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mmu_circArid4a_244
Basic information of circular RNA
PanCircBase ID:
mmu_circArid4a_244
mm39_Chr. Position ID:
chr12|71092887|71094134|+
Gene name:
Arid4a
Transcript:
ENSMUST00000046305.12
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
10,11
Exon/intron offsets:
0,1080
Genomic length:
1247
Exon/intron sizes in nt:
77,167
Flanking exon/introns:
chr12:71091877-71092887|chr12:71094134-71106835
Splice length:
244
Other database IDs:
circAtlas: mmu-Arid4a_0008
circAtlas: hsa-ARID4A_0017, CIRCpedia: HSA_CIRCpedia_113391
Human Ortholog IDs:
Mature spliced Sequence:
TTATTCTATAGCAAGAAAGGACATTAAGGAACTGGACATTCTCACTCTACCAGAATCTGAGCTCTGTGCTAGGCCAGGGCTGCGAAGAGCAAGTGTCTTCCTAAAAGGTAGGATTGTTCCTGATAATTGGAAAATGGATATAAGTGAAATCCTTGAGTCCTCCAGCAGTGATGACGAAGAATGCCCAGCTGAGGAACATGAAGAGGAGAAGGAAAAAGAGGCCAAAAAGGAGGAAGAAGAGCTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCTTGAGTCCTCCAGCAGTG
60.04
GCACAGAGCTCAGATTCTGGT
60.07
163
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCCTTGAGTCCTCCAGCAGT
60.18
GCACAGAGCTCAGATTCTGGT
60.07
164
PCR template sequence:
TGAAATCCTTGAGTCCTCCAGCAGTGATGACGAAGAATGCCCAGCTGAGGAACATGAAGAGGAGAAGGAAAAAGAGGCCAAAAAGGAGGAAGAAGAGCTGTTATTCTATAGCAAGAAAGGACATTAAGGAACTGGACATTCTCACTCTACCAGAATCTGAGCTCTGTGCTAGGCCAGGGCTGCGAAGAGCAAGTGTCTTC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
2
Interacting miRNAs (#binding sites)
mmu-miR-7b-5p(1), mmu-miR-7a-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GGAAGAAGAGCTGTTATTCTATAGCA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCARID4A_244_ORF_1
0.9473
0.239013927
0.445003573
318
ORF sequence:
ATGACGAAGAATGCCCAGCTGAGGAACATGAAGAGGAGAAGGAAAAAGAGGCCAAAAAGGAGGAAGAAGAGCTGTTATTCTATAGCAAGAAAGGACATTAAGGAACTGGACATTCTCACTCTACCAGAATCTGAGCTCTGTGCTAGGCCAGGGCTGCGAAGAGCAAGTGTCTTCCTAAAAGGTAGGATTGTTCCTGATAATTGGAAAATGGATATAAGTGAAATCCTTGAGTCCTCCAGCAGTGATGACGAAGAATGCCCAGCTGAGGAACATGAAGAGGAGAAGGAAAAAGAGGCCAAAAAGGAGGAAGAAGAGCTG
Peptide sequence:
MTKNAQLRNMKRRRKKRPKRRKKSCYSIARKDIKELDILTLPESELCARPGLRRASVFLKGRIVPDNWKMDISEILESSSSDDEECPAEEHEEEKEKEAKKEEEEL
IRESfinder result
IRESfinder score
0.339903851
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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