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mmu_circKlhl8_329
Basic information of circular RNA
PanCircBase ID:
mmu_circKlhl8_329
mm39_Chr. Position ID:
chr5|104015358|104015879|-
Gene name:
Klhl8
Transcript:
ENSMUST00000112811.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
6,5
Exon/intron offsets:
0,352
Genomic length:
521
Exon/intron sizes in nt:
1,60,169
Flanking exon/introns:
chr5:104012269-104015358|chr5:104015879-104018394
Splice length:
329
Other database IDs:
circBase: hsa_circ_0127237, circAtlas: hsa-SCAF8_0001
Human Ortholog IDs:
Mature spliced Sequence:
GCGAGGAATTGCCTTGGCCTCCTTAGGGGGCCCAATATATGCAATTGGAGGATTAGATGACAATACGTGCTTCAGTGACGTGGAGAGATACGACATCGAATCTGACCAATGGAGCACAGTGGCACCAATGAACACTCCCCGTGGAGGCGTTGGCTCTGTGGCTTTAATAAACCACGTTTACGCAGTGGGCGGCAACGACGGCGTAGCCTCCTTATCCAGTGTGGAGAGGTATCACCCGCATCTGGACAAGTGGATAGAAGTGAAAGAGATGGGTCAGCGCAGAGCTGGCAACGGCGTCAGCGAGCTTCACGGTTGTTTATATGTTGTTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCGCATCTGGACAAGTGGAT
60.11
TCTCCACGTCACTGAAGCAC
59.97
180
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GAAAGAGATGGGTCAGCGCA
60.39
TCTCCACGTCACTGAAGCAC
59.97
154
PCR template sequence:
TATCACCCGCATCTGGACAAGTGGATAGAAGTGAAAGAGATGGGTCAGCGCAGAGCTGGCAACGGCGTCAGCGAGCTTCACGGTTGTTTATATGTTGTTGGCGAGGAATTGCCTTGGCCTCCTTAGGGGGCCCAATATATGCAATTGGAGGATTAGATGACAATACGTGCTTCAGTGACGTGGAGAGATACGACATCGAA
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-122-5p(1), mmu-miR-136-5p(1), mmu-miR-127-5p(1), mmu-miR-540-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TTATATGTTGTTGGCGAGGAATTGCC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCKLHL8_329_ORF_1
0.6037
0.130457738
0.588867009
549
ORF sequence:
ATGGAGCACAGTGGCACCAATGAACACTCCCCGTGGAGGCGTTGGCTCTGTGGCTTTAATAAACCACGTTTACGCAGTGGGCGGCAACGACGGCGTAGCCTCCTTATCCAGTGTGGAGAGGTATCACCCGCATCTGGACAAGTGGATAGAAGTGAAAGAGATGGGTCAGCGCAGAGCTGGCAACGGCGTCAGCGAGCTTCACGGTTGTTTATATGTTGTTGGCGAGGAATTGCCTTGGCCTCCTTAGGGGGCCCAATATATGCAATTGGAGGATTAGATGACAATACGTGCTTCAGTGACGTGGAGAGATACGACATCGAATCTGACCAATGGAGCACAGTGGCACCAATGAACACTCCCCGTGGAGGCGTTGGCTCTGTGGCTTTAATAAACCACGTTTACGCAGTGGGCGGCAACGACGGCGTAGCCTCCTTATCCAGTGTGGAGAGGTATCACCCGCATCTGGACAAGTGGATAGAAGTGAAAGAGATGGGTCAGCGCAGAGCTGGCAACGGCGTCAGCGAGCTTCACGGTTGTTTATATGTTGTT
Peptide sequence:
MEHSGTNEHSPWRRWLCGFNKPRLRSGRQRRRSLLIQCGEVSPASGQVDRSERDGSAQSWQRRQRASRLFICCWRGIALASLGGPIYAIGGLDDNTCFSDVERYDIESDQWSTVAPMNTPRGGVGSVALINHVYAVGGNDGVASLSSVERYHPHLDKWIEVKEMGQRRAGNGVSELHGCLYVV
IRESfinder result
IRESfinder score
0.394762703
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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