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mmu_ciSptbn1_898
Basic information of circular RNA
PanCircBase ID:
mmu_ciSptbn1_898
mm39_Chr. Position ID:
chr11|30050714|30051612|-
Gene name:
Sptbn1
Transcript:
ENSMUST00000006629.14
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
35
Exon/intron offsets:
0
Genomic length:
898
Exon/intron sizes in nt:
898
Flanking exon/introns:
chr11:30050714-30051612
Splice length:
898
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAAGTTACTACTGGGTTTTGTTTTCTCAGATACCAAAGCTCATGGAAGTATTTGTGAGGTGTTCAACTGTCTGGTCTTCATAGCCACCAACACTAGACTAAAAGAAGAAAATATCATCATGTTCCTCATTAAAGGAGGGAAACTAGAGCAACATCCACTAGATTCACTGGAAACTAGGAGCAAGGAAGGCCCTTGCCTGCTGCTCCTTAGAGCAAGGCACAGAGAGGTGGCCCAAGTCTGAGTATATGTCCTGATGCCCAGTCCAAAGCCTCTACACTGTACTCCATTACCATTAGCCTCACCTCCTTGGAGAAGAGAGGGTCACCTCAGTGATCATAACATGTGCAGCAATTTACATTTTAAAAGGCCCCTTCCACCAGGAGAGGTAACTCTGGAAAAGGGCGTGGGGACGTGTAAGATGGCTTAGTTGGTAAAGGGCCTGCCATCCAGTCTGATGACTTGAGTTTGATCCCCAGGACATACTTTATATAAAGAGAAAATCAACTCTGAAAAATTGTCTTCTGATGAGCATGAACTTACGTGTCTACACACACACATACACACATGAAAACATTTTTTTAATTTAGGGAGGAAAAACACTTTCTAGAATGAGAGTGATATCTCACAGCCTTAGTCTAGTCCTGTAGCTCTTGTAGGTATGTAGGACTACATCCCAGAGTAATGGTCTGCGGGTGCAGAGCAGTGGGCCCATCTGAGGGGCTAAGCCATATCCTCTGTGGTATTGAGAATGTAGATAAGCATTTAAGGACAGTGACCCTAGAGGCACTGCTGCTGAGCCTTCTAGCTGTCAGGCTTGGATCGTCATGGAGGTAAGACCAACTCCTCATGCCCGCCCCTCTTGACCAAGTCTTAACCTGTGTCCCTTCCTCTATCTAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CAGGCTTGGATCGTCATGGA
59.82
GGTGGCTATGAAGACCAGACA
59.44
177
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CAGGCTTGGATCGTCATGGA
59.82
TGGTGGCTATGAAGACCAGAC
59.44
178
PCR template sequence:
CCTTCTAGCTGTCAGGCTTGGATCGTCATGGAGGTAAGACCAACTCCTCATGCCCGCCCCTCTTGACCAAGTCTTAACCTGTGTCCCTTCCTCTATCTAGGTAAGTTACTACTGGGTTTTGTTTTCTCAGATACCAAAGCTCATGGAAGTATTTGTGAGGTGTTCAACTGTCTGGTCTTCATAGCCACCAACACTAGACT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
14
Interacting miRNAs (#binding sites)
mmu-miR-9-5p(1), mmu-miR-16-5p(1), mmu-miR-15a-5p(1), mmu-miR-15b-5p(1), mmu-miR-326-3p(1), mmu-miR-214-3p(1), mmu-miR-24-3p(1), mmu-miR-297a-5p(1), mmu-miR-499-5p(1), mmu-miR-466a-5p(1), mmu-miR-1187(1), mmu-miR-466p-5p(1), mmu-miR-350-3p(1), mmu-miR-574-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TTCCTCTATCTAGGTAAGTTACTACT
siRNA sets
TAACTTACCTAGATAGAGG, AGTAACTTACCTAGATAGA, GTAACTTACCTAGATAGAG
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
0.666682521
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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