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mmu_circCtdspl2_341
Basic information of circular RNA
PanCircBase ID:
mmu_circCtdspl2_341
mm39_Chr. Position ID:
chr2|121817429|121834444|+
Gene name:
Ctdspl2
Transcript:
ENSMUST00000036647.13
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
6,7,8,9
Exon/intron offsets:
0,1841,6397,16952
Genomic length:
17015
Exon/intron sizes in nt:
79,112,87,63
Flanking exon/introns:
chr2:121811845-121817429|chr2:121834444-121834548
Splice length:
341
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
CACCAGTAACTCCAGAGAGTGGGTACTCGTCAGCCCATGCAGAGGCCACCTATGAAGAAGACTGGGAAGTATTTGACCCCTATTATTTCATCAAACATGTTCCGCCTCTGACAGAAGAACAGCTAAATAGGAAACCTGCTCTTCCTTTGAAAACAAGAAGCACACCAGAGTTCTCCCTGGTCTTAGATCTGGATGAGACACTAGTGCACTGCAGTCTGAATGAGCTAGAAGATGCAGCGCTCACTTTTCCAGTCCTTTTCCAAGATGTCATTTATCAGGTTTATGTGAGATTAAGACCATTCTTCAGGGAATTCCTGGAACGAATGTCTCAGATGTATGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCCAGTCCTTTTCCAAGATGTCA
59.61
TCATAGGTGGCCTCTGCATG
59.53
149
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCCAGTCCTTTTCCAAGATGTCA
59.61
CATAGGTGGCCTCTGCATGG
60.54
148
PCR template sequence:
CACTTTTCCAGTCCTTTTCCAAGATGTCATTTATCAGGTTTATGTGAGATTAAGACCATTCTTCAGGGAATTCCTGGAACGAATGTCTCAGATGTATGAGCACCAGTAACTCCAGAGAGTGGGTACTCGTCAGCCCATGCAGAGGCCACCTATGAAGAAGACTGGGAAGTATTTGACCCCTATTATTTCATCAAACATGT
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-148a-3p(1), mmu-miR-139-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TCAGATGTATGAGCACCAGTAACTCC
siRNA sets
AGTTACTGGTGCTCATACA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
NA
NA
NA
NA
NA
ORF sequence:
NA
Peptide sequence:
NA
IRESfinder result
IRESfinder score
0.638392478
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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