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mmu_circTlk2_247
Basic information of circular RNA
PanCircBase ID:
mmu_circTlk2_247
mm39_Chr. Position ID:
chr11|105144116|105147777|+
Gene name:
Tlk2
Transcript:
ENSMUST00000106939.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
13,14,15
Exon/intron offsets:
0,1675,3579
Genomic length:
3661
Exon/intron sizes in nt:
67,98,82
Flanking exon/introns:
chr11:105140463-105144116|chr11:105147777-105151086
Splice length:
247
Other database IDs:
circAtlas: mmu-Tlk2_0031
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_129922
Human Ortholog IDs:
Mature spliced Sequence:
GTTAACGTTAGCCGAGTACCATGAACAAGAGGAAATCTTCAAACTTAGATTAGGTCATCTTAAGAAAGAGGAAGCAGAAATCCAGGCAGAGCTGGAAAGGCTGGAAAGGGTTAGGAATCTACACATCAGGGAATTAAAAAGGATACATAATGAAGACAATTCGCAGTTTAAAGACCATCCAACACTAAATGACAGATATTTGTTGTTACATCTTTTGGGTAGAGGAGGTTTCAGTGAAGTTTACAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CGCAGTTTAAAGACCATCCAACA
59.75
GCTCTGCCTGGATTTCTGCT
60.39
178
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CGCAGTTTAAAGACCATCCAACA
59.75
AGCTCTGCCTGGATTTCTGC
60.39
179
PCR template sequence:
TAATGAAGACAATTCGCAGTTTAAAGACCATCCAACACTAAATGACAGATATTTGTTGTTACATCTTTTGGGTAGAGGAGGTTTCAGTGAAGTTTACAAGGTTAACGTTAGCCGAGTACCATGAACAAGAGGAAATCTTCAAACTTAGATTAGGTCATCTTAAGAAAGAGGAAGCAGAAATCCAGGCAGAGCTGGAAAGG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
6
Interacting miRNAs (#binding sites)
mmu-miR-215-5p(1), mmu-miR-335-3p(1), mmu-miR-3065-5p(1), mmu-miR-670-5p(1), mmu-miR-1904(1), mmu-miR-7a-1-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TGAAGTTTACAAGGTTAACGTTAGCC
siRNA sets
TAACGTTAACCTTGTAAAC, GTTAACCTTGTAAACTTCA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCTLK2_247_ORF_1
0.9075
-0.041859073
0.177995896
306
ORF sequence:
ATGACAGATATTTGTTGTTACATCTTTTGGGTAGAGGAGGTTTCAGTGAAGTTTACAAGGTTAACGTTAGCCGAGTACCATGAACAAGAGGAAATCTTCAAACTTAGATTAGGTCATCTTAAGAAAGAGGAAGCAGAAATCCAGGCAGAGCTGGAAAGGCTGGAAAGGGTTAGGAATCTACACATCAGGGAATTAAAAAGGATACATAATGAAGACAATTCGCAGTTTAAAGACCATCCAACACTAAATGACAGATATTTGTTGTTACATCTTTTGGGTAGAGGAGGTTTCAGTGAAGTTTACAAG
Peptide sequence:
MTDICCYIFWVEEVSVKFTRLTLAEYHEQEEIFKLRLGHLKKEEAEIQAELERLERVRNLHIRELKRIHNEDNSQFKDHPTLNDRYLLLHLLGRGGFSEVYK
IRESfinder result
IRESfinder score
0.666150128
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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