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mmu_circ5730455P16Rik_322
Basic information of circular RNA
PanCircBase ID:
mmu_circ5730455P16Rik_322
mm39_Chr. Position ID:
chr11|80258887|80261276|-
Gene name:
5730455P16Rik
Transcript:
ENSMUST00000179332.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
8,7,6
Exon/intron offsets:
0,466,2269
Genomic length:
2389
Exon/intron sizes in nt:
1,37,65,120
Flanking exon/introns:
chr11:80255765-80258887|chr11:80261276-80264465
Splice length:
322
Other database IDs:
CIRCpedia: MMU_CIRCpedia_224626
circAtlas: hsa-C17orf75_0004, CIRCpedia: HSA_CIRCpedia_167420
Human Ortholog IDs:
Mature spliced Sequence:
GAAAGGAGTCTGGGGAATGATGTAAAGTCCTATCTGAATAGCTGGTATGAGGATGTGGTGTGTCCCATCCAAAGGGTGGTTCTCCTCTTTCAGGAGAAACTGACCTTTCTGCTCCATGCTGCTCTAAGTTACACTCCTGTTGAATTTAAAGAGTCGGATGAAAAAACAAAGAGAGACATCAACAGGTTTCTGAGTGTGGCCAGTCTCCAGGGACTTATTCATGAAGGCACCATGACCTCGTTATGCATGGCCATGACAGAGGAACAGCATAAGTCTGTGATCATCGACTGTAGCGGCCCCCAGCCTCAGTTCCACAATGCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACCTCGTTATGCATGGCCAT
59.82
GGGACACACCACATCCTCAT
59.38
154
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GAAGGCACCATGACCTCGTT
60.32
GGGACACACCACATCCTCAT
59.38
166
PCR template sequence:
GAAGGCACCATGACCTCGTTATGCATGGCCATGACAGAGGAACAGCATAAGTCTGTGATCATCGACTGTAGCGGCCCCCAGCCTCAGTTCCACAATGCAGGAAAGGAGTCTGGGGAATGATGTAAAGTCCTATCTGAATAGCTGGTATGAGGATGTGGTGTGTCCCATCCAAAGGGTGGTTCTCCTCTTTCAGGAGAAAC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
6
Interacting miRNAs (#binding sites)
mmu-miR-103-3p(1), mmu-miR-223-3p(1), mmu-miR-122-5p(1), mmu-miR-107-3p(1), mmu-miR-335-3p(1), mmu-miR-193b-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TTCCACAATGCAGGAAAGGAGTCTGG
siRNA sets
ACTCCTTTCCTGCATTGTG, CTCCTTTCCTGCATTGTGG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRC5730455P16RIK_322_ORF_1
1.1708
0.226148675
0.550693575
327
ORF sequence:
ATGCAGGAAAGGAGTCTGGGGAATGATGTAAAGTCCTATCTGAATAGCTGGTATGAGGATGTGGTGTGTCCCATCCAAAGGGTGGTTCTCCTCTTTCAGGAGAAACTGACCTTTCTGCTCCATGCTGCTCTAAGTTACACTCCTGTTGAATTTAAAGAGTCGGATGAAAAAACAAAGAGAGACATCAACAGGTTTCTGAGTGTGGCCAGTCTCCAGGGACTTATTCATGAAGGCACCATGACCTCGTTATGCATGGCCATGACAGAGGAACAGCATAAGTCTGTGATCATCGACTGTAGCGGCCCCCAGCCTCAGTTCCACAATGCA
Peptide sequence:
MQERSLGNDVKSYLNSWYEDVVCPIQRVVLLFQEKLTFLLHAALSYTPVEFKESDEKTKRDINRFLSVASLQGLIHEGTMTSLCMAMTEEQHKSVIIDCSGPQPQFHNA
IRESfinder result
IRESfinder score
0.48634555
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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