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mmu_ciGspt1_1115
Basic information of circular RNA
PanCircBase ID:
mmu_ciGspt1_1115
mm39_Chr. Position ID:
chr16|11041168|11042283|-
Gene name:
Gspt1
Transcript:
ENSMUST00000167571.8
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
12
Exon/intron offsets:
0
Genomic length:
1115
Exon/intron sizes in nt:
1115
Flanking exon/introns:
chr16:11041165-11042283
Splice length:
1115
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAAAGATCATCTTCATGGTTGTTAAAACTTAATTTCAGTGCCTTTGTCCTGAGTATTTGTGACATGCCACATGACCTGTATCAGAGGGACTCATTTGTACATTACAACTATAGTATCTCACAGTTCCAAGATGCTGTAAAAATTTACCAGGTAGGGGCTGGAGAGATGATTCAGCGGTTAAGAGCACCGGCTGCTCCTGAAGGTCGTCCTGAGTTCAAACCTCAGCAACCACATGATGGCTCACAGTCATCTGTAACGAGCTCTTCTGGATTGTCTGAAGACAGCTACAGTATACTTAAATATAATAATAAATAAATACATCTTTTTTTTTTTAATTACCAGGTAGTATTTTCTTGTAAATTTCATTTTATTTTTGGTTTGTTGGTAAAATTTAAGTAATGTTTACTTTGTAAAGGTTTTAGACTTGGGTCTGCTTATATTTAACCTGACCATCTTGGGAGAGTAAGAACAAATGACTGGTACCATTAACAGAACTTTTTGAGTACTGTTAAATAAACCGGAGCTAGAGCGATCTCTCAGTGGTTAAGAGACTTGCTGCTCTCACAGCAGTTCCAAGTACCTGCAGGTTAGAACTACCTATAATTCCAATTCCATTGGTTCCAGCACCCTTTTCTGACTTTCTTATGTACCAGGTTTGCAGGTGGTGCACAGACAAAACAATGTAGGCAAGACTATGACTCAAGACACATAAACTCAAATAAATCTAAATCCTTCCCCCAAAAAAGTATGACTTAAGCTTTTGTTGTTTTTTTTAATGCCAAATACATTCTGTTGTTTACTGACTGCCTTGAGTATTGAGAAATGGTTAAGCTATGGGAAGCTCACGTCTAGGTAATGTGCTCCTGTGTTCCATGGGTAATGCACAGTGTCGGCTTCCTAGTCTGCCTGGTGAACTGACATCTACCAGGCCCTTGCCCGTTTCCATACAGGGCACTGGGTATCGTAGAGCTGAGGTTGGACAACTTGAAGTATCCTAGCAACAAAATAACAAGGTAGAAGTAGAGTAAAAGAAAGTGAGGACTGTTACTGCTTGGGATATTACCTTTAGAGCATTGAAGATAGTTCTGAGGCTTTTCTTTTGTTTTTATTTTGA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGAGGACTGTTACTGCTTGGG
59.65
ACAGGTCATGTGGCATGTCA
59.6
159
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GAGGACTGTTACTGCTTGGGA
59.38
ACAGGTCATGTGGCATGTCA
59.6
158
PCR template sequence:
TAGAAGTAGAGTAAAAGAAAGTGAGGACTGTTACTGCTTGGGATATTACCTTTAGAGCATTGAAGATAGTTCTGAGGCTTTTCTTTTGTTTTTATTTTGAGTAAAGATCATCTTCATGGTTGTTAAAACTTAATTTCAGTGCCTTTGTCCTGAGTATTTGTGACATGCCACATGACCTGTATCAGAGGGACTCATTTGTA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
13
Interacting miRNAs (#binding sites)
mmu-miR-429-3p(1), mmu-miR-200b-3p(1), mmu-miR-223-3p(1), mmu-miR-30e-5p(1), mmu-miR-200c-3p(1), mmu-miR-101a-3p(1), mmu-miR-322-5p(1), mmu-miR-29a-3p(1), mmu-miR-29c-3p(1), mmu-miR-30c-5p(1), mmu-miR-196a-5p(1), mmu-miR-212-3p(1), mmu-miR-3065-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GTTTTTATTTTGAGTAAAGATCATCT
siRNA sets
NA
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
0.843548767
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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