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mmu_circTtc3_603
Basic information of circular RNA
PanCircBase ID:
mmu_circTtc3_603
mm39_Chr. Position ID:
chr16|94260620|94263489|+
Gene name:
Ttc3
Transcript:
ENSMUST00000117648.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
42,43,44
Exon/intron offsets:
0,2460,2734
Genomic length:
2869
Exon/intron sizes in nt:
341,127,135
Flanking exon/introns:
chr16:94258891-94260620|chr16:94263489-94267761
Splice length:
603
Other database IDs:
CIRCpedia: MMU_CIRCpedia_34848, circAtlas: mmu-Ttc3_0086
Human Ortholog IDs:
Mature spliced Sequence:
ATCCATCCTCAGTTCCTCTCTGAGTCTTCAGGCCATGAGGATCCCGGACTGGTGGCTTGTGTAGACAGCATGACTGGAGCAGTCCTCAATGATCCTTACATGGACTCTGCTAGTGGCTGCCCAGAGGAGGTTCCAGAACTGTCGCTGGGATCACCCACCCATCAGCCAGAAGTTACTCAACAGCTTGAGCTCAAGGGGGCTAGCCAGGTGTCTCCATCAGAACAGAGCCCTGAGGCCGACGAGAAACTATCTGGACAGGCTACTCGGTCAAGCCAGTCTCCAAAAAAGCCTTCCAACAGTATTATTGAACACCTGTCAGTGATATTCCCATGTTATACCAGCACTGAGCTTGCTGGGTTTATTAAGAAAGTTAGAAACAAAACCAAGAACTCATTCTCGGGATTAACTATTGAGGAGATTGTGGAGAAAGTGACAGAACACATTGTCGATGAGCAAAAGAAGAAAAAGCCAAATCCAGGAAAAGACAAGAAGACATCTGAGGCTCATTCGGCTGCCTCTGTGGCCAAGTCCTCCCAGAGTCCACCCTTGGCAGCTGCTGGACCATCAGCTAGAACCAAAGGCCAGAAAAAAGATGATGTCCCT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCAAGTCCTCCCAGAGTCCA
60.55
ACTGCTCCAGTCATGCTGTC
60.04
163
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AAGTCCTCCCAGAGTCCACC
60.55
ACTGCTCCAGTCATGCTGTC
60.04
161
PCR template sequence:
TCATTCGGCTGCCTCTGTGGCCAAGTCCTCCCAGAGTCCACCCTTGGCAGCTGCTGGACCATCAGCTAGAACCAAAGGCCAGAAAAAAGATGATGTCCCTATCCATCCTCAGTTCCTCTCTGAGTCTTCAGGCCATGAGGATCCCGGACTGGTGGCTTGTGTAGACAGCATGACTGGAGCAGTCCTCAATGATCCTTACA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
8
Interacting miRNAs (#binding sites)
mmu-miR-9-5p(1), mmu-miR-429-3p(1), mmu-miR-135a-5p(1), mmu-miR-196a-5p(1), mmu-miR-709(1), mmu-miR-22-3p(1), mmu-miR-1198-5p(1), mmu-miR-369-3p(1)
siRNAs for circular RNA silencing
Junction sequence
AGATGATGTCCCTATCCATCCTCAGT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCTTC3_603_ORF_1
1.1404
0.234325295
0.997557931
1137
ORF sequence:
ATGACTGGAGCAGTCCTCAATGATCCTTACATGGACTCTGCTAGTGGCTGCCCAGAGGAGGTTCCAGAACTGTCGCTGGGATCACCCACCCATCAGCCAGAAGTTACTCAACAGCTTGAGCTCAAGGGGGCTAGCCAGGTGTCTCCATCAGAACAGAGCCCTGAGGCCGACGAGAAACTATCTGGACAGGCTACTCGGTCAAGCCAGTCTCCAAAAAAGCCTTCCAACAGTATTATTGAACACCTGTCAGTGATATTCCCATGTTATACCAGCACTGAGCTTGCTGGGTTTATTAAGAAAGTTAGAAACAAAACCAAGAACTCATTCTCGGGATTAACTATTGAGGAGATTGTGGAGAAAGTGACAGAACACATTGTCGATGAGCAAAAGAAGAAAAAGCCAAATCCAGGAAAAGACAAGAAGACATCTGAGGCTCATTCGGCTGCCTCTGTGGCCAAGTCCTCCCAGAGTCCACCCTTGGCAGCTGCTGGACCATCAGCTAGAACCAAAGGCCAGAAAAAAGATGATGTCCCTATCCATCCTCAGTTCCTCTCTGAGTCTTCAGGCCATGAGGATCCCGGACTGGTGGCTTGTGTAGACAGCATGACTGGAGCAGTCCTCAATGATCCTTACATGGACTCTGCTAGTGGCTGCCCAGAGGAGGTTCCAGAACTGTCGCTGGGATCACCCACCCATCAGCCAGAAGTTACTCAACAGCTTGAGCTCAAGGGGGCTAGCCAGGTGTCTCCATCAGAACAGAGCCCTGAGGCCGACGAGAAACTATCTGGACAGGCTACTCGGTCAAGCCAGTCTCCAAAAAAGCCTTCCAACAGTATTATTGAACACCTGTCAGTGATATTCCCATGTTATACCAGCACTGAGCTTGCTGGGTTTATTAAGAAAGTTAGAAACAAAACCAAGAACTCATTCTCGGGATTAACTATTGAGGAGATTGTGGAGAAAGTGACAGAACACATTGTCGATGAGCAAAAGAAGAAAAAGCCAAATCCAGGAAAAGACAAGAAGACATCTGAGGCTCATTCGGCTGCCTCTGTGGCCAAGTCCTCCCAGAGTCCACCCTTGGCAGCTGCTGGACCATCAGCTAGAACCAAAGGCCAGAAAAAAGATGATGTCCCT
Peptide sequence:
MTGAVLNDPYMDSASGCPEEVPELSLGSPTHQPEVTQQLELKGASQVSPSEQSPEADEKLSGQATRSSQSPKKPSNSIIEHLSVIFPCYTSTELAGFIKKVRNKTKNSFSGLTIEEIVEKVTEHIVDEQKKKKPNPGKDKKTSEAHSAASVAKSSQSPPLAAAGPSARTKGQKKDDVPIHPQFLSESSGHEDPGLVACVDSMTGAVLNDPYMDSASGCPEEVPELSLGSPTHQPEVTQQLELKGASQVSPSEQSPEADEKLSGQATRSSQSPKKPSNSIIEHLSVIFPCYTSTELAGFIKKVRNKTKNSFSGLTIEEIVEKVTEHIVDEQKKKKPNPGKDKKTSEAHSAASVAKSSQSPPLAAAGPSARTKGQKKDDVP
IRESfinder result
IRESfinder score
0.549666018
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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