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mmu_circSlc25a40_825
Basic information of circular RNA
PanCircBase ID:
mmu_circSlc25a40_825
mm39_Chr. Position ID:
chr5|8477195|8497407|+
Gene name:
Slc25a40
Transcript:
ENSMUST00000066921.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
8
Exon/intron indexes:
2,3,4,5,6,7,8,9
Exon/intron offsets:
0,212,1433,3216,13525,15251,16416,20102
Genomic length:
20212
Exon/intron sizes in nt:
72,10,96,01,07,68,12,50,00,000
Flanking exon/introns:
chr5:8473039-8477195|chr5:8497407-8499612
Splice length:
825
Other database IDs:
circAtlas: mmu-Slc25a40_0003
Human Ortholog IDs:
Mature spliced Sequence:
TGCTGAGGATCAAACCCAAATGTTGGGCATGTTAGGCAAGCACTCCTGATTATTGTTCTTATAACTTAACAGTTAAAAAGTATGGAGCCTGAAACTGAAGGGCCGCCACCAACAATCCCAGTGACTCCTCTTCAGCAAATGATTGCCTCCTGTACTGGAGCTGTACTGACATCACTAATGGTGACTCCCCTGGATGTTGTTAAAATTCGACTCCAGGCCCAGAACAACCCATTCCCCAAAGGAAAGTGTTTTTTATACAGTAATGGACTCATGGATCACATGTGTGTCTGTGAAGAGGAGAGCAAGAAAGCATGGTATAAGAAGCCAGGAAACTTCCGTGGGACATTGGATGCCTTTTTAAAAATTCTTCGAAATGAGGGCATAAAATCCCTGTGGAGCGGCCTCCCTCCTACTCTAGTGATGGCAATTCCTGCCACAGTTATTTATTTTACCTGCTATGAACAGTTAAGTGCTTTTCTGAAAACCAAATTAGGAGAAAATGAAACCCGAATACCAATAGTTGCTGGGGTTGTCGCCAGATTTGGTGCGGTAACAGTGATCAGTCCATTAGAATTGATCAGAACTAAGGTGCAGTCTAAGAAGTTTTCTTACAAGGAATTATATCAATTTGTGAGCATGAGAGTGTCTGAAGATGGTTGGATTTCCCTTTGGAAGGGCTGGGCTCCTACGATTCTTAGAGATGTGCCTTTCTCAGCAATGTACTGGTATAATTATGAAAATTTAAAGAGGTGGCTTTGTGAGAAATCTGGTTTATATGAACCAACATTTATGATCAACTTTACTTCAGGAGCATTGTCTGGTTCT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGTGGCTTTGTGAGAAATCTGG
59.77
TCAGTTTCAGGCTCCATACT
55.85
175
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGTGGCTTTGTGAGAAATCTGG
59.77
CTTCAGTTTCAGGCTCCATACT
57.79
177
PCR template sequence:
GTATAATTATGAAAATTTAAAGAGGTGGCTTTGTGAGAAATCTGGTTTATATGAACCAACATTTATGATCAACTTTACTTCAGGAGCATTGTCTGGTTCTTGCTGAGGATCAAACCCAAATGTTGGGCATGTTAGGCAAGCACTCCTGATTATTGTTCTTATAACTTAACAGTTAAAAAGTATGGAGCCTGAAACTGAAG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
4
Interacting miRNAs (#binding sites)
mmu-miR-135a-5p(1), mmu-miR-541-5p(1), mmu-miR-335-3p(1), mmu-miR-350-3p(1)
siRNAs for circular RNA silencing
Junction sequence
ATTGTCTGGTTCTTGCTGAGGATCAA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCSLC25A40_825_ORF_1
0.6962
-0.020548045
0.792691328
750
ORF sequence:
ATGGAGCCTGAAACTGAAGGGCCGCCACCAACAATCCCAGTGACTCCTCTTCAGCAAATGATTGCCTCCTGTACTGGAGCTGTACTGACATCACTAATGGTGACTCCCCTGGATGTTGTTAAAATTCGACTCCAGGCCCAGAACAACCCATTCCCCAAAGGAAAGTGTTTTTTATACAGTAATGGACTCATGGATCACATGTGTGTCTGTGAAGAGGAGAGCAAGAAAGCATGGTATAAGAAGCCAGGAAACTTCCGTGGGACATTGGATGCCTTTTTAAAAATTCTTCGAAATGAGGGCATAAAATCCCTGTGGAGCGGCCTCCCTCCTACTCTAGTGATGGCAATTCCTGCCACAGTTATTTATTTTACCTGCTATGAACAGTTAAGTGCTTTTCTGAAAACCAAATTAGGAGAAAATGAAACCCGAATACCAATAGTTGCTGGGGTTGTCGCCAGATTTGGTGCGGTAACAGTGATCAGTCCATTAGAATTGATCAGAACTAAGGTGCAGTCTAAGAAGTTTTCTTACAAGGAATTATATCAATTTGTGAGCATGAGAGTGTCTGAAGATGGTTGGATTTCCCTTTGGAAGGGCTGGGCTCCTACGATTCTTAGAGATGTGCCTTTCTCAGCAATGTACTGGTATAATTATGAAAATTTAAAGAGGTGGCTTTGTGAGAAATCTGGTTTATATGAACCAACATTTATGATCAACTTTACTTCAGGAGCATTGTCTGGTTCTTGCTGA
Peptide sequence:
MEPETEGPPPTIPVTPLQQMIASCTGAVLTSLMVTPLDVVKIRLQAQNNPFPKGKCFLYSNGLMDHMCVCEEESKKAWYKKPGNFRGTLDAFLKILRNEGIKSLWSGLPPTLVMAIPATVIYFTCYEQLSAFLKTKLGENETRIPIVAGVVARFGAVTVISPLELIRTKVQSKKFSYKELYQFVSMRVSEDGWISLWKGWAPTILRDVPFSAMYWYNYENLKRWLCEKSGLYEPTFMINFTSGALSGSC
IRESfinder result
IRESfinder score
0.706267899
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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