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mmu_circCops2_315
Basic information of circular RNA
PanCircBase ID:
mmu_circCops2_315
mm39_Chr. Position ID:
chr2|125684352|125686855|-
Gene name:
Cops2
Transcript:
ENSMUST00000110463.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
6,5,4
Exon/intron offsets:
0,189,2377
Genomic length:
2503
Exon/intron sizes in nt:
7,81,11,126
Flanking exon/introns:
chr2:125682418-125684352|chr2:125686855-125690126
Splice length:
315
Other database IDs:
circAtlas: mmu-Cops2_0001
circBase: hsa_circ_0103726, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_14609
Human Ortholog IDs:
Mature spliced Sequence:
ACAAACTTTCCAGAAATGATGAACAGATATAAGCAACTATTGACCTATATTCGGAGTGCAGTCACCAGGAACTATTCTGAAAAGTCCATTAATTCTATCCTTGATTATATCTCCACTTCTAAACAGAATTCTGATTTTTTATGTCAGATGGATTTACTGCAGGAATTTTATGAAACAACACTGGAAGCTTTGAAAGATGCTAAGAATGATAGACTGTGGTTTAAGACAAACACAAAGCTTGGAAAATTATATTTAGAACGAGAAGAATATGGAAAGCTTCAAAAAATTTTACGACAGTTACATCAGTCTTGTCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGACAAACACAAAGCTTGGA
55.7
CTGGTGACTGCACTCCGAAT
60.04
160
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGACAAACACAAAGCTTGGAA
56.49
CTGGTGACTGCACTCCGAAT
60.04
160
PCR template sequence:
GTGGTTTAAGACAAACACAAAGCTTGGAAAATTATATTTAGAACGAGAAGAATATGGAAAGCTTCAAAAAATTTTACGACAGTTACATCAGTCTTGTCAGACAAACTTTCCAGAAATGATGAACAGATATAAGCAACTATTGACCTATATTCGGAGTGCAGTCACCAGGAACTATTCTGAAAAGTCCATTAATTCTATCC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
NA
Interacting miRNAs (#binding sites)
NA
siRNAs for circular RNA silencing
Junction sequence
TCAGTCTTGTCAGACAAACTTTCCAG
siRNA sets
GAAAGTTTGTCTGACAAGA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCCOPS2_315_ORF_1
0.8877
-0.025685641
0.673923858
615
ORF sequence:
ATGATGAACAGATATAAGCAACTATTGACCTATATTCGGAGTGCAGTCACCAGGAACTATTCTGAAAAGTCCATTAATTCTATCCTTGATTATATCTCCACTTCTAAACAGAATTCTGATTTTTTATGTCAGATGGATTTACTGCAGGAATTTTATGAAACAACACTGGAAGCTTTGAAAGATGCTAAGAATGATAGACTGTGGTTTAAGACAAACACAAAGCTTGGAAAATTATATTTAGAACGAGAAGAATATGGAAAGCTTCAAAAAATTTTACGACAGTTACATCAGTCTTGTCAGACAAACTTTCCAGAAATGATGAACAGATATAAGCAACTATTGACCTATATTCGGAGTGCAGTCACCAGGAACTATTCTGAAAAGTCCATTAATTCTATCCTTGATTATATCTCCACTTCTAAACAGAATTCTGATTTTTTATGTCAGATGGATTTACTGCAGGAATTTTATGAAACAACACTGGAAGCTTTGAAAGATGCTAAGAATGATAGACTGTGGTTTAAGACAAACACAAAGCTTGGAAAATTATATTTAGAACGAGAAGAATATGGAAAGCTTCAAAAAATTTTACGACAGTTACATCAGTCTTGTCAG
Peptide sequence:
MMNRYKQLLTYIRSAVTRNYSEKSINSILDYISTSKQNSDFLCQMDLLQEFYETTLEALKDAKNDRLWFKTNTKLGKLYLEREEYGKLQKILRQLHQSCQTNFPEMMNRYKQLLTYIRSAVTRNYSEKSINSILDYISTSKQNSDFLCQMDLLQEFYETTLEALKDAKNDRLWFKTNTKLGKLYLEREEYGKLQKILRQLHQSCQ
IRESfinder result
IRESfinder score
0.798629382
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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