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mmu_circTtc13_914
Basic information of circular RNA
PanCircBase ID:
mmu_circTtc13_914
mm39_Chr. Position ID:
chr8|125408805|125417098|-
Gene name:
Ttc13
Transcript:
ENSMUST00000117624.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
12,11,10,9,8,7,6
Exon/intron offsets:
0,1116,1690,2411,6464,6790,8210
Genomic length:
8293
Exon/intron sizes in nt:
93,133,131,157,175,142,83
Flanking exon/introns:
chr8:125406810-125408805|chr8:125417098-125426394
Splice length:
914
Other database IDs:
CIRCpedia: MMU_CIRCpedia_6362, circAtlas: mmu-Ttc13_0006
circAtlas: hsa-SCAF8_0001
Human Ortholog IDs:
Mature spliced Sequence:
GAAGCCATCGAGGCCTTCAAAGAAGCTCTGAAACAGAAAGTTGACTTTATCGATGCATATAAAAGTCTGGGACAGGCCTACAGAGAACTGGGCAACTTTGACGCAGCCACCGAGAGCTTCCAGAAGGCCCTGCTGCTCAACCAGAACCACGTGCAGACCCTGCAGCTGCGGGGAATGATGCTCTACCACCACGGAAGCCTGCAGGAGGCCCTGAAGAACTTCAAGCGCTGCCTGCAACTGGAACCGTACAACGAAGTGTGCCAGTACATGAAGGGGCTGAGCCATGTGGCCATGGGGCAGTTTTACGAAGGGATTAAAGCACAAACCAAAGTTATGCTGAATGACCCTCTTCCAGGCCAGAAGGCCAGCCCAGAGTACCTGAGGGTCAAGTACCTACGAGAGTATTCTCGATATCTGCACGCACACCTCGATACCCCTCTGACGGAATATAACATTGACTCGGATCTACCGGGCAGCTTCAAGGACCACTGGGCCAAGAACCTGCCTTTCCTCATAGACGGCTATGAAGAGCAGCCCGGCCTGCAGCCTCACATTAGAGATGTGTTACATCAGAATTTCGAGGGCTACAAGCCTGAAGTCCAGGAGCTGATCTGTGTAGCTGACCGCCTGGGCTCGCTGATGCAGTATGAAACACCGGGGTTCCTGCCCAACAAGAGGATACACAGAGCCATGGGCCTGGCAGCACTGGAAGTCATGCAGGCCGTACATCGTACCTGGACCAACTCAAAGGTTCGCATGAATGGAAAAACAAGGCTGCTGCAGTGGAGGGACATGTTCGACATTGCTGTGAAGTGGAGAAGGATCGCTGATCCGGACCAGCCTGTCCTGTGGCTGGATCAGATGCCAGCTCCAAGTCTCAGCAGAGGGTTCAATAACCACATCAACTTAATCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CTGTCCTGTGGCTGGATCAG
60.11
TTCTCTGTAGGCCTGTCCCA
59.88
160
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CTGTCCTGTGGCTGGATCAG
60.11
TGTAGGCCTGTCCCAGACTT
60.18
155
PCR template sequence:
GGAGAAGGATCGCTGATCCGGACCAGCCTGTCCTGTGGCTGGATCAGATGCCAGCTCCAAGTCTCAGCAGAGGGTTCAATAACCACATCAACTTAATCAGGAAGCCATCGAGGCCTTCAAAGAAGCTCTGAAACAGAAAGTTGACTTTATCGATGCATATAAAAGTCTGGGACAGGCCTACAGAGAACTGGGCAACTTTG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
10
Interacting miRNAs (#binding sites)
mmu-miR-210-3p(1), mmu-miR-9-5p(1), mmu-miR-217-5p(1), mmu-miR-326-3p(1), mmu-miR-24-3p(1), mmu-miR-149-5p(1), mmu-miR-434-3p(1), mmu-miR-411-3p(1), mmu-miR-325-3p(1), mmu-miR-680(1)
siRNAs for circular RNA silencing
Junction sequence
TCAACTTAATCAGGAAGCCATCGAGG
siRNA sets
GATGGCTTCCTGATTAAGT, ATGGCTTCCTGATTAAGTT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCTTC13_914_ORF_1
1.2934
0.362709196
0.98472572
771
ORF sequence:
ATGATGCTCTACCACCACGGAAGCCTGCAGGAGGCCCTGAAGAACTTCAAGCGCTGCCTGCAACTGGAACCGTACAACGAAGTGTGCCAGTACATGAAGGGGCTGAGCCATGTGGCCATGGGGCAGTTTTACGAAGGGATTAAAGCACAAACCAAAGTTATGCTGAATGACCCTCTTCCAGGCCAGAAGGCCAGCCCAGAGTACCTGAGGGTCAAGTACCTACGAGAGTATTCTCGATATCTGCACGCACACCTCGATACCCCTCTGACGGAATATAACATTGACTCGGATCTACCGGGCAGCTTCAAGGACCACTGGGCCAAGAACCTGCCTTTCCTCATAGACGGCTATGAAGAGCAGCCCGGCCTGCAGCCTCACATTAGAGATGTGTTACATCAGAATTTCGAGGGCTACAAGCCTGAAGTCCAGGAGCTGATCTGTGTAGCTGACCGCCTGGGCTCGCTGATGCAGTATGAAACACCGGGGTTCCTGCCCAACAAGAGGATACACAGAGCCATGGGCCTGGCAGCACTGGAAGTCATGCAGGCCGTACATCGTACCTGGACCAACTCAAAGGTTCGCATGAATGGAAAAACAAGGCTGCTGCAGTGGAGGGACATGTTCGACATTGCTGTGAAGTGGAGAAGGATCGCTGATCCGGACCAGCCTGTCCTGTGGCTGGATCAGATGCCAGCTCCAAGTCTCAGCAGAGGGTTCAATAACCACATCAACTTAATCAGGAAGCCATCGAGGCCTTCAAAGAAGCTCTGA
Peptide sequence:
MMLYHHGSLQEALKNFKRCLQLEPYNEVCQYMKGLSHVAMGQFYEGIKAQTKVMLNDPLPGQKASPEYLRVKYLREYSRYLHAHLDTPLTEYNIDSDLPGSFKDHWAKNLPFLIDGYEEQPGLQPHIRDVLHQNFEGYKPEVQELICVADRLGSLMQYETPGFLPNKRIHRAMGLAALEVMQAVHRTWTNSKVRMNGKTRLLQWRDMFDIAVKWRRIADPDQPVLWLDQMPAPSLSRGFNNHINLIRKPSRPSKKL
IRESfinder result
IRESfinder score
0.364536582
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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