top of page
mmu_circTtc3_817
Basic information of circular RNA
PanCircBase ID:
mmu_circTtc3_817
mm39_Chr. Position ID:
chr16|94189123|94212982|+
Gene name:
Ttc3
Transcript:
ENSMUST00000117648.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
9
Exon/intron indexes:
7,8,9,10,11,12,13,14,15
Exon/intron offsets:
0,1937,3750,4847,15049,20289,21419,22568,23795
Genomic length:
23859
Exon/intron sizes in nt:
121,86,95,63,55,163,46,124,64
Flanking exon/introns:
chr16:94188249-94189123|chr16:94212982-94216807
Splice length:
817
Other database IDs:
circAtlas: mmu-Ttc3_0018
circAtlas: hsa-SCAF8_0001
Human Ortholog IDs:
Mature spliced Sequence:
AAAATCTTGGCAATGGAAGATGCTTTAAATTGGATAAAATACACGGGTGATGTAACAATTCTACCTAAATTAGGATCAGTTGACAATTGCTGGCCCATGCTAAGTATTTTCTTTACTGAATATAAGTACCATATTACTAGAGTTGTAACTGAAAATTGCAACTTGCTAGAAGAATTTAGAAGGCATAGTTGCATGCAGTGTGTGAAGCAAGGAGAACTCATGAAAATGAGAGGAAATGAAGAGTTCTCAAAGGAAAAGTTTGAAATAGCTGTTATTTATTACACCAGAGCCATTGAATATAGACCTGAAAACCATCTTCTTTATGGTAACCGAGCTCTCTGTTTTCTTCGTATGGGGCAGTTTAGAAATGCACTTAGCGATGGAAAGAGGGCCATTGTTTTGAAGAACACCTGGCCAAAGGGTCATTATCGTTATTGTGATGCTCTTTGTATGCTGGGGGAATATGACTGGGCCCTGCAAGCAAACATAAAAGCTCAAAAACTCTGTAAAAATGACCCTGAGGGAATCAAGGATCTAATTCAGCAGCATGTAAAGTTACAAAAACAAATAGAAGACCTACAAGGTCGGACATCAAATAAGAATCCAATTAAAGCTTTTTATGAAAGCAGGGCTTACATACCTAGAAACTCATCAGCACCTGCTTTTAGGACATCACTTAACTTTGTGGAAACAGAAAGAGGTTTCAGAAAAACTAAGTACAAAATGGCAAATGGTGGCGATCAGAATCAAAAGGTGGCAGATGAGGCTTTGAAGGGGGACGATTGTGACTGTCATCCTGAATTTCTGCCACCTCCAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGTGGCAGATGAGGCTTTGA
60.32
GGGCCAGCAATTGTCAACTG
60.04
161
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGGTGGCAGATGAGGCTTTG
60.32
GGGCCAGCAATTGTCAACTG
60.04
162
PCR template sequence:
TACAAAATGGCAAATGGTGGCGATCAGAATCAAAAGGTGGCAGATGAGGCTTTGAAGGGGGACGATTGTGACTGTCATCCTGAATTTCTGCCACCTCCAAAAAATCTTGGCAATGGAAGATGCTTTAAATTGGATAAAATACACGGGTGATGTAACAATTCTACCTAAATTAGGATCAGTTGACAATTGCTGGCCCATGC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
6
Interacting miRNAs (#binding sites)
mmu-miR-328-3p(1), mmu-miR-217-5p(1), mmu-miR-541-5p(1), mmu-miR-362-5p(1), mmu-miR-377-3p(1), mmu-miR-335-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CTGCCACCTCCAAAAAATCTTGGCAA
siRNA sets
AAGATTTTTTGGAGGTGGC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCTTC3_817_ORF_1
0.8328
-0.065496644
0.897484367
855
ORF sequence:
ATGGAAGATGCTTTAAATTGGATAAAATACACGGGTGATGTAACAATTCTACCTAAATTAGGATCAGTTGACAATTGCTGGCCCATGCTAAGTATTTTCTTTACTGAATATAAGTACCATATTACTAGAGTTGTAACTGAAAATTGCAACTTGCTAGAAGAATTTAGAAGGCATAGTTGCATGCAGTGTGTGAAGCAAGGAGAACTCATGAAAATGAGAGGAAATGAAGAGTTCTCAAAGGAAAAGTTTGAAATAGCTGTTATTTATTACACCAGAGCCATTGAATATAGACCTGAAAACCATCTTCTTTATGGTAACCGAGCTCTCTGTTTTCTTCGTATGGGGCAGTTTAGAAATGCACTTAGCGATGGAAAGAGGGCCATTGTTTTGAAGAACACCTGGCCAAAGGGTCATTATCGTTATTGTGATGCTCTTTGTATGCTGGGGGAATATGACTGGGCCCTGCAAGCAAACATAAAAGCTCAAAAACTCTGTAAAAATGACCCTGAGGGAATCAAGGATCTAATTCAGCAGCATGTAAAGTTACAAAAACAAATAGAAGACCTACAAGGTCGGACATCAAATAAGAATCCAATTAAAGCTTTTTATGAAAGCAGGGCTTACATACCTAGAAACTCATCAGCACCTGCTTTTAGGACATCACTTAACTTTGTGGAAACAGAAAGAGGTTTCAGAAAAACTAAGTACAAAATGGCAAATGGTGGCGATCAGAATCAAAAGGTGGCAGATGAGGCTTTGAAGGGGGACGATTGTGACTGTCATCCTGAATTTCTGCCACCTCCAAAAAATCTTGGCAATGGAAGATGCTTTAAATTGGATAAAATACACGGGTGA
Peptide sequence:
MEDALNWIKYTGDVTILPKLGSVDNCWPMLSIFFTEYKYHITRVVTENCNLLEEFRRHSCMQCVKQGELMKMRGNEEFSKEKFEIAVIYYTRAIEYRPENHLLYGNRALCFLRMGQFRNALSDGKRAIVLKNTWPKGHYRYCDALCMLGEYDWALQANIKAQKLCKNDPEGIKDLIQQHVKLQKQIEDLQGRTSNKNPIKAFYESRAYIPRNSSAPAFRTSLNFVETERGFRKTKYKMANGGDQNQKVADEALKGDDCDCHPEFLPPPKNLGNGRCFKLDKIHG
IRESfinder result
IRESfinder score
0.683331194
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page