQDFRFHGSIYPKLKFWGKSVEAEPRGTITLELLKHNEAYTWTNPTCCVHNVILGQLWIEQYGIVEIVNHRTGDKCILHFKPCGLFGKELHRVEGYIQDKNRKKLFIMYGKWTECLWGIDPASYESFKKQEKRGDQARKAKMISRIHTTST
IRESfinder result
IRESfinder score
0.674795062
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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