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mmu_ciSh3glb1_421
Basic information of circular RNA
PanCircBase ID:
mmu_ciSh3glb1_421
mm39_Chr. Position ID:
chr3|144402717|144403138|-
Gene name:
Sh3glb1
Transcript:
ENSMUST00000199531.5
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
6
Exon/intron offsets:
0
Genomic length:
421
Exon/intron sizes in nt:
421
Flanking exon/introns:
chr3:144402715-144403138
Splice length:
421
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTGAGTGTTACATCATTGCCCCAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAACGCTGAGACAACCCCAGGCAGCTAAGGAGGAGCATGTGCAGGCGAGAGCTTCCTGTGGCATTTACCTCTCAAGGAAAGCTGAAGAGAGTTTACAAGGATCTGAAGAAATGTGTTCATTTTCTCTCACATCTCACCACACATTTTACACATTGCATAAATTTTCCTGCTGGTTTCTATTGGCTAAACAAAGTTTGTCAACATATTGTTCACCAGTAATTCATCTTAGTAAGTCTGATAGGAGTACCCCAGTAATAAGCTTTACAGTAGGTTGCCACCGCTGATTCTCCCTTGTGACAGTGTTAGCCTTTGTTCCCCTTGGCTTGTAGCACTTGAACTTCTGAGAATGACCGTAACTTTTCCATTGC
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACCGCTGATTCTCCCTTGTG
60.04
TGGGGTTGTCTCAGCGTTTT
60.11
164
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CACCGCTGATTCTCCCTTGT
60.04
TGGGGTTGTCTCAGCGTTTT
60.11
165
PCR template sequence:
AGGTTGCCACCGCTGATTCTCCCTTGTGACAGTGTTAGCCTTTGTTCCCCTTGGCTTGTAGCACTTGAACTTCTGAGAATGACCGTAACTTTTCCATTGCGTGAGTGTTACATCATTGCCCCAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAACGCTGAGACAACCCCAGGCAGCTAAGGAGGAGCATGTGCAGGCG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
9
Interacting miRNAs (#binding sites)
mmu-miR-200a-3p(1), mmu-miR-141-3p(1), mmu-miR-214-3p(1), mmu-miR-411-3p(1), mmu-miR-362-5p(1), mmu-miR-690(1), mmu-miR-466a-5p(1), mmu-miR-1187(1), mmu-miR-466p-5p(1)
siRNAs for circular RNA silencing
Junction sequence
ACTTTTCCATTGCGTGAGTGTTACAT
siRNA sets
TAACACTCACGCAATGGAA, TGTAACACTCACGCAATGG, GTAACACTCACGCAATGGA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CISH3GLB1_421_ORF_5
0.3716
-0.456187007
0.002927262
84
ORF sequence:
ATGACCGTAACTTTTCCATTGCGTGAGTGTTACATCATTGCCCCAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAACGCTGA
Peptide sequence:
MTVTFPLRECYIIAPKKKKKKKKKKKR
IRESfinder result
IRESfinder score
0.788649314
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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