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mmu_circArv1_524
Basic information of circular RNA
PanCircBase ID:
mmu_circArv1_524
mm39_Chr. Position ID:
chr8|125455067|125458680|+
Gene name:
Arv1
Transcript:
ENSMUST00000034463.4
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
3,4,5
Exon/intron offsets:
0,2463,3468
Genomic length:
3613
Exon/intron sizes in nt:
15,42,25,145
Flanking exon/introns:
chr8:125452114-125455067|chr8:125458680-125460545
Splice length:
524
Other database IDs:
circAtlas: hsa-ARV1_0011
Human Ortholog IDs:
Mature spliced Sequence:
ATCCATGGGAAACTCTGCATGTTTTGTTTGCTTTGTGAAGCATACCTGCGGTGGTGGCAGCTGCAGGACTCGAGCCAGAGTCCAGCCCCCGATGACGTGATCCGGTACGCCAAGGAGTGGGACTTCTACAGGATGTTTGTGATCGCTTCTTTCGAACAAGCTGCCTTTCTTACTGGCATATTTGCTTTCCTGTGGGTACAGCAACCCATGACAGCAAAAAGAGCACCCGACTTTGTTCTGCTGCTGAAAGCACTGTTGCTGTCCAGCTACGGGAAGCTCCTGCTAATCCCGGCCGTCATCTGGGAACATGACTACACACCTCTGTGTCTCAGGCTCATTAAAGTGTTTGTCCTGACCTCAAATTTCCAGGCAGTCAGAGTGACCCTGAACACAAACCGGAGGCTCTCCCTGTTGGTCGTGCTAAGTGGCTTACTGCTGGAGAGCATTGTGGTCTTCTTCTTCCAGAGGATGGAGTGGGATGTGAGCAGTGACTGTGCGCTCTACAAGTCTCAGGACTTCTGAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGATGGAGTGGGATGTGAGC
60.18
GCTGGACTCTGGCTCGAGT
61.35
144
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGATGGAGTGGGATGTGAGC
60.18
GCTGGACTCTGGCTCGAG
59.51
144
PCR template sequence:
GTGGCTTACTGCTGGAGAGCATTGTGGTCTTCTTCTTCCAGAGGATGGAGTGGGATGTGAGCAGTGACTGTGCGCTCTACAAGTCTCAGGACTTCTGAAGATCCATGGGAAACTCTGCATGTTTTGTTTGCTTTGTGAAGCATACCTGCGGTGGTGGCAGCTGCAGGACTCGAGCCAGAGTCCAGCCCCCGATGACGTGA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
7
Interacting miRNAs (#binding sites)
mmu-miR-16-5p(1), mmu-miR-15a-5p(1), mmu-miR-15b-5p(1), mmu-miR-149-5p(1), mmu-miR-676-3p(1), mmu-miR-129-5p(1), mmu-miR-350-3p(1)
siRNAs for circular RNA silencing
Junction sequence
AGGACTTCTGAAGATCCATGGGAAAC
siRNA sets
TTTCCCATGGATCTTCAGA,GTTTCCCATGGATCTTCAG
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
0.449698728
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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