top of page
mmu_circStxbp5l_382
Basic information of circular RNA
PanCircBase ID:
mmu_circStxbp5l_382
mm39_Chr. Position ID:
chr16|37108648|37150319|-
Gene name:
Stxbp5l
Transcript:
ENSMUST00000114787.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
7,6,5,4
Exon/intron offsets:
0,2642,35241,41589
Genomic length:
41671
Exon/intron sizes in nt:
64,135,101,82
Flanking exon/introns:
chr16:37082329-37108648|chr16:37150319-37165432
Splice length:
382
Other database IDs:
circAtlas: mmu-Stxbp5l_0031
circAtlas: hsa-SCAF8_0001
Human Ortholog IDs:
Mature spliced Sequence:
ACTTGGGAGGCCTGGTGTTGACTGTTACTGCCAACATGAAAGTGGTGCGGCTGTCTTGCAGCTCCAATTCCTCATCAATGAGGGCGCGTTGGTCAGTGCGAGTTCAGATGACACGCTTCATTTGTGGAATCTGAGACAGAAAAGGCCGGCCATTCTCCATTCTCTTAAATTTAACAGAGAACGAATTACTTACTGTCATCTACCTTTCCAGAGTAAATGGCTCTATGTTGGAACAGAAAGAGGAAATACACATATTGTAAATATTGAATCTTTCATTCTTTCTGGATATGTCATCATGTGGAACAAGGCAATTGAACTCTCCACCAAGACTCATCCAGGCCCAGTTGTACATTTAAGTGATAGCCCAAGAGATGAAGGAAAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CAAGACTCATCCAGGCCCAG
60.11
CAACGCGCCCTCATTGATG
59.94
149
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CAAGACTCATCCAGGCCCAG
60.11
AACGCGCCCTCATTGATGA
60.08
148
PCR template sequence:
TGGATATGTCATCATGTGGAACAAGGCAATTGAACTCTCCACCAAGACTCATCCAGGCCCAGTTGTACATTTAAGTGATAGCCCAAGAGATGAAGGAAAAACTTGGGAGGCCTGGTGTTGACTGTTACTGCCAACATGAAAGTGGTGCGGCTGTCTTGCAGCTCCAATTCCTCATCAATGAGGGCGCGTTGGTCAGTGCG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
3
Interacting miRNAs (#binding sites)
mmu-miR-132-3p(1), mmu-miR-212-3p(1), mmu-miR-194-5p(1)
siRNAs for circular RNA silencing
Junction sequence
AGATGAAGGAAAAACTTGGGAGGCCT
siRNA sets
AGGCCTCCCAAGTTTTTCC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCSTXBP5L_382_ORF_1
0.8354
-0.028038241
0.271692436
393
ORF sequence:
ATGAAGGAAAAACTTGGGAGGCCTGGTGTTGACTGTTACTGCCAACATGAAAGTGGTGCGGCTGTCTTGCAGCTCCAATTCCTCATCAATGAGGGCGCGTTGGTCAGTGCGAGTTCAGATGACACGCTTCATTTGTGGAATCTGAGACAGAAAAGGCCGGCCATTCTCCATTCTCTTAAATTTAACAGAGAACGAATTACTTACTGTCATCTACCTTTCCAGAGTAAATGGCTCTATGTTGGAACAGAAAGAGGAAATACACATATTGTAAATATTGAATCTTTCATTCTTTCTGGATATGTCATCATGTGGAACAAGGCAATTGAACTCTCCACCAAGACTCATCCAGGCCCAGTTGTACATTTAAGTGATAGCCCAAGAGATGAAGGAAAA
Peptide sequence:
MKEKLGRPGVDCYCQHESGAAVLQLQFLINEGALVSASSDDTLHLWNLRQKRPAILHSLKFNRERITYCHLPFQSKWLYVGTERGNTHIVNIESFILSGYVIMWNKAIELSTKTHPGPVVHLSDSPRDEGK
IRESfinder result
IRESfinder score
0.633886043
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page