top of page
mmu_ciSlc30a8_848
Basic information of circular RNA
PanCircBase ID:
mmu_ciSlc30a8_848
mm39_Chr. Position ID:
chr15|52195068|52195916|+
Gene name:
Slc30a8
Transcript:
ENSMUST00000037240.3
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
6
Exon/intron offsets:
0
Genomic length:
848
Exon/intron sizes in nt:
848
Flanking exon/introns:
chr15:52195068-52196916
Splice length:
848
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAGGACTGCTTTCATCAGTATCCTCAGGACTGATGCTCTTTCCATTTGATCATAAAAGGGGTGACTGCCAGACATGTTCTTGGTTAATTTGTATCTATATTATAGAGGAAAATTAGAGTGATAAGAATTATTAATGTTTGGTTTCTGCCTCTGTGGAACTAATAGAAATACACACACACACACACACACACACACACACACATACTGTTAAATTATACTTCACAATGTAAAGATATCAAATATAAGCACTGAATACAATATTAGAGGGAAATAGTGCAGACGTATACTGGAAAATATCAAGGAAAGAAGAGACAAGATGGGTCTTTCTATTAGGCAGCAATATAGTTGAATGTTTAGGTCTCATGTGTCTCAAAGTACAAGCACACGGGGATGACATTTATTTATCCAGCAAGTGTTTGCAGAATGCTGTTAGATCATGTCCTTAAAATTAGATTTACTAAAATGAGCAAAGCAGTGAATGACACTCTCCTAATGGAGGGAGCTATACTTGAATAAAAGGAGAGATTGTCTAAACAATAAGAAAGAATAGAACAGTAAGTGCTATAAAGAAGAGCCGGGATTCTAACATGGCTGGGGAGGAGGGGTCAGCGAGCAGATGGGATTACAATGTCACAAGCTTGTTCTTAGCCCAGGGTAGGATCTTCTGTATGTGAACCTCATTGCCCATAGACAGTATGGTTCCCAGCTATTCTGCTTTGCCTGGCTGGCTCCATGGGTCTTCCTGTCAATCAGAAAAAGATGACAGAAGTAACTCTCACTGTCAAGACAGTAGCTCCTATGACTAAAGCTTCCTGGGAATGTCTCCCCACTGCATTCTACAGCTTGT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGTCAAGACAGTAGCTCCTATGAC
59.6
GTCTGGCAGTCACCCCTTTT
60.18
142
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGTCAAGACAGTAGCTCCTATGAC
59.6
AACATGTCTGGCAGTCACCC
60.25
147
PCR template sequence:
AATCAGAAAAAGATGACAGAAGTAACTCTCACTGTCAAGACAGTAGCTCCTATGACTAAAGCTTCCTGGGAATGTCTCCCCACTGCATTCTACAGCTTGTGTAGGACTGCTTTCATCAGTATCCTCAGGACTGATGCTCTTTCCATTTGATCATAAAAGGGGTGACTGCCAGACATGTTCTTGGTTAATTTGTATCTATA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
10
Interacting miRNAs (#binding sites)
mmu-miR-1187(2), mmu-miR-574-5p(2), mmu-miR-7b-5p(1), mmu-miR-181a-5p(1), mmu-miR-709(1), mmu-miR-181b-5p(1), mmu-miR-676-3p(1), mmu-miR-466a-5p(1), mmu-miR-466p-5p(1), mmu-miR-181d-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TTCTACAGCTTGTGTAGGACTGCTTT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CISLC30A8_848_ORF_1
1.0293
-0.08208824
0.074914845
165
ORF sequence:
ATGGGTCTTCCTGTCAATCAGAAAAAGATGACAGAAGTAACTCTCACTGTCAAGACAGTAGCTCCTATGACTAAAGCTTCCTGGGAATGTCTCCCCACTGCATTCTACAGCTTGTGTAGGACTGCTTTCATCAGTATCCTCAGGACTGATGCTCTTTCCATTTGA
Peptide sequence:
MGLPVNQKKMTEVTLTVKTVAPMTKASWECLPTAFYSLCRTAFISILRTDALSI
IRESfinder result
IRESfinder score
0.676912941
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page