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mmu_circTctn1_266
Basic information of circular RNA
PanCircBase ID:
mmu_circTctn1_266
mm39_Chr. Position ID:
chr5|122386911|122389784|-
Gene name:
Tctn1
Transcript:
ENSMUST00000111738.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
8,7,6
Exon/intron offsets:
0,1598,2763
Genomic length:
2873
Exon/intron sizes in nt:
1,35,21,110
Flanking exon/introns:
chr5:122386108-122386911|chr5:122389784-122392546
Splice length:
266
Other database IDs:
CIRCpedia: MMU_CIRCpedia_223407, circAtlas: mmu-Tctn1_0007
Human Ortholog IDs:
Mature spliced Sequence:
CGTTCCTGGTGAGCCAGGCCTTCGAATGCAGCCGAAGGGTGGACATAGAACAGTGTGAAGGAATGGAAGCCCTCAGCATGGCTCATTACAGCAGCCCTGCCATTCTGAGGGTACCTAATTCAATGACACAGGTCTCCATCAAGATCCAGTCTGTAATGTATCGGTCTCTGAATCACACACTGACGCAGTTAGAAGGCCATGGTGTCCTGCGGCCATCTCTGGTCAGCACTGGGCAAGACAGACTCTGCAGCAACGTTGTTCTCCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CATCTCTGGTCAGCACTGGG
60.11
GCTGCTGTAATGAGCCATGC
59.97
148
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCATCTCTGGTCAGCACTGG
60.11
GCTGCTGTAATGAGCCATGC
59.97
149
PCR template sequence:
TCTGAATCACACACTGACGCAGTTAGAAGGCCATGGTGTCCTGCGGCCATCTCTGGTCAGCACTGGGCAAGACAGACTCTGCAGCAACGTTGTTCTCCAGCGTTCCTGGTGAGCCAGGCCTTCGAATGCAGCCGAAGGGTGGACATAGAACAGTGTGAAGGAATGGAAGCCCTCAGCATGGCTCATTACAGCAGCCCTGC
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-323-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CGTTGTTCTCCAGCGTTCCTGGTGAG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCTCTN1_266_ORF_1
1.0039
0.126899879
0.212304235
216
ORF sequence:
ATGGAAGCCCTCAGCATGGCTCATTACAGCAGCCCTGCCATTCTGAGGGTACCTAATTCAATGACACAGGTCTCCATCAAGATCCAGTCTGTAATGTATCGGTCTCTGAATCACACACTGACGCAGTTAGAAGGCCATGGTGTCCTGCGGCCATCTCTGGTCAGCACTGGGCAAGACAGACTCTGCAGCAACGTTGTTCTCCAGCGTTCCTGGTGA
Peptide sequence:
MEALSMAHYSSPAILRVPNSMTQVSIKIQSVMYRSLNHTLTQLEGHGVLRPSLVSTGQDRLCSNVVLQRSW
IRESfinder result
IRESfinder score
0.397850341
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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