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mmu_circStard5_395
Basic information of circular RNA
PanCircBase ID:
mmu_circStard5_395
mm39_Chr. Position ID:
chr7|83281943|83286905|+
Gene name:
Stard5
Transcript:
ENSMUST00000075418.15
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
2,3,4,5
Exon/intron offsets:
0,394,4015,4868
Genomic length:
4962
Exon/intron sizes in nt:
50,133,118,94
Flanking exon/introns:
chr7:83281347-83281943|chr7:83286905-83289629
Splice length:
395
Other database IDs:
circAtlas: mmu-Stard5_0002
Human Ortholog IDs:
Mature spliced Sequence:
AATGGAGTTTCAATTTCCTGGAGGCCATCTGAGGAGTTTCCAGGGAATCTGTACCGAGGAGAAGGGATTCTGTGTGGGACACCAGAAGAGGTGTGGGATTGCATAAAGCCAGTTGCTTCGGGCCTCCGGGAGAAGTGGGATGATAATGTGAGCAGCTTTGAAATTGTCCAGAGCATCACGGATATGCTGTGTGTGAGCAGAACCTCCACGCCCTCAGCTGCCATGAAGCTTATTTCTCCCAGGGACTTTGTGGACTTGGTGCTGGTGAAGAAGTATGAGGATGGCACCATCAGCTCCAATGCTACCCATGTGGAACATCCATTGTGTCCCCCAAAGCCCGGTTTTGTGAGAGGATTTAACCATCCATGCGGGTGCTTCTGTGAACCACTGCCAGG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCAAAGCCCGGTTTTGTGAG
59.97
ACCTCTTCTGGTGTCCCACA
60.4
157
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCCCGGTTTTGTGAGAGGAT
60.32
ACCTCTTCTGGTGTCCCACA
60.4
152
PCR template sequence:
CCAATGCTACCCATGTGGAACATCCATTGTGTCCCCCAAAGCCCGGTTTTGTGAGAGGATTTAACCATCCATGCGGGTGCTTCTGTGAACCACTGCCAGGAATGGAGTTTCAATTTCCTGGAGGCCATCTGAGGAGTTTCCAGGGAATCTGTACCGAGGAGAAGGGATTCTGTGTGGGACACCAGAAGAGGTGTGGGATT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
5
Interacting miRNAs (#binding sites)
mmu-miR-34c-5p(1), mmu-miR-207(1), mmu-miR-539-5p(1), mmu-miR-188-3p(1), mmu-miR-350-3p(1)
siRNAs for circular RNA silencing
Junction sequence
AACCACTGCCAGGAATGGAGTTTCAA
siRNA sets
TTGAAACTCCATTCCTGGC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCSTARD5_395_ORF_1
0.576
0.086096718
0.17600414
318
ORF sequence:
ATGCTGTGTGTGAGCAGAACCTCCACGCCCTCAGCTGCCATGAAGCTTATTTCTCCCAGGGACTTTGTGGACTTGGTGCTGGTGAAGAAGTATGAGGATGGCACCATCAGCTCCAATGCTACCCATGTGGAACATCCATTGTGTCCCCCAAAGCCCGGTTTTGTGAGAGGATTTAACCATCCATGCGGGTGCTTCTGTGAACCACTGCCAGGAATGGAGTTTCAATTTCCTGGAGGCCATCTGAGGAGTTTCCAGGGAATCTGTACCGAGGAGAAGGGATTCTGTGTGGGACACCAGAAGAGGTGTGGGATTGCATAA
Peptide sequence:
MLCVSRTSTPSAAMKLISPRDFVDLVLVKKYEDGTISSNATHVEHPLCPPKPGFVRGFNHPCGCFCEPLPGMEFQFPGGHLRSFQGICTEEKGFCVGHQKRCGIA
IRESfinder result
IRESfinder score
0.520442056
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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