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mmu_circTfg_537
Basic information of circular RNA
PanCircBase ID:
mmu_circTfg_537
mm39_Chr. Position ID:
chr16|56517821|56526057|-
Gene name:
Tfg
Transcript:
ENSMUST00000065515.14
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
6,5,4,3
Exon/intron offsets:
0,3610,6968,8152
Genomic length:
8236
Exon/intron sizes in nt:
138,168,147,84
Flanking exon/introns:
chr16:56514852-56517821|chr16:56526057-56532973
Splice length:
537
Other database IDs:
circAtlas: mmu-Tfg_0002
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_151066
Human Ortholog IDs:
Mature spliced Sequence:
ATGGAGATCTTATAACAATTTTTGATAGTTCTGACCTTTCCTTTGCAATTCAGTGTAGTAGAATACTGAAACTGACATTATTTGTTAATGGCCAGCCAAGACCCCTTGAATCAAGTCAGGTGAAATATCTTCGTCGAGAACTGGTAGAACTTCGAAATAAAGTGAATCGCTTATTGGATAGCTTAGAACCACCTGGAGAACCAGGACCTTCCACCAGTATTCCTGAAAATGATACTGTGGATGGCAGGGAAGAGAAGCCTGCCGCTTCTGACTCTTCTGGGAAACAGTCAACTCAGGTTATGGCAGCAAGTATGTCAGCTTTTGATCCTCTGAAAAACCAAGATGAAATCAACAAAAACGTCATGTCAGCATTTGGATTAACAGATGACCAGGTTTCAGGCCCACCCAGTGCCCCTACAGAAGACCGCTCCGGAACACCTGACAGCATTGCTTCTTCCTCCTCAGCAGCACACCCAGCAGTTCAGCCGCAGCAACCTCCCTATGCAGGAGCTCAGACACAAGCAGGTCAGATTGAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCCCTATGCAGGAGCTCAGA
59.74
CTTGGCTGGCCATTAACAAA
56.87
141
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCCTATGCAGGAGCTCAGAC
59.61
CTTGGCTGGCCATTAACAAA
56.87
140
PCR template sequence:
CCTGACAGCATTGCTTCTTCCTCCTCAGCAGCACACCCAGCAGTTCAGCCGCAGCAACCTCCCTATGCAGGAGCTCAGACACAAGCAGGTCAGATTGAAGATGGAGATCTTATAACAATTTTTGATAGTTCTGACCTTTCCTTTGCAATTCAGTGTAGTAGAATACTGAAACTGACATTATTTGTTAATGGCCAGCCAAG
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-29b-1-5p(1), mmu-miR-383-5p(1), mmu-miR-29b-2-5p(1), mmu-miR-669d-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GGTCAGATTGAAGATGGAGATCTTAT
siRNA sets
ATAAGATCTCCATCTTCAA, TAAGATCTCCATCTTCAAT, AGATCTCCATCTTCAATCT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCTFG_537_ORF_1
1.161
0.152970355
0.956963258
774
ORF sequence:
ATGGCAGCAAGTATGTCAGCTTTTGATCCTCTGAAAAACCAAGATGAAATCAACAAAAACGTCATGTCAGCATTTGGATTAACAGATGACCAGGTTTCAGGCCCACCCAGTGCCCCTACAGAAGACCGCTCCGGAACACCTGACAGCATTGCTTCTTCCTCCTCAGCAGCACACCCAGCAGTTCAGCCGCAGCAACCTCCCTATGCAGGAGCTCAGACACAAGCAGGTCAGATTGAAGATGGAGATCTTATAACAATTTTTGATAGTTCTGACCTTTCCTTTGCAATTCAGTGTAGTAGAATACTGAAACTGACATTATTTGTTAATGGCCAGCCAAGACCCCTTGAATCAAGTCAGGTGAAATATCTTCGTCGAGAACTGGTAGAACTTCGAAATAAAGTGAATCGCTTATTGGATAGCTTAGAACCACCTGGAGAACCAGGACCTTCCACCAGTATTCCTGAAAATGATACTGTGGATGGCAGGGAAGAGAAGCCTGCCGCTTCTGACTCTTCTGGGAAACAGTCAACTCAGGTTATGGCAGCAAGTATGTCAGCTTTTGATCCTCTGAAAAACCAAGATGAAATCAACAAAAACGTCATGTCAGCATTTGGATTAACAGATGACCAGGTTTCAGGCCCACCCAGTGCCCCTACAGAAGACCGCTCCGGAACACCTGACAGCATTGCTTCTTCCTCCTCAGCAGCACACCCAGCAGTTCAGCCGCAGCAACCTCCCTATGCAGGAGCTCAGACACAAGCAGGTCAGATTGAA
Peptide sequence:
MAASMSAFDPLKNQDEINKNVMSAFGLTDDQVSGPPSAPTEDRSGTPDSIASSSSAAHPAVQPQQPPYAGAQTQAGQIEDGDLITIFDSSDLSFAIQCSRILKLTLFVNGQPRPLESSQVKYLRRELVELRNKVNRLLDSLEPPGEPGPSTSIPENDTVDGREEKPAASDSSGKQSTQVMAASMSAFDPLKNQDEINKNVMSAFGLTDDQVSGPPSAPTEDRSGTPDSIASSSSAAHPAVQPQQPPYAGAQTQAGQIE
IRESfinder result
IRESfinder score
0.511696305
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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