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mmu_circAtrx_255
Basic information of circular RNA
PanCircBase ID:
mmu_circAtrx_255
mm39_Chr. Position ID:
chrX|104954179|104955260|-
Gene name:
Atrx
Transcript:
ENSMUST00000150914.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
3,2
Exon/intron offsets:
0,896
Genomic length:
1081
Exon/intron sizes in nt:
70,185
Flanking exon/introns:
chrX:104943599-104954179|chrX:104955260-104972564
Splice length:
255
Other database IDs:
CIRCpedia: MMU_CIRCpedia_1638, circAtlas: mmu-Atrx_0054
Human Ortholog IDs:
Mature spliced Sequence:
TTGTGAGCGGCCATTGAGTTCTAGGAATCGAACCCGGGTCCTCTGGAAGAGCAACCAGTGCTCTTAACCGCTGAACCATCTCTCCAGCTGGCGACAGCTGCTGCAGCAGGGGTTTTAACTCTTCACTCAATCCGTCCTTGGCTTCCAGCAGCTTGTCAGAAGCTATTTTAAGTACTCTGTTTCAGTTTCAGGGTATCCAGCACCTTCTTCTGGCTTCTCTGGATATCAGGCATGCACACTTCAGACAAAACGCAT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ATCCAGCACCTTCTTCTGGC
60.03
CTGGAGAGATGGTTCAGCGG
60.18
148
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ATCCAGCACCTTCTTCTGGC
60.03
GGAGAGATGGTTCAGCGGTT
59.75
146
PCR template sequence:
TCAGAAGCTATTTTAAGTACTCTGTTTCAGTTTCAGGGTATCCAGCACCTTCTTCTGGCTTCTCTGGATATCAGGCATGCACACTTCAGACAAAACGCATTTGTGAGCGGCCATTGAGTTCTAGGAATCGAACCCGGGTCCTCTGGAAGAGCAACCAGTGCTCTTAACCGCTGAACCATCTCTCCAGCTGGCGACAGCTG
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-370-3p(1), mmu-miR-384-3p(1), mmu-miR-574-5p(1)
siRNAs for circular RNA silencing
Junction sequence
AGACAAAACGCATTTGTGAGCGGCCA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
NA
NA
NA
NA
NA
ORF sequence:
NA
Peptide sequence:
NA
IRESfinder result
IRESfinder score
0.787173143
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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