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mmu_circTtc3_1017
Basic information of circular RNA
PanCircBase ID:
mmu_circTtc3_1017
mm39_Chr. Position ID:
chr16|94188195|94217225|+
Gene name:
Ttc3
Transcript:
ENSMUST00000117648.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
12
Exon/intron indexes:
6,7,8,9,10,11,12,13,14,15,16,17
Exon/intron offsets:
0,928,2865,4678,5775,15977,21217,22347,23496,24723,28612,28945
Genomic length:
29030
Exon/intron sizes in nt:
54,121,86,95,63,55,163,46,124,64,61,85
Flanking exon/introns:
chr16:94186282-94188195|chr16:94217225-94219465
Splice length:
1017
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
AATGATTCATTCCTTATTGAAGGCTTATTGAAAATTGGTTATAAAATAGAAAATAAAATCTTGGCAATGGAAGATGCTTTAAATTGGATAAAATACACGGGTGATGTAACAATTCTACCTAAATTAGGATCAGTTGACAATTGCTGGCCCATGCTAAGTATTTTCTTTACTGAATATAAGTACCATATTACTAGAGTTGTAACTGAAAATTGCAACTTGCTAGAAGAATTTAGAAGGCATAGTTGCATGCAGTGTGTGAAGCAAGGAGAACTCATGAAAATGAGAGGAAATGAAGAGTTCTCAAAGGAAAAGTTTGAAATAGCTGTTATTTATTACACCAGAGCCATTGAATATAGACCTGAAAACCATCTTCTTTATGGTAACCGAGCTCTCTGTTTTCTTCGTATGGGGCAGTTTAGAAATGCACTTAGCGATGGAAAGAGGGCCATTGTTTTGAAGAACACCTGGCCAAAGGGTCATTATCGTTATTGTGATGCTCTTTGTATGCTGGGGGAATATGACTGGGCCCTGCAAGCAAACATAAAAGCTCAAAAACTCTGTAAAAATGACCCTGAGGGAATCAAGGATCTAATTCAGCAGCATGTAAAGTTACAAAAACAAATAGAAGACCTACAAGGTCGGACATCAAATAAGAATCCAATTAAAGCTTTTTATGAAAGCAGGGCTTACATACCTAGAAACTCATCAGCACCTGCTTTTAGGACATCACTTAACTTTGTGGAAACAGAAAGAGGTTTCAGAAAAACTAAGTACAAAATGGCAAATGGTGGCGATCAGAATCAAAAGGTGGCAGATGAGGCTTTGAAGGGGGACGATTGTGACTGTCATCCTGAATTTCTGCCACCTCCAAGTCAGCCTCCAAGACACAAAGGAAAACAAAAATCACGAAACAATGAATCAGAAAAGCCCAGTTCTAATTCAGAAGTGAGTTTACAAGTAGATTTGAAAAGCATTTTGGAGAAACAGTTTTCAAAATCTTCCAGAGCTGCACACCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGCCCAGTTCTAATTCAGAAGT
57.08
AGCATCTTCCATTGCCAAGA
57.48
170
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGCCCAGTTCTAATTCAGAAGT
57.08
AAGCATCTTCCATTGCCAAGA
58.19
171
PCR template sequence:
ATCAGAAAAGCCCAGTTCTAATTCAGAAGTGAGTTTACAAGTAGATTTGAAAAGCATTTTGGAGAAACAGTTTTCAAAATCTTCCAGAGCTGCACACCAGAATGATTCATTCCTTATTGAAGGCTTATTGAAAATTGGTTATAAAATAGAAAATAAAATCTTGGCAATGGAAGATGCTTTAAATTGGATAAAATACACGG
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
AGCTGCACACCAGAATGATTCATTCC
siRNA sets
AATGAATCATTCTGGTGTG, ATGAATCATTCTGGTGTGC, AATCATTCTGGTGTGCAGC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCTTC3_1017_ORF_1
0.809
-0.042546528
0.999964345
1968
ORF sequence:
ATGGAAGATGCTTTAAATTGGATAAAATACACGGGTGATGTAACAATTCTACCTAAATTAGGATCAGTTGACAATTGCTGGCCCATGCTAAGTATTTTCTTTACTGAATATAAGTACCATATTACTAGAGTTGTAACTGAAAATTGCAACTTGCTAGAAGAATTTAGAAGGCATAGTTGCATGCAGTGTGTGAAGCAAGGAGAACTCATGAAAATGAGAGGAAATGAAGAGTTCTCAAAGGAAAAGTTTGAAATAGCTGTTATTTATTACACCAGAGCCATTGAATATAGACCTGAAAACCATCTTCTTTATGGTAACCGAGCTCTCTGTTTTCTTCGTATGGGGCAGTTTAGAAATGCACTTAGCGATGGAAAGAGGGCCATTGTTTTGAAGAACACCTGGCCAAAGGGTCATTATCGTTATTGTGATGCTCTTTGTATGCTGGGGGAATATGACTGGGCCCTGCAAGCAAACATAAAAGCTCAAAAACTCTGTAAAAATGACCCTGAGGGAATCAAGGATCTAATTCAGCAGCATGTAAAGTTACAAAAACAAATAGAAGACCTACAAGGTCGGACATCAAATAAGAATCCAATTAAAGCTTTTTATGAAAGCAGGGCTTACATACCTAGAAACTCATCAGCACCTGCTTTTAGGACATCACTTAACTTTGTGGAAACAGAAAGAGGTTTCAGAAAAACTAAGTACAAAATGGCAAATGGTGGCGATCAGAATCAAAAGGTGGCAGATGAGGCTTTGAAGGGGGACGATTGTGACTGTCATCCTGAATTTCTGCCACCTCCAAGTCAGCCTCCAAGACACAAAGGAAAACAAAAATCACGAAACAATGAATCAGAAAAGCCCAGTTCTAATTCAGAAGTGAGTTTACAAGTAGATTTGAAAAGCATTTTGGAGAAACAGTTTTCAAAATCTTCCAGAGCTGCACACCAGAATGATTCATTCCTTATTGAAGGCTTATTGAAAATTGGTTATAAAATAGAAAATAAAATCTTGGCAATGGAAGATGCTTTAAATTGGATAAAATACACGGGTGATGTAACAATTCTACCTAAATTAGGATCAGTTGACAATTGCTGGCCCATGCTAAGTATTTTCTTTACTGAATATAAGTACCATATTACTAGAGTTGTAACTGAAAATTGCAACTTGCTAGAAGAATTTAGAAGGCATAGTTGCATGCAGTGTGTGAAGCAAGGAGAACTCATGAAAATGAGAGGAAATGAAGAGTTCTCAAAGGAAAAGTTTGAAATAGCTGTTATTTATTACACCAGAGCCATTGAATATAGACCTGAAAACCATCTTCTTTATGGTAACCGAGCTCTCTGTTTTCTTCGTATGGGGCAGTTTAGAAATGCACTTAGCGATGGAAAGAGGGCCATTGTTTTGAAGAACACCTGGCCAAAGGGTCATTATCGTTATTGTGATGCTCTTTGTATGCTGGGGGAATATGACTGGGCCCTGCAAGCAAACATAAAAGCTCAAAAACTCTGTAAAAATGACCCTGAGGGAATCAAGGATCTAATTCAGCAGCATGTAAAGTTACAAAAACAAATAGAAGACCTACAAGGTCGGACATCAAATAAGAATCCAATTAAAGCTTTTTATGAAAGCAGGGCTTACATACCTAGAAACTCATCAGCACCTGCTTTTAGGACATCACTTAACTTTGTGGAAACAGAAAGAGGTTTCAGAAAAACTAAGTACAAAATGGCAAATGGTGGCGATCAGAATCAAAAGGTGGCAGATGAGGCTTTGAAGGGGGACGATTGTGACTGTCATCCTGAATTTCTGCCACCTCCAAGTCAGCCTCCAAGACACAAAGGAAAACAAAAATCACGAAACAATGAATCAGAAAAGCCCAGTTCTAATTCAGAAGTGAGTTTACAAGTAGATTTGAAAAGCATTTTGGAGAAACAGTTTTCAAAATCTTCCAGAGCTGCACACCAG
Peptide sequence:
MEDALNWIKYTGDVTILPKLGSVDNCWPMLSIFFTEYKYHITRVVTENCNLLEEFRRHSCMQCVKQGELMKMRGNEEFSKEKFEIAVIYYTRAIEYRPENHLLYGNRALCFLRMGQFRNALSDGKRAIVLKNTWPKGHYRYCDALCMLGEYDWALQANIKAQKLCKNDPEGIKDLIQQHVKLQKQIEDLQGRTSNKNPIKAFYESRAYIPRNSSAPAFRTSLNFVETERGFRKTKYKMANGGDQNQKVADEALKGDDCDCHPEFLPPPSQPPRHKGKQKSRNNESEKPSSNSEVSLQVDLKSILEKQFSKSSRAAHQNDSFLIEGLLKIGYKIENKILAMEDALNWIKYTGDVTILPKLGSVDNCWPMLSIFFTEYKYHITRVVTENCNLLEEFRRHSCMQCVKQGELMKMRGNEEFSKEKFEIAVIYYTRAIEYRPENHLLYGNRALCFLRMGQFRNALSDGKRAIVLKNTWPKGHYRYCDALCMLGEYDWALQANIKAQKLCKNDPEGIKDLIQQHVKLQKQIEDLQGRTSNKNPIKAFYESRAYIPRNSSAPAFRTSLNFVETERGFRKTKYKMANGGDQNQKVADEALKGDDCDCHPEFLPPPSQPPRHKGKQKSRNNESEKPSSNSEVSLQVDLKSILEKQFSKSSRAAHQ
IRESfinder result
IRESfinder score
0.725135078
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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