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mmu_circTtc17_414
Basic information of circular RNA
PanCircBase ID:
mmu_circTtc17_414
mm39_Chr. Position ID:
chr2|94160862|94163397|-
Gene name:
Ttc17
Transcript:
ENSMUST00000055081.14
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
9,8
Exon/intron offsets:
0,2275
Genomic length:
2535
Exon/intron sizes in nt:
1,54,260
Flanking exon/introns:
chr2:94157163-94160862|chr2:94163397-94172971
Splice length:
414
Other database IDs:
circAtlas: mmu-Ttc17_0016
Human Ortholog IDs:
Mature spliced Sequence:
GCACAGTGGTTGAAGAGAGCAATGGTTCTGACGAGGTGGAGAAGTCAGATGAAACAAAGATGTCCGAAGAGATACTGGCTTTGGTGGATGAGTTTCAGCAGGCCTGGCCTCTGGAAGGCTTTGGGGGAACATTAGAAATGAAGGGGCGACGTCTGGACCTACAGGGAATACGTGTACTGAAGAAAGGACCCCAGGATGGAGTAGCCAAGAGCTCTTGCTATGGAGACTGCAGAAGTGAAGATGATGAAGCAACAGAGTGGATCACATTCCAGGTCAAACGTGTAAAGAAACCCAAAGGGGATCATAAAAAACCTCCTGGGAAAAAAGTAGAGGCAAGTCAGGCAGAGAATGGACAACGTTACCAAGCAAACCTGGAGATCACTGGCCCAAAGGTGGCATCCCCTGGGCCCCAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GAGGCAAGTCAGGCAGAGAA
59.68
ACTCATCCACCAAAGCCAGT
59.23
178
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AAACCTGGAGATCACTGGCC
59.67
ACTCATCCACCAAAGCCAGT
59.23
140
PCR template sequence:
CCTGGGAAAAAAGTAGAGGCAAGTCAGGCAGAGAATGGACAACGTTACCAAGCAAACCTGGAGATCACTGGCCCAAAGGTGGCATCCCCTGGGCCCCAAGGCACAGTGGTTGAAGAGAGCAATGGTTCTGACGAGGTGGAGAAGTCAGATGAAACAAAGATGTCCGAAGAGATACTGGCTTTGGTGGATGAGTTTCAGCA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
4
Interacting miRNAs (#binding sites)
mmu-miR-1a-3p(1), mmu-miR-206-3p(1), mmu-miR-370-3p(1), mmu-miR-452-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CCTGGGCCCCAAGGCACAGTGGTTGA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCTTC17_414_ORF_1
1.0136
0.28297843
0.965161592
768
ORF sequence:
ATGTCCGAAGAGATACTGGCTTTGGTGGATGAGTTTCAGCAGGCCTGGCCTCTGGAAGGCTTTGGGGGAACATTAGAAATGAAGGGGCGACGTCTGGACCTACAGGGAATACGTGTACTGAAGAAAGGACCCCAGGATGGAGTAGCCAAGAGCTCTTGCTATGGAGACTGCAGAAGTGAAGATGATGAAGCAACAGAGTGGATCACATTCCAGGTCAAACGTGTAAAGAAACCCAAAGGGGATCATAAAAAACCTCCTGGGAAAAAAGTAGAGGCAAGTCAGGCAGAGAATGGACAACGTTACCAAGCAAACCTGGAGATCACTGGCCCAAAGGTGGCATCCCCTGGGCCCCAAGGCACAGTGGTTGAAGAGAGCAATGGTTCTGACGAGGTGGAGAAGTCAGATGAAACAAAGATGTCCGAAGAGATACTGGCTTTGGTGGATGAGTTTCAGCAGGCCTGGCCTCTGGAAGGCTTTGGGGGAACATTAGAAATGAAGGGGCGACGTCTGGACCTACAGGGAATACGTGTACTGAAGAAAGGACCCCAGGATGGAGTAGCCAAGAGCTCTTGCTATGGAGACTGCAGAAGTGAAGATGATGAAGCAACAGAGTGGATCACATTCCAGGTCAAACGTGTAAAGAAACCCAAAGGGGATCATAAAAAACCTCCTGGGAAAAAAGTAGAGGCAAGTCAGGCAGAGAATGGACAACGTTACCAAGCAAACCTGGAGATCACTGGCCCAAAGGTGGCATCCCCTGGGCCCCAA
Peptide sequence:
MSEEILALVDEFQQAWPLEGFGGTLEMKGRRLDLQGIRVLKKGPQDGVAKSSCYGDCRSEDDEATEWITFQVKRVKKPKGDHKKPPGKKVEASQAENGQRYQANLEITGPKVASPGPQGTVVEESNGSDEVEKSDETKMSEEILALVDEFQQAWPLEGFGGTLEMKGRRLDLQGIRVLKKGPQDGVAKSSCYGDCRSEDDEATEWITFQVKRVKKPKGDHKKPPGKKVEASQAENGQRYQANLEITGPKVASPGPQ
IRESfinder result
IRESfinder score
0.302923706
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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