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mmu_circAtp11b_742
Basic information of circular RNA
PanCircBase ID:
mmu_circAtp11b_742
mm39_Chr. Position ID:
chr3|35832173|35852807|+
Gene name:
Atp11b
Transcript:
ENSMUST00000200445.5
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
8
Exon/intron indexes:
2,3,4,5,6,7,8,9
Exon/intron offsets:
0,4487,6482,10062,10401,11533,17734,20569
Genomic length:
20634
Exon/intron sizes in nt:
117,90,81,108,129,104,48,65
Flanking exon/introns:
chr3:35808559-35832173|chr3:35852807-35854632
Splice length:
742
Other database IDs:
circAtlas: mmu-Atp11b_0011
circAtlas: hsa-ATP11B_0009
Human Ortholog IDs:
Mature spliced Sequence:
GGTTTTGACCCACCACATCAAAGTGACACAAGAACTATTTACATAGCCAACAGGTTTCCTCAGAATGGCCTTTACACACCTCAGAAATTTATAGATAACCGGATCATTTCATCTAAGTATACTATATGGAATTTTGTTCCAAAAAATTTATTTGAACAGTTCAGAAGAGTGGCAAACTTTTATTTTCTTATTATATTTTTGGTTCAGCTTATGATTGATACACCTACCAGTCCAATTACCAGTGGACTTCCATTATTCTTTGTGATAACAGTAACTGCCATAAAACAGGGTTATGAAGACTGGTTACGCCATAACTCAGATAATGAAGTAAACGGAGCTCCTGTCTATGTTGTCAGAAGTGGGGGGCTTGTAAAAACTCGATCCAAAAACATTCGGGTGGGTGATATTGTTCGTATAGCCAAAGATGAAATTTTTCCTGCAGATTTGGTGCTTCTGTCCTCAGATCGACTTGATGGTTCATGTCATGTGACAACTGCTAGTTTGGATGGAGAGACAAACCTAAAGACACATGTGTCAGTTCCAGAAACAGCAGTATTACAAACAGTTGCCAACTTGGACAGTCTCATAGCTGTAATAGAATGCCAACAGCCAGAAGCAGATTTATACAGATTTATGGGACGAATGATAATAACTCAACAAATGGAAGAAATTGTAAGACCTCTGGGACCAGAGAGTCTCTTGCTTCGTGGAGCCAGATTAAAAAATACAAAAGAAATTTTTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGGACCAGAGAGTCTCTTGC
59.47
TCTGAGGTGTGTAAAGGCCA
58.57
144
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGGACCAGAGAGTCTCTTGC
59.47
TTCTGAGGTGTGTAAAGGCCA
59.23
145
PCR template sequence:
ATGATAATAACTCAACAAATGGAAGAAATTGTAAGACCTCTGGGACCAGAGAGTCTCTTGCTTCGTGGAGCCAGATTAAAAAATACAAAAGAAATTTTTGGGTTTTGACCCACCACATCAAAGTGACACAAGAACTATTTACATAGCCAACAGGTTTCCTCAGAATGGCCTTTACACACCTCAGAAATTTATAGATAACC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
8
Interacting miRNAs (#binding sites)
mmu-miR-9-5p(1), mmu-miR-429-3p(1), mmu-miR-200b-3p(1), mmu-miR-203-3p(1), mmu-miR-149-5p(1), mmu-miR-182-5p(1), mmu-miR-5101(1), mmu-miR-539-5p(1)
siRNAs for circular RNA silencing
Junction sequence
AAAGAAATTTTTGGGTTTTGACCCAC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCATP11B_742_ORF_1
1.1459
-0.068749634
0.615128944
540
ORF sequence:
ATGATTGATACACCTACCAGTCCAATTACCAGTGGACTTCCATTATTCTTTGTGATAACAGTAACTGCCATAAAACAGGGTTATGAAGACTGGTTACGCCATAACTCAGATAATGAAGTAAACGGAGCTCCTGTCTATGTTGTCAGAAGTGGGGGGCTTGTAAAAACTCGATCCAAAAACATTCGGGTGGGTGATATTGTTCGTATAGCCAAAGATGAAATTTTTCCTGCAGATTTGGTGCTTCTGTCCTCAGATCGACTTGATGGTTCATGTCATGTGACAACTGCTAGTTTGGATGGAGAGACAAACCTAAAGACACATGTGTCAGTTCCAGAAACAGCAGTATTACAAACAGTTGCCAACTTGGACAGTCTCATAGCTGTAATAGAATGCCAACAGCCAGAAGCAGATTTATACAGATTTATGGGACGAATGATAATAACTCAACAAATGGAAGAAATTGTAAGACCTCTGGGACCAGAGAGTCTCTTGCTTCGTGGAGCCAGATTAAAAAATACAAAAGAAATTTTTGGGTTTTGA
Peptide sequence:
MIDTPTSPITSGLPLFFVITVTAIKQGYEDWLRHNSDNEVNGAPVYVVRSGGLVKTRSKNIRVGDIVRIAKDEIFPADLVLLSSDRLDGSCHVTTASLDGETNLKTHVSVPETAVLQTVANLDSLIAVIECQQPEADLYRFMGRMIITQQMEEIVRPLGPESLLLRGARLKNTKEIFGF
IRESfinder result
IRESfinder score
0.791580126
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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