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mmu_circGpsm2_251
Basic information of circular RNA
PanCircBase ID:
mmu_circGpsm2_251
mm39_Chr. Position ID:
chr3|108594135|108597152|-
Gene name:
Gpsm2
Transcript:
ENSMUST00000029482.16
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
12,11
Exon/intron offsets:
0,2946
Genomic length:
3017
Exon/intron sizes in nt:
180,71
Flanking exon/introns:
chr3:108590141-108594135|chr3:108597152-108604264
Splice length:
251
Other database IDs:
CIRCpedia: MMU_CIRCpedia_222718, circAtlas: mmu-Gpsm2_0012
circBase: hsa_circ_0110331, circAtlas: hsa-GPSM2_0005, CIRCpedia: HSA_CIRCpedia_108969
Human Ortholog IDs:
Mature spliced Sequence:
GTGCAGGCGCCAAGCTGGGACGGAGACACAGTATGGAGAACTTGGAACTTATGAAGTTAACACCAGAAAAGGTGCCGAATTGGAACAGTGAAATTCTCGCTAAACAGAAACCTCTCATTGCCAAACCATCTGCAAAGCTCCTGTTTGTCAACAGACTGAAGGGCAAAAAGTACAAAAGCGGCAGCGCCTGCACTAAGGTTCTCCAAGACGCCAGCAACTCCGTGGACCACCGCGCGCCACGCTCCCAGAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AAGGTTCTCCAAGACGCCAG
59.96
ACTGTTCCAATTCGGCACCT
59.89
146
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AAGGTTCTCCAAGACGCCAG
59.96
CACTGTTCCAATTCGGCACC
59.76
147
PCR template sequence:
CAGACTGAAGGGCAAAAAGTACAAAAGCGGCAGCGCCTGCACTAAGGTTCTCCAAGACGCCAGCAACTCCGTGGACCACCGCGCGCCACGCTCCCAGAAGGTGCAGGCGCCAAGCTGGGACGGAGACACAGTATGGAGAACTTGGAACTTATGAAGTTAACACCAGAAAAGGTGCCGAATTGGAACAGTGAAATTCTCGC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
2
Interacting miRNAs (#binding sites)
mmu-miR-182-5p(1), mmu-miR-129-5p(1)
siRNAs for circular RNA silencing
Junction sequence
ACGCTCCCAGAAGGTGCAGGCGCCAA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCGPSM2_251_ORF_1
0.8423
0.201946883
0.290540109
273
ORF sequence:
ATGGAGAACTTGGAACTTATGAAGTTAACACCAGAAAAGGTGCCGAATTGGAACAGTGAAATTCTCGCTAAACAGAAACCTCTCATTGCCAAACCATCTGCAAAGCTCCTGTTTGTCAACAGACTGAAGGGCAAAAAGTACAAAAGCGGCAGCGCCTGCACTAAGGTTCTCCAAGACGCCAGCAACTCCGTGGACCACCGCGCGCCACGCTCCCAGAAGGTGCAGGCGCCAAGCTGGGACGGAGACACAGTATGGAGAACTTGGAACTTATGA
Peptide sequence:
MENLELMKLTPEKVPNWNSEILAKQKPLIAKPSAKLLFVNRLKGKKYKSGSACTKVLQDASNSVDHRAPRSQKVQAPSWDGDTVWRTWNL
IRESfinder result
IRESfinder score
0.28698202
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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