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mmu_circTtc3_295
Basic information of circular RNA
PanCircBase ID:
mmu_circTtc3_295
mm39_Chr. Position ID:
chr16|94210542|94216868|+
Gene name:
Ttc3
Transcript:
ENSMUST00000117648.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
13,14,15,16
Exon/intron offsets:
0,1149,2376,6265
Genomic length:
6326
Exon/intron sizes in nt:
46,124,64,61
Flanking exon/introns:
chr16:94209575-94210542|chr16:94216868-94217140
Splice length:
295
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTCGGACATCAAATAAGAATCCAATTAAAGCTTTTTATGAAAGCAGGGCTTACATACCTAGAAACTCATCAGCACCTGCTTTTAGGACATCACTTAACTTTGTGGAAACAGAAAGAGGTTTCAGAAAAACTAAGTACAAAATGGCAAATGGTGGCGATCAGAATCAAAAGGTGGCAGATGAGGCTTTGAAGGGGGACGATTGTGACTGTCATCCTGAATTTCTGCCACCTCCAAGTCAGCCTCCAAGACACAAAGGAAAACAAAAATCACGAAACAATGAATCAGAAAAGCCCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCTCCAAGTCAGCCTCCAAG
60.04
GCAGGTGCTGATGAGTTTCT
58.18
147
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCTCCAAGTCAGCCTCCAAG
60.04
GTGATGTCCTAAAAGCAGGTGC
59.84
161
PCR template sequence:
ACGATTGTGACTGTCATCCTGAATTTCTGCCACCTCCAAGTCAGCCTCCAAGACACAAAGGAAAACAAAAATCACGAAACAATGAATCAGAAAAGCCCAGGTCGGACATCAAATAAGAATCCAATTAAAGCTTTTTATGAAAGCAGGGCTTACATACCTAGAAACTCATCAGCACCTGCTTTTAGGACATCACTTAACTT
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-541-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CAGAAAAGCCCAGGTCGGACATCAAA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCTTC3_295_ORF_1
0.8415
0.030817113
0.211728959
312
ORF sequence:
ATGAATCAGAAAAGCCCAGGTCGGACATCAAATAAGAATCCAATTAAAGCTTTTTATGAAAGCAGGGCTTACATACCTAGAAACTCATCAGCACCTGCTTTTAGGACATCACTTAACTTTGTGGAAACAGAAAGAGGTTTCAGAAAAACTAAGTACAAAATGGCAAATGGTGGCGATCAGAATCAAAAGGTGGCAGATGAGGCTTTGAAGGGGGACGATTGTGACTGTCATCCTGAATTTCTGCCACCTCCAAGTCAGCCTCCAAGACACAAAGGAAAACAAAAATCACGAAACAATGAATCAGAAAAGCCC
Peptide sequence:
MNQKSPGRTSNKNPIKAFYESRAYIPRNSSAPAFRTSLNFVETERGFRKTKYKMANGGDQNQKVADEALKGDDCDCHPEFLPPPSQPPRHKGKQKSRNNESEKP
IRESfinder result
IRESfinder score
0.592412229
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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