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mmu_circTtc17_772
Basic information of circular RNA
PanCircBase ID:
mmu_circTtc17_772
mm39_Chr. Position ID:
chr2|94189095|94195034|-
Gene name:
Ttc17
Transcript:
ENSMUST00000055081.14
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
6,5,4,3,2
Exon/intron offsets:
0,3589,3949,5515,5823
Genomic length:
5939
Exon/intron sizes in nt:
1,87,22,57,81,66,116
Flanking exon/introns:
chr2:94173142-94189095|chr2:94195034-94196866
Splice length:
772
Other database IDs:
circAtlas: mmu-Ttc17_0009
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_155498
Human Ortholog IDs:
Mature spliced Sequence:
GACAAACAACATATTCTTTGGCCTAAAAGAGCAGATTGTACAGACAGCTATCCCAGAGTTCCCCTTGGTGGAGAATTGCCAACATACTTTCTGCCTCCGGAGAACAAAGGACTCAGGATCCACGAACTGACCAGTGATGATTATTCTTCAGAAGAGGAGGCCCAACCCCCTGACTGTTCCATAACTGACTACAGAAAAAGCCACACTCTGTCCTACTTAGTCAAAGAATTAGAGGTCCGCATGGATCTGAAAGCCAAAATACCCGATGACCATGCACGCAAAATTTTACTTTCCCGTATTAAAAACTATACTGTCCCAGAAGAAGAAATTGGGTCTTTCTTGTTTCATGCTATTAACAAGCCAAATGCTCCTGTCTGGCTCATTCTGAATGAAGCAGGCCTGTACTGGAGAGCAGTAGGAAACAGCACCTTTGCTATCGCCTGCCTCCAGAGGGCTTTGAATTTAGCTCCAGTTCAATACCAGGACATTCCTCTTGTCAACCTGGCCAACCTTTTGATTCATTACGGCCTTCATCTTGATGCTACAAAGTTGCTGCTGCAAGCCGTGGCTGTCAACAGCTCTGAGCCCCTGACCTTTTTGAGCCTGGGAAATGCTTACCTTGCTCTGAAGAATGTCAGCGGGGCACTTGAAGCCTTCAGACAGGCCTTGAAGCTAAGCACCAAATGCCCAGAGTGTGAGAGCAGCCTGAAGCTGATCCGCTGCATGCAGTTCTACCCGTTCCTGTACAACGCCACCTCTTCTGTCTGTGGCG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AATGCCCAGAGTGTGAGAGC
60.04
ACCAAGGGGAACTCTGGGAT
60.18
159
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AATGCCCAGAGTGTGAGAGC
60.04
TCTCCACCAAGGGGAACTCT
59.81
164
PCR template sequence:
CTAAGCACCAAATGCCCAGAGTGTGAGAGCAGCCTGAAGCTGATCCGCTGCATGCAGTTCTACCCGTTCCTGTACAACGCCACCTCTTCTGTCTGTGGCGGACAAACAACATATTCTTTGGCCTAAAAGAGCAGATTGTACAGACAGCTATCCCAGAGTTCCCCTTGGTGGAGAATTGCCAACATACTTTCTGCCTCCGG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
7
Interacting miRNAs (#binding sites)
mmu-let-7e-5p(1), mmu-miR-223-3p(1), mmu-miR-322-5p(1), mmu-miR-217-5p(1), mmu-miR-326-3p(1), mmu-miR-98-5p(1), mmu-miR-544-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TCTGTCTGTGGCGGACAAACAACATA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCTTC17_772_ORF_1
0.9772
0.161826595
0.773186424
558
ORF sequence:
ATGGATCTGAAAGCCAAAATACCCGATGACCATGCACGCAAAATTTTACTTTCCCGTATTAAAAACTATACTGTCCCAGAAGAAGAAATTGGGTCTTTCTTGTTTCATGCTATTAACAAGCCAAATGCTCCTGTCTGGCTCATTCTGAATGAAGCAGGCCTGTACTGGAGAGCAGTAGGAAACAGCACCTTTGCTATCGCCTGCCTCCAGAGGGCTTTGAATTTAGCTCCAGTTCAATACCAGGACATTCCTCTTGTCAACCTGGCCAACCTTTTGATTCATTACGGCCTTCATCTTGATGCTACAAAGTTGCTGCTGCAAGCCGTGGCTGTCAACAGCTCTGAGCCCCTGACCTTTTTGAGCCTGGGAAATGCTTACCTTGCTCTGAAGAATGTCAGCGGGGCACTTGAAGCCTTCAGACAGGCCTTGAAGCTAAGCACCAAATGCCCAGAGTGTGAGAGCAGCCTGAAGCTGATCCGCTGCATGCAGTTCTACCCGTTCCTGTACAACGCCACCTCTTCTGTCTGTGGCGGACAAACAACATATTCTTTGGCCTAA
Peptide sequence:
MDLKAKIPDDHARKILLSRIKNYTVPEEEIGSFLFHAINKPNAPVWLILNEAGLYWRAVGNSTFAIACLQRALNLAPVQYQDIPLVNLANLLIHYGLHLDATKLLLQAVAVNSSEPLTFLSLGNAYLALKNVSGALEAFRQALKLSTKCPECESSLKLIRCMQFYPFLYNATSSVCGGQTTYSLA
IRESfinder result
IRESfinder score
0.691090553
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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