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mmu_circF8_405
Basic information of circular RNA
PanCircBase ID:
mmu_circF8_405
mm39_Chr. Position ID:
chrX|74381825|74409730|-
Gene name:
F8
Transcript:
ENSMUST00000033539.13
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
5,4,3
Exon/intron offsets:
0,15821,27782
Genomic length:
27905
Exon/intron sizes in nt:
6,92,13,123
Flanking exon/introns:
chrX:74378418-74381825|chrX:74409730-74411704
Splice length:
405
Other database IDs:
circBase: hsa_circ_0139935, circAtlas: hsa-F8_0005, CIRCpedia: HSA_CIRCpedia_166564
Human Ortholog IDs:
Mature spliced Sequence:
GTTTGCTAGGTCCTACCATTTGGACTGAGGTTCATGACACAGTGGTCATTACACTTAAAAACATGGCTTCTCATCCTGTCAGTCTTCATGCTGTTGGTGTGTCCTACTGGAAAGCTTCTGAGGGAGATGAATATGAAGATCAGACAAGCCAAATGGAGAAGGAAGATGATAAAGTTTTCCCTGGTGAAAGTCATACTTATGTTTGGCAAGTCCTGAAAGAGAATGGTCCAATGGCCTCTGACCCTCCATGTCTCACTTACTCATATATGTCTCATGTGGATCTGGTGAAAGATTTGAATTCAGGCCTCATTGGAGCTCTGCTAGTATGTAAAGAAGGCAGTCTCTCCAAAGAAAGAACACAGATGTTGTACCAATTTGTACTGCTTTTTGCTGTATTTGATGAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGAAGGCAGTCTCTCCAAAGA
58.39
GACTGACAGGATGAGAAGCCA
59.45
158
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGAAGGCAGTCTCTCCAAAGA
58.39
ACTGACAGGATGAGAAGCCA
58.35
157
PCR template sequence:
CTCATTGGAGCTCTGCTAGTATGTAAAGAAGGCAGTCTCTCCAAAGAAAGAACACAGATGTTGTACCAATTTGTACTGCTTTTTGCTGTATTTGATGAAGGTTTGCTAGGTCCTACCATTTGGACTGAGGTTCATGACACAGTGGTCATTACACTTAAAAACATGGCTTCTCATCCTGTCAGTCTTCATGCTGTTGGTGT
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-7b-5p(1), mmu-miR-136-5p(1), mmu-miR-466b-3p(1), mmu-miR-540-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GTATTTGATGAAGGTTTGCTAGGTCC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCF8_405_ORF_1
1.1137
0.049831757
0.917085411
747
ORF sequence:
ATGGCTTCTCATCCTGTCAGTCTTCATGCTGTTGGTGTGTCCTACTGGAAAGCTTCTGAGGGAGATGAATATGAAGATCAGACAAGCCAAATGGAGAAGGAAGATGATAAAGTTTTCCCTGGTGAAAGTCATACTTATGTTTGGCAAGTCCTGAAAGAGAATGGTCCAATGGCCTCTGACCCTCCATGTCTCACTTACTCATATATGTCTCATGTGGATCTGGTGAAAGATTTGAATTCAGGCCTCATTGGAGCTCTGCTAGTATGTAAAGAAGGCAGTCTCTCCAAAGAAAGAACACAGATGTTGTACCAATTTGTACTGCTTTTTGCTGTATTTGATGAAGGTTTGCTAGGTCCTACCATTTGGACTGAGGTTCATGACACAGTGGTCATTACACTTAAAAACATGGCTTCTCATCCTGTCAGTCTTCATGCTGTTGGTGTGTCCTACTGGAAAGCTTCTGAGGGAGATGAATATGAAGATCAGACAAGCCAAATGGAGAAGGAAGATGATAAAGTTTTCCCTGGTGAAAGTCATACTTATGTTTGGCAAGTCCTGAAAGAGAATGGTCCAATGGCCTCTGACCCTCCATGTCTCACTTACTCATATATGTCTCATGTGGATCTGGTGAAAGATTTGAATTCAGGCCTCATTGGAGCTCTGCTAGTATGTAAAGAAGGCAGTCTCTCCAAAGAAAGAACACAGATGTTGTACCAATTTGTACTGCTTTTTGCTGTATTTGATGAA
Peptide sequence:
MASHPVSLHAVGVSYWKASEGDEYEDQTSQMEKEDDKVFPGESHTYVWQVLKENGPMASDPPCLTYSYMSHVDLVKDLNSGLIGALLVCKEGSLSKERTQMLYQFVLLFAVFDEGLLGPTIWTEVHDTVVITLKNMASHPVSLHAVGVSYWKASEGDEYEDQTSQMEKEDDKVFPGESHTYVWQVLKENGPMASDPPCLTYSYMSHVDLVKDLNSGLIGALLVCKEGSLSKERTQMLYQFVLLFAVFDE
IRESfinder result
IRESfinder score
0.464184598
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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