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mmu_circSpaca6_725
Basic information of circular RNA
PanCircBase ID:
mmu_circSpaca6_725
mm39_Chr. Position ID:
chr17|18056346|18060121|+
Gene name:
Spaca6
Transcript:
ENSMUST00000139969.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
3,4,5,6,7,8,9
Exon/intron offsets:
0,636,1424,1580,2002,2231,3694
Genomic length:
3775
Exon/intron sizes in nt:
69,24,78,105,157,211,81
Flanking exon/introns:
chr17:18052401-18056346|chr17:18060121-18063130
Splice length:
725
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
AGCCCTTTTGGCTTGCCTTCAAAGATGCTGCTGCAAAATTGAAGAGGACCATTGAACACCTTAAAAAAGCCCCGGCCTGCATCCCTCCTTGTGGTCTCCAGGAGGTGGCTAGGCTTTTCCACTGCTCGGGCTGCTTTTCTAAACTCTGCGATCTGCCTCTCGATTGTCCAGTTCAGGACATGCTGGTGAACCGAGGGGACCAGGCTTTGTTTTCTTGTATCGTGGCTTTCGAGTTGCCAGAGTCGGAGATCACTTATTCCTGGAAATTTGTGGGAGGTCCGAACTAAGGACGTTACGTACTTCCGTGATATGCCGGGGGCTCACGGGTACCTGGCACGAATACGGCCAGTGCAACCCAAACACGGTGGGACCTTTTCCTGCGTGATCCTGCACGACCAGCGCCCCCTGGCGCGGCTCTACTTTTATCTGAACGTGACGGGCCCTCCTCCGCCTGAGGACACTGAGCTCCAGGTCACGTTCCGGGAAGTGATGAATCGGACGCCGGCGGAGCCGGAAATGATCCAGCCCTGGAGCCCCAGCCTAGGCGAACTACTTACCAACCCCCAGGCTCTGACGCTTGGCAACCTATTCCTGCTCGCGGCCACCGCTGCACTTGGGTCTGCCAGTGTTACTCTGCTAGTGTGGGTTTCTCAATGGCTGAGACTTGCCTGGCTAGGCTAGCTGGCCAACCTTTGTCACCACCTCAACAGCTCTAGCATTTAAGT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCTGAGACTTGCCTGGCTAG
60.46
GAGACCACAAGGAGGGATGC
60.11
167
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCTGAGACTTGCCTGGCTAG
60.46
TGGAGACCACAAGGAGGGAT
59.88
169
PCR template sequence:
GTGTTACTCTGCTAGTGTGGGTTTCTCAATGGCTGAGACTTGCCTGGCTAGGCTAGCTGGCCAACCTTTGTCACCACCTCAACAGCTCTAGCATTTAAGTAGCCCTTTTGGCTTGCCTTCAAAGATGCTGCTGCAAAATTGAAGAGGACCATTGAACACCTTAAAAAAGCCCCGGCCTGCATCCCTCCTTGTGGTCTCCA
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-103-3p(1), mmu-miR-709(1), mmu-miR-381-3p(1), mmu-miR-107-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CTAGCATTTAAGTAGCCCTTTTGGCT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
NA
NA
NA
NA
NA
ORF sequence:
NA
Peptide sequence:
NA
IRESfinder result
IRESfinder score
0.432061507
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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