top of page
mmu_circRps6ka2_449
Basic information of circular RNA
PanCircBase ID:
mmu_circRps6ka2_449
mm39_Chr. Position ID:
chr17|7514100|7523372|+
Gene name:
Rps6ka2
Transcript:
ENSMUST00000024575.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
4,5,6,7,8
Exon/intron offsets:
0,2590,4838,7710,9129
Genomic length:
9272
Exon/intron sizes in nt:
8,18,01,07,38,143
Flanking exon/introns:
chr17:7503526-7514100|chr17:7523372-7528402
Splice length:
449
Other database IDs:
circAtlas: hsa-SCAF8_0001
Human Ortholog IDs:
Mature spliced Sequence:
TGCGAGACCGGGTCAGATCTAAGATGGAGAGAGACATCCTGGCAGAGGTGAATCACCCTTTCATTGTCAAGCTGCATTATGCCTTTCAGACCGAAGGCAAGCTCTACCTGATCCTGGACTTCCTGCGGGGAGGTGACCTCTTCACCAGGCTTTCCAAAGAGGTGATGTTCACGGAGGAGGATGTCAAGTTCTACCTGGCTGAGCTGGCCTTGGCTCTAGACCACCTCCATGGCCTGGGGATCATCTACAGGGATCTGAAGCCAGAGAATATCCTCCTGGATGAAGAGGGACACATTAAGATCACAGATTTTGGCTTGAGCAAGGAGGCCACCGACCATGACAAGAGAGCCTATTCATTCTGTGGGACTATTGAATACATGGCGCCCGAGGTGGTGAACCGGCGTGGACACACACAGAGTGCCGACTGGTGGTCCTTCGGTGTGCTCATG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ATTGAATACATGGCGCCCGA
60.18
GCCTTCGGTCTGAAAGGCAT
60.68
179
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ATTGAATACATGGCGCCCGA
60.18
GCCTTCGGTCTGAAAGGCA
60.3
179
PCR template sequence:
CTATTCATTCTGTGGGACTATTGAATACATGGCGCCCGAGGTGGTGAACCGGCGTGGACACACACAGAGTGCCGACTGGTGGTCCTTCGGTGTGCTCATGTGCGAGACCGGGTCAGATCTAAGATGGAGAGAGACATCCTGGCAGAGGTGAATCACCCTTTCATTGTCAAGCTGCATTATGCCTTTCAGACCGAAGGCAA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
2
Interacting miRNAs (#binding sites)
mmu-miR-3470b(1), mmu-miR-697(1)
siRNAs for circular RNA silencing
Junction sequence
CGGTGTGCTCATGTGCGAGACCGGGT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCRPS6KA2_449_ORF_1
1.2351
0.410061756
0.895808831
477
ORF sequence:
ATGGAGAGAGACATCCTGGCAGAGGTGAATCACCCTTTCATTGTCAAGCTGCATTATGCCTTTCAGACCGAAGGCAAGCTCTACCTGATCCTGGACTTCCTGCGGGGAGGTGACCTCTTCACCAGGCTTTCCAAAGAGGTGATGTTCACGGAGGAGGATGTCAAGTTCTACCTGGCTGAGCTGGCCTTGGCTCTAGACCACCTCCATGGCCTGGGGATCATCTACAGGGATCTGAAGCCAGAGAATATCCTCCTGGATGAAGAGGGACACATTAAGATCACAGATTTTGGCTTGAGCAAGGAGGCCACCGACCATGACAAGAGAGCCTATTCATTCTGTGGGACTATTGAATACATGGCGCCCGAGGTGGTGAACCGGCGTGGACACACACAGAGTGCCGACTGGTGGTCCTTCGGTGTGCTCATGTGCGAGACCGGGTCAGATCTAAGATGGAGAGAGACATCCTGGCAGAGGTGA
Peptide sequence:
MERDILAEVNHPFIVKLHYAFQTEGKLYLILDFLRGGDLFTRLSKEVMFTEEDVKFYLAELALALDHLHGLGIIYRDLKPENILLDEEGHIKITDFGLSKEATDHDKRAYSFCGTIEYMAPEVVNRRGHTQSADWWSFGVLMCETGSDLRWRETSWQR
IRESfinder result
IRESfinder score
0.32322413
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page