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mmu_circTctn1_252
Basic information of circular RNA
PanCircBase ID:
mmu_circTctn1_252
mm39_Chr. Position ID:
chr5|122396897|122399590|-
Gene name:
Tctn1
Transcript:
ENSMUST00000111738.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
3,2
Exon/intron offsets:
0,2572
Genomic length:
2693
Exon/intron sizes in nt:
1,31,121
Flanking exon/introns:
chr5:122395684-122396897|chr5:122399590-122402200
Splice length:
252
Other database IDs:
circAtlas: mmu-Tctn1_0006
CIRCpedia: HSA_CIRCpedia_350561
Human Ortholog IDs:
Mature spliced Sequence:
TTGCTGCTCTGTGTGTCTGCGACCTGCTTCCGGCACAGTGTGATGTCAACTGCTGTTGCGACCCTGACTGCAGCCCTGCAGATTTCAGCATCTTCTCTGCCTGCTCAGTCCCAGTTGTCACGGGTGACAGGCAGTTTTGTAGTCAGAAGGCAGCCTTCTACTCAATGAATTTGACAGCAGACCCACCTCACCGTGACTTTAAACTCATTGATCAGATCAATCCTTCCGTCTTCTGCATCCATATTTCAAACT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TTTGACAGCAGACCCACCTC
59.89
TGCTGAAATCTGCAGGGCTG
60.96
173
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TTTGACAGCAGACCCACCTC
59.89
TGCTGAAATCTGCAGGGCT
59.62
173
PCR template sequence:
GCCTTCTACTCAATGAATTTGACAGCAGACCCACCTCACCGTGACTTTAAACTCATTGATCAGATCAATCCTTCCGTCTTCTGCATCCATATTTCAAACTTTGCTGCTCTGTGTGTCTGCGACCTGCTTCCGGCACAGTGTGATGTCAACTGCTGTTGCGACCCTGACTGCAGCCCTGCAGATTTCAGCATCTTCTCTGC
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-214-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CATATTTCAAACTTTGCTGCTCTGTG
siRNA sets
ACAGAGCAGCAAAGTTTGA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCTCTN1_252_ORF_1
0.8761
0.136305892
0.349316249
339
ORF sequence:
ATGAATTTGACAGCAGACCCACCTCACCGTGACTTTAAACTCATTGATCAGATCAATCCTTCCGTCTTCTGCATCCATATTTCAAACTTTGCTGCTCTGTGTGTCTGCGACCTGCTTCCGGCACAGTGTGATGTCAACTGCTGTTGCGACCCTGACTGCAGCCCTGCAGATTTCAGCATCTTCTCTGCCTGCTCAGTCCCAGTTGTCACGGGTGACAGGCAGTTTTGTAGTCAGAAGGCAGCCTTCTACTCAATGAATTTGACAGCAGACCCACCTCACCGTGACTTTAAACTCATTGATCAGATCAATCCTTCCGTCTTCTGCATCCATATTTCAAAC
Peptide sequence:
MNLTADPPHRDFKLIDQINPSVFCIHISNFAALCVCDLLPAQCDVNCCCDPDCSPADFSIFSACSVPVVTGDRQFCSQKAAFYSMNLTADPPHRDFKLIDQINPSVFCIHISN
IRESfinder result
IRESfinder score
0.76864864
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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