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mmu_circSyt7_320
Basic information of circular RNA
PanCircBase ID:
mmu_circSyt7_320
mm39_Chr. Position ID:
chr19|10390703|10413049|+
Gene name:
Syt7
Transcript:
ENSMUST00000073899.6
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
2,3,4
Exon/intron offsets:
0,4623,22210
Genomic length:
22346
Exon/intron sizes in nt:
1,04,80,136
Flanking exon/introns:
chr19:10366877-10390703|chr19:10413049-10416515
Splice length:
320
Other database IDs:
circAtlas: hsa-SCAF8_0001
Human Ortholog IDs:
Mature spliced Sequence:
GGGCACCTACCCGCGATGTCCTGCTGGTCTCTGCAATCATCACCGTCAGCCTTAGCGTCACTATCGTCCTCTGCGGCCTGTGCCACTGGTGTCAGCGCAAACTGGGCAAACGCTACAAGAATTCCTTGGAGACGGTGGGCACGCCAGACTCGGGGCGTGGGCGCGGTGAGAAGAAAGCCATCAAGTTGCCTGCAGGAGGGAAGGCTGTGAATACAGCCCCAGTGCCCGGCCAGACGCCACACGATGAGTCTGACCGCAGAACGGAGACCCGTTCCTCTGTCTCGGACCTCGTCAACTCCCTTACCAGCGAGATGCTCATG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCACACGATGAGTCTGACCG
60.46
GCTAAGGCTGACGGTGATGA
59.82
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCACACGATGAGTCTGACCG
60.46
TAGTGACGCTAAGGCTGACG
59.55
147
PCR template sequence:
AGTGCCCGGCCAGACGCCACACGATGAGTCTGACCGCAGAACGGAGACCCGTTCCTCTGTCTCGGACCTCGTCAACTCCCTTACCAGCGAGATGCTCATGGGGCACCTACCCGCGATGTCCTGCTGGTCTCTGCAATCATCACCGTCAGCCTTAGCGTCACTATCGTCCTCTGCGGCCTGTGCCACTGGTGTCAGCGCAA
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-135a-5p(1), mmu-miR-298-5p(1), mmu-miR-673-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CGAGATGCTCATGGGGCACCTACCCG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCSYT7_320_ORF_1
1.039
-0.033256857
0.132217624
219
ORF sequence:
ATGCTCATGGGGCACCTACCCGCGATGTCCTGCTGGTCTCTGCAATCATCACCGTCAGCCTTAGCGTCACTATCGTCCTCTGCGGCCTGTGCCACTGGTGTCAGCGCAAACTGGGCAAACGCTACAAGAATTCCTTGGAGACGGTGGGCACGCCAGACTCGGGGCGTGGGCGCGGTGAGAAGAAAGCCATCAAGTTGCCTGCAGGAGGGAAGGCTGTGA
Peptide sequence:
MLMGHLPAMSCWSLQSSPSALASLSSSAACATGVSANWANATRIPWRRWARQTRGVGAVRRKPSSCLQEGRL
IRESfinder result
IRESfinder score
0.163477532
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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