top of page
mmu_circStxbp5l_442
Basic information of circular RNA
PanCircBase ID:
mmu_circStxbp5l_442
mm39_Chr. Position ID:
chr16|37061700|37082329|-
Gene name:
Stxbp5l
Transcript:
ENSMUST00000114787.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
11,10,9,8
Exon/intron offsets:
0,6531,14470,20545
Genomic length:
20629
Exon/intron sizes in nt:
155,79,124,84
Flanking exon/introns:
chr16:37056664-37061700|chr16:37082329-37108648
Splice length:
442
Other database IDs:
circAtlas: mmu-Stxbp5l_0016
circAtlas: hsa-SCAF8_0001
Human Ortholog IDs:
Mature spliced Sequence:
CTGTTAATAGGTTACGAGAATGGCACTGTGGTGTTCTGGGACTTGAAATCTAAAAGAGCAGAACTGAGAGTTTATTATGATGAGGCTATTCATTCAATTGATTGGCATCATGAGGGCAAACAATTCATGTGCAGCCACTCAGATGGTAGCTTGACTTTATGGAACCTGAAAAGCCCAAGCCGCCCTTTCCAAACCACAGTCCCACATGGAAAAAGTCAAAGAGAAGGAAGAAAGTCTGAGTCTTGTAAACCTATTCTTAAAGTAGAATACAAAACGTGCAGGAACAGTGAACCATTTATAATATTCTCTGGCGGGCTGTCATATGACAAAGCTTGCAGAAGACCAAGTTTAACCATCATGCATGGGAAAGCAATTACAGTGCTTGAGATGGATCATCCTATTGTTGAGTTTCTAACGTTATGTGAAACGCCCTATCCAAATG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CATCATGCATGGGAAAGCAA
57.03
AGATTTCAAGTCCCAGAACACCA
59.86
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CATCATGCATGGGAAAGCAAT
57.53
AGATTTCAAGTCCCAGAACACCA
59.86
140
PCR template sequence:
CCAAGTTTAACCATCATGCATGGGAAAGCAATTACAGTGCTTGAGATGGATCATCCTATTGTTGAGTTTCTAACGTTATGTGAAACGCCCTATCCAAATGCTGTTAATAGGTTACGAGAATGGCACTGTGGTGTTCTGGGACTTGAAATCTAAAAGAGCAGAACTGAGAGTTTATTATGATGAGGCTATTCATTCAATTG
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-128-3p(1), mmu-miR-433-3p(1), mmu-miR-5101(1), mmu-miR-1904(1)
siRNAs for circular RNA silencing
Junction sequence
CCCTATCCAAATGCTGTTAATAGGTT
siRNA sets
TAACAGCATTTGGATAGGG, TTAACAGCATTTGGATAGG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCSTXBP5L_442_ORF_1
0.5716
-0.058071401
0.225445047
444
ORF sequence:
ATGCTGTTAATAGGTTACGAGAATGGCACTGTGGTGTTCTGGGACTTGAAATCTAAAAGAGCAGAACTGAGAGTTTATTATGATGAGGCTATTCATTCAATTGATTGGCATCATGAGGGCAAACAATTCATGTGCAGCCACTCAGATGGTAGCTTGACTTTATGGAACCTGAAAAGCCCAAGCCGCCCTTTCCAAACCACAGTCCCACATGGAAAAAGTCAAAGAGAAGGAAGAAAGTCTGAGTCTTGTAAACCTATTCTTAAAGTAGAATACAAAACGTGCAGGAACAGTGAACCATTTATAATATTCTCTGGCGGGCTGTCATATGACAAAGCTTGCAGAAGACCAAGTTTAACCATCATGCATGGGAAAGCAATTACAGTGCTTGAGATGGATCATCCTATTGTTGAGTTTCTAACGTTATGTGAAACGCCCTATCCAAAT
Peptide sequence:
MLLIGYENGTVVFWDLKSKRAELRVYYDEAIHSIDWHHEGKQFMCSHSDGSLTLWNLKSPSRPFQTTVPHGKSQREGRKSESCKPILKVEYKTCRNSEPFIIFSGGLSYDKACRRPSLTIMHGKAITVLEMDHPIVEFLTLCETPYPN
IRESfinder result
IRESfinder score
0.665737958
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page