top of page
mmu_circSlc8a1_231
Basic information of circular RNA
PanCircBase ID:
mmu_circSlc8a1_231
mm39_Chr. Position ID:
chr17|81735610|81740203|-
Gene name:
Slc8a1
Transcript:
ENSMUST00000234131.2
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
6,5
Exon/intron offsets:
0,4462
Genomic length:
4593
Exon/intron sizes in nt:
100,131
Flanking exon/introns:
chr17:81715771-81735610|chr17:81740203-81745173
Splice length:
231
Other database IDs:
CIRCpedia: MMU_CIRCpedia_30817, circAtlas: mmu-Slc8a1_0009
circAtlas: hsa-SLC8A1_0009, CIRCpedia: HSA_CIRCpedia_91844
Human Ortholog IDs:
Mature spliced Sequence:
AGGAATATGATGACAAGCAGCCACTGACCAGCAAAGAAGAGGAGGAGAGGCGCATTGCGGAAATGGGGCGCCCCATCCTAGGCGAGCACACCAAGCTGGAGGTGATCATCGAAGAGTCTTACGAATTCAAGAGCACTGTGGACAAACTCATTAAGAAGACGAACCTGGCCCTTGTGGTGGGGACCAACAGCTGGAGAGAGCAGTTTATCGAAGCCATCACTGTCAGCGCTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CAACAGCTGGAGAGAGCAGT
59.68
TTGGTGTGCTCGCCTAGGAT
61.26
141
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CAACAGCTGGAGAGAGCAGT
59.68
CTTGGTGTGCTCGCCTAGG
60.45
142
PCR template sequence:
AGCACTGTGGACAAACTCATTAAGAAGACGAACCTGGCCCTTGTGGTGGGGACCAACAGCTGGAGAGAGCAGTTTATCGAAGCCATCACTGTCAGCGCTGAGGAATATGATGACAAGCAGCCACTGACCAGCAAAGAAGAGGAGGAGAGGCGCATTGCGGAAATGGGGCGCCCCATCCTAGGCGAGCACACCAAGCTGGA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
1
Interacting miRNAs (#binding sites)
mmu-miR-499-5p(1)
siRNAs for circular RNA silencing
Junction sequence
ACTGTCAGCGCTGAGGAATATGATGA
siRNA sets
TCATCATATTCCTCAGCGC, ATTCCTCAGCGCTGACAGT, TATTCCTCAGCGCTGACAG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCSLC8A1_231_ORF_1
1.2738
0.593081131
0.918269303
399
ORF sequence:
ATGGGGCGCCCCATCCTAGGCGAGCACACCAAGCTGGAGGTGATCATCGAAGAGTCTTACGAATTCAAGAGCACTGTGGACAAACTCATTAAGAAGACGAACCTGGCCCTTGTGGTGGGGACCAACAGCTGGAGAGAGCAGTTTATCGAAGCCATCACTGTCAGCGCTGAGGAATATGATGACAAGCAGCCACTGACCAGCAAAGAAGAGGAGGAGAGGCGCATTGCGGAAATGGGGCGCCCCATCCTAGGCGAGCACACCAAGCTGGAGGTGATCATCGAAGAGTCTTACGAATTCAAGAGCACTGTGGACAAACTCATTAAGAAGACGAACCTGGCCCTTGTGGTGGGGACCAACAGCTGGAGAGAGCAGTTTATCGAAGCCATCACTGTCAGCGCT
Peptide sequence:
MGRPILGEHTKLEVIIEESYEFKSTVDKLIKKTNLALVVGTNSWREQFIEAITVSAEEYDDKQPLTSKEEEERRIAEMGRPILGEHTKLEVIIEESYEFKSTVDKLIKKTNLALVVGTNSWREQFIEAITVSA
IRESfinder result
IRESfinder score
0.25596595
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page