top of page
mmu_circTtc3_576
Basic information of circular RNA
PanCircBase ID:
mmu_circTtc3_576
mm39_Chr. Position ID:
chr16|94193970|94216868|+
Gene name:
Ttc3
Transcript:
ENSMUST00000117648.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
10,11,12,13,14,15,16
Exon/intron offsets:
0,10202,15442,16572,17721,18948,22837
Genomic length:
22898
Exon/intron sizes in nt:
63,55,163,46,124,64,61
Flanking exon/introns:
chr16:94192968-94193970|chr16:94216868-94217140
Splice length:
576
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
ACCTGAAAACCATCTTCTTTATGGTAACCGAGCTCTCTGTTTTCTTCGTATGGGGCAGTTTAGAAATGCACTTAGCGATGGAAAGAGGGCCATTGTTTTGAAGAACACCTGGCCAAAGGGTCATTATCGTTATTGTGATGCTCTTTGTATGCTGGGGGAATATGACTGGGCCCTGCAAGCAAACATAAAAGCTCAAAAACTCTGTAAAAATGACCCTGAGGGAATCAAGGATCTAATTCAGCAGCATGTAAAGTTACAAAAACAAATAGAAGACCTACAAGGTCGGACATCAAATAAGAATCCAATTAAAGCTTTTTATGAAAGCAGGGCTTACATACCTAGAAACTCATCAGCACCTGCTTTTAGGACATCACTTAACTTTGTGGAAACAGAAAGAGGTTTCAGAAAAACTAAGTACAAAATGGCAAATGGTGGCGATCAGAATCAAAAGGTGGCAGATGAGGCTTTGAAGGGGGACGATTGTGACTGTCATCCTGAATTTCTGCCACCTCCAAGTCAGCCTCCAAGACACAAAGGAAAACAAAAATCACGAAACAATGAATCAGAAAAGCCCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCTCCAAGTCAGCCTCCAAG
60.04
GGCCCTCTTTCCATCGCTAA
59.82
159
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCAAGTCAGCCTCCAAGACA
59.6
GGCCCTCTTTCCATCGCTAA
59.82
156
PCR template sequence:
ACGATTGTGACTGTCATCCTGAATTTCTGCCACCTCCAAGTCAGCCTCCAAGACACAAAGGAAAACAAAAATCACGAAACAATGAATCAGAAAAGCCCAGACCTGAAAACCATCTTCTTTATGGTAACCGAGCTCTCTGTTTTCTTCGTATGGGGCAGTTTAGAAATGCACTTAGCGATGGAAAGAGGGCCATTGTTTTG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
3
Interacting miRNAs (#binding sites)
mmu-miR-328-3p(1), mmu-miR-541-5p(1), mmu-miR-362-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CAGAAAAGCCCAGACCTGAAAACCAT
siRNA sets
ATGGTTTTCAGGTCTGGGC, TTTCAGGTCTGGGCTTTTC, TTTTCAGGTCTGGGCTTTT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCTTC3_576_ORF_1
0.9068
0.008404338
0.987821437
1101
ORF sequence:
ATGGGGCAGTTTAGAAATGCACTTAGCGATGGAAAGAGGGCCATTGTTTTGAAGAACACCTGGCCAAAGGGTCATTATCGTTATTGTGATGCTCTTTGTATGCTGGGGGAATATGACTGGGCCCTGCAAGCAAACATAAAAGCTCAAAAACTCTGTAAAAATGACCCTGAGGGAATCAAGGATCTAATTCAGCAGCATGTAAAGTTACAAAAACAAATAGAAGACCTACAAGGTCGGACATCAAATAAGAATCCAATTAAAGCTTTTTATGAAAGCAGGGCTTACATACCTAGAAACTCATCAGCACCTGCTTTTAGGACATCACTTAACTTTGTGGAAACAGAAAGAGGTTTCAGAAAAACTAAGTACAAAATGGCAAATGGTGGCGATCAGAATCAAAAGGTGGCAGATGAGGCTTTGAAGGGGGACGATTGTGACTGTCATCCTGAATTTCTGCCACCTCCAAGTCAGCCTCCAAGACACAAAGGAAAACAAAAATCACGAAACAATGAATCAGAAAAGCCCAGACCTGAAAACCATCTTCTTTATGGTAACCGAGCTCTCTGTTTTCTTCGTATGGGGCAGTTTAGAAATGCACTTAGCGATGGAAAGAGGGCCATTGTTTTGAAGAACACCTGGCCAAAGGGTCATTATCGTTATTGTGATGCTCTTTGTATGCTGGGGGAATATGACTGGGCCCTGCAAGCAAACATAAAAGCTCAAAAACTCTGTAAAAATGACCCTGAGGGAATCAAGGATCTAATTCAGCAGCATGTAAAGTTACAAAAACAAATAGAAGACCTACAAGGTCGGACATCAAATAAGAATCCAATTAAAGCTTTTTATGAAAGCAGGGCTTACATACCTAGAAACTCATCAGCACCTGCTTTTAGGACATCACTTAACTTTGTGGAAACAGAAAGAGGTTTCAGAAAAACTAAGTACAAAATGGCAAATGGTGGCGATCAGAATCAAAAGGTGGCAGATGAGGCTTTGAAGGGGGACGATTGTGACTGTCATCCTGAATTTCTGCCACCTCCAAGTCAGCCTCCAAGACACAAAGGAAAACAAAAATCACGAAACAATGAATCAGAAAAGCCC
Peptide sequence:
MGQFRNALSDGKRAIVLKNTWPKGHYRYCDALCMLGEYDWALQANIKAQKLCKNDPEGIKDLIQQHVKLQKQIEDLQGRTSNKNPIKAFYESRAYIPRNSSAPAFRTSLNFVETERGFRKTKYKMANGGDQNQKVADEALKGDDCDCHPEFLPPPSQPPRHKGKQKSRNNESEKPRPENHLLYGNRALCFLRMGQFRNALSDGKRAIVLKNTWPKGHYRYCDALCMLGEYDWALQANIKAQKLCKNDPEGIKDLIQQHVKLQKQIEDLQGRTSNKNPIKAFYESRAYIPRNSSAPAFRTSLNFVETERGFRKTKYKMANGGDQNQKVADEALKGDDCDCHPEFLPPPSQPPRHKGKQKSRNNESEKP
IRESfinder result
IRESfinder score
0.628076254
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page