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mmu_circArv1_274
Basic information of circular RNA
PanCircBase ID:
mmu_circArv1_274
mm39_Chr. Position ID:
chr8|125451994|125455221|+
Gene name:
Arv1
Transcript:
ENSMUST00000034463.4
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
2,3
Exon/intron offsets:
0,3073
Genomic length:
3227
Exon/intron sizes in nt:
1,20,154
Flanking exon/introns:
chr8:125449081-125451994|chr8:125455221-125457530
Splice length:
274
Other database IDs:
circBase: mmu_circ_0014675, CIRCpedia: MMU_CIRCpedia_38076, circAtlas: mmu-Arv1_0002
circAtlas: hsa-ARV1_0004
Human Ortholog IDs:
Mature spliced Sequence:
AAATCCTGCCAGAAACCAGTAGACAAATACATCGAATACGACCCTGTTATTATCTTGATTAATGCCATTTTATGCAAAACTCAGGCCTACAGGCATATTCTTTTCAACACTAAAATAAATATCCATGGGAAACTCTGCATGTTTTGTTTGCTTTGTGAAGCATACCTGCGGTGGTGGCAGCTGCAGGACTCGAGCCAGAGTCCAGCCCCCGATGACGTGATCCGGTACGCCAAGGAGTGGGACTTCTACAGGATGTTTGTGATCGCTTCTTTCG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCGATGACGTGATCCGGTAC
60.32
CCTGTAGGCCTGAGTTTTGC
58.83
159
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CGATGACGTGATCCGGTACG
60.66
CCTGTAGGCCTGAGTTTTGC
58.83
158
PCR template sequence:
TGGCAGCTGCAGGACTCGAGCCAGAGTCCAGCCCCCGATGACGTGATCCGGTACGCCAAGGAGTGGGACTTCTACAGGATGTTTGTGATCGCTTCTTTCGAAATCCTGCCAGAAACCAGTAGACAAATACATCGAATACGACCCTGTTATTATCTTGATTAATGCCATTTTATGCAAAACTCAGGCCTACAGGCATATTC
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-149-5p(1), mmu-miR-29b-1-5p(1), mmu-miR-350-3p(1)
siRNAs for circular RNA silencing
Junction sequence
ATCGCTTCTTTCGAAATCCTGCCAGA
siRNA sets
GCAGGATTTCGAAAGAAGC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCARV1_274_ORF_1
0.6256
0.176310271
0.125331618
198
ORF sequence:
ATGTTTTGTTTGCTTTGTGAAGCATACCTGCGGTGGTGGCAGCTGCAGGACTCGAGCCAGAGTCCAGCCCCCGATGACGTGATCCGGTACGCCAAGGAGTGGGACTTCTACAGGATGTTTGTGATCGCTTCTTTCGAAATCCTGCCAGAAACCAGTAGACAAATACATCGAATACGACCCTGTTATTATCTTGATTAA
Peptide sequence:
MFCLLCEAYLRWWQLQDSSQSPAPDDVIRYAKEWDFYRMFVIASFEILPETSRQIHRIRPCYYLD
IRESfinder result
IRESfinder score
0.461576274
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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