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mmu_circOrc2_319
Basic information of circular RNA
PanCircBase ID:
mmu_circOrc2_319
mm39_Chr. Position ID:
chr1|58508826|58510245|-
Gene name:
Orc2
Transcript:
ENSMUST00000027198.12
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
15,14
Exon/intron offsets:
0,1272
Genomic length:
1419
Exon/intron sizes in nt:
1,72,147
Flanking exon/introns:
chr1:58506871-58508826|chr1:58510245-58511463
Splice length:
319
Other database IDs:
CIRCpedia: MMU_CIRCpedia_226701
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_39118
Human Ortholog IDs:
Mature spliced Sequence:
ATTCTTCTTTAGAACTCTTCCTTCTTATCCACAATTTGGATAGCCAAATGTTAAGAGGAGACAATAGCCAGCAAATTCTTGGACAGTTGTCATCATTACATAACGTGTATCTCATAGCATCTATTGACCATCTCAATGCTCCTCTCATGTGGGATCATGCAAAGCAGAGTCTTTATAACTGGCTTTGGTATGAAACTACTACATACAGTCCTTATACTGAAGAAACCTCCTATGAGAACTCCCTTCTGGTTAAGCAGTCTGGATCTCTGCCACTTAGTTCTCTGATTCATGTCTTACGAAGCCTTACCCCCAATGCAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCAGTCTGGATCTCTGCCAC
60.46
ACTGTCCAAGAATTTGCTGGC
59.38
153
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCAGTCTGGATCTCTGCCAC
60.46
CTGTCCAAGAATTTGCTGGCT
59.11
152
PCR template sequence:
AAGAAACCTCCTATGAGAACTCCCTTCTGGTTAAGCAGTCTGGATCTCTGCCACTTAGTTCTCTGATTCATGTCTTACGAAGCCTTACCCCCAATGCAAGATTCTTCTTTAGAACTCTTCCTTCTTATCCACAATTTGGATAGCCAAATGTTAAGAGGAGACAATAGCCAGCAAATTCTTGGACAGTTGTCATCATTACA
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-146a-5p(1), mmu-miR-297a-5p(1), mmu-miR-188-3p(1), mmu-miR-146b-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CCCCCAATGCAAGATTCTTCTTTAGA
siRNA sets
AAAGAAGAATCTTGCATTG, TCTAAAGAAGAATCTTGCA, AAGAATCTTGCATTGGGGG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCORC2_319_ORF_1
0.7172
-0.013016195
0.187513815
348
ORF sequence:
ATGTCTTACGAAGCCTTACCCCCAATGCAAGATTCTTCTTTAGAACTCTTCCTTCTTATCCACAATTTGGATAGCCAAATGTTAAGAGGAGACAATAGCCAGCAAATTCTTGGACAGTTGTCATCATTACATAACGTGTATCTCATAGCATCTATTGACCATCTCAATGCTCCTCTCATGTGGGATCATGCAAAGCAGAGTCTTTATAACTGGCTTTGGTATGAAACTACTACATACAGTCCTTATACTGAAGAAACCTCCTATGAGAACTCCCTTCTGGTTAAGCAGTCTGGATCTCTGCCACTTAGTTCTCTGATTCATGTCTTACGAAGCCTTACCCCCAATGCA
Peptide sequence:
MSYEALPPMQDSSLELFLLIHNLDSQMLRGDNSQQILGQLSSLHNVYLIASIDHLNAPLMWDHAKQSLYNWLWYETTTYSPYTEETSYENSLLVKQSGSLPLSSLIHVLRSLTPNA
IRESfinder result
IRESfinder score
0.867539468
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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