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mmu_circTtc3_264
Basic information of circular RNA
PanCircBase ID:
mmu_circTtc3_264
mm39_Chr. Position ID:
chr16|94204172|94210588|+
Gene name:
Ttc3
Transcript:
ENSMUST00000117648.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
11,12,13
Exon/intron offsets:
0,5240,6370
Genomic length:
6416
Exon/intron sizes in nt:
55,163,46
Flanking exon/introns:
chr16:94194033-94204172|chr16:94210588-94211691
Splice length:
264
Other database IDs:
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_112901
Human Ortholog IDs:
Mature spliced Sequence:
AAATGCACTTAGCGATGGAAAGAGGGCCATTGTTTTGAAGAACACCTGGCCAAAGGGTCATTATCGTTATTGTGATGCTCTTTGTATGCTGGGGGAATATGACTGGGCCCTGCAAGCAAACATAAAAGCTCAAAAACTCTGTAAAAATGACCCTGAGGGAATCAAGGATCTAATTCAGCAGCATGTAAAGTTACAAAAACAAATAGAAGACCTACAAGGTCGGACATCAAATAAGAATCCAATTAAAGCTTTTTATGAAAGCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCTACAAGGTCGGACATCAA
56.95
CCCCCAGCATACAAAGAGCA
60.03
149
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCTACAAGGTCGGACATCAA
56.95
TCCCCCAGCATACAAAGAGC
59.74
150
PCR template sequence:
AGGATCTAATTCAGCAGCATGTAAAGTTACAAAAACAAATAGAAGACCTACAAGGTCGGACATCAAATAAGAATCCAATTAAAGCTTTTTATGAAAGCAGAAATGCACTTAGCGATGGAAAGAGGGCCATTGTTTTGAAGAACACCTGGCCAAAGGGTCATTATCGTTATTGTGATGCTCTTTGTATGCTGGGGGAATAT
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-328-3p(1), mmu-miR-362-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TTTATGAAAGCAGAAATGCACTTAGC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCTTC3_264_ORF_1
0.985
0.029279313
0.469638567
441
ORF sequence:
ATGCTGGGGGAATATGACTGGGCCCTGCAAGCAAACATAAAAGCTCAAAAACTCTGTAAAAATGACCCTGAGGGAATCAAGGATCTAATTCAGCAGCATGTAAAGTTACAAAAACAAATAGAAGACCTACAAGGTCGGACATCAAATAAGAATCCAATTAAAGCTTTTTATGAAAGCAGAAATGCACTTAGCGATGGAAAGAGGGCCATTGTTTTGAAGAACACCTGGCCAAAGGGTCATTATCGTTATTGTGATGCTCTTTGTATGCTGGGGGAATATGACTGGGCCCTGCAAGCAAACATAAAAGCTCAAAAACTCTGTAAAAATGACCCTGAGGGAATCAAGGATCTAATTCAGCAGCATGTAAAGTTACAAAAACAAATAGAAGACCTACAAGGTCGGACATCAAATAAGAATCCAATTAAAGCTTTTTATGAAAGC
Peptide sequence:
MLGEYDWALQANIKAQKLCKNDPEGIKDLIQQHVKLQKQIEDLQGRTSNKNPIKAFYESRNALSDGKRAIVLKNTWPKGHYRYCDALCMLGEYDWALQANIKAQKLCKNDPEGIKDLIQQHVKLQKQIEDLQGRTSNKNPIKAFYES
IRESfinder result
IRESfinder score
0.49569325
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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