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mmu_circGm14004_257
Basic information of circular RNA
PanCircBase ID:
mmu_circGm14004_257
mm39_Chr. Position ID:
chr2|124971568|124974024|-
Gene name:
Gm14004
Transcript:
ENSMUST00000138875.2
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
3,2
Exon/intron offsets:
0,2292
Genomic length:
2456
Exon/intron sizes in nt:
93,164
Flanking exon/introns:
chr2:124966515-124971568|chr2:124974024-124976154
Splice length:
257
Other database IDs:
CIRCpedia: MMU_CIRCpedia_213850, circAtlas: mmu-Gm14004_0001
Human Ortholog IDs:
Mature spliced Sequence:
GACCATTGAAGAAATGCACATTGCAATGAACACATGCTCTTCAAATTCTTGCACAACTTCCATAGAAACTACTGAGAGAAATGAGACTCACAACAGCCTTCTAAAGTGATGAGGCTCACCCATGCTTTCAAAGCCTATGATCTACTATCAGAACTAAAAACCACGTGCTTTCCAACCTCAGTTCTGCCAATGAAGAACAGTGTTGCAAATTTCCCAGGAAGCAGAGGAGAAAGTATTTGTCCCAGCAGCTGCTGCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCCCAGGAAGCAGAGGAGAA
59.88
AGGCTGTTGTGAGTCTCATTTCT
59.93
145
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TTCCCAGGAAGCAGAGGAGA
59.88
AGGCTGTTGTGAGTCTCATTTCT
59.93
146
PCR template sequence:
AAACCACGTGCTTTCCAACCTCAGTTCTGCCAATGAAGAACAGTGTTGCAAATTTCCCAGGAAGCAGAGGAGAAAGTATTTGTCCCAGCAGCTGCTGCAGGACCATTGAAGAAATGCACATTGCAATGAACACATGCTCTTCAAATTCTTGCACAACTTCCATAGAAACTACTGAGAGAAATGAGACTCACAACAGCCTT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
1
Interacting miRNAs (#binding sites)
mmu-miR-1198-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GCAGCTGCTGCAGGACCATTGAAGAA
siRNA sets
TCTTCAATGGTCCTGCAGC,CTTCAATGGTCCTGCAGCA,TTCAATGGTCCTGCAGCAG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCGM14004_257_ORF_1
0.8705
-0.073264636
0.11164491
258
ORF sequence:
ATGAGGCTCACCCATGCTTTCAAAGCCTATGATCTACTATCAGAACTAAAAACCACGTGCTTTCCAACCTCAGTTCTGCCAATGAAGAACAGTGTTGCAAATTTCCCAGGAAGCAGAGGAGAAAGTATTTGTCCCAGCAGCTGCTGCAGGACCATTGAAGAAATGCACATTGCAATGAACACATGCTCTTCAAATTCTTGCACAACTTCCATAGAAACTACTGAGAGAAATGAGACTCACAACAGCCTTCTAAAGTGA
Peptide sequence:
MRLTHAFKAYDLLSELKTTCFPTSVLPMKNSVANFPGSRGESICPSSCCRTIEEMHIAMNTCSSNSCTTSIETTERNETHNSLLK
IRESfinder result
IRESfinder score
0.706145
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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