top of page
mmu_circAcbd6_376
Basic information of circular RNA
PanCircBase ID:
mmu_circAcbd6_376
mm39_Chr. Position ID:
chr1|155443330|155500704|+
Gene name:
Acbd6
Transcript:
ENSMUST00000035560.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
3,4,5,6
Exon/intron offsets:
0,33869,48282,57284
Genomic length:
57374
Exon/intron sizes in nt:
97,83,106,90
Flanking exon/introns:
chr1:155440467-155443330|chr1:155500704-155552949
Splice length:
376
Other database IDs:
circAtlas: mmu-Acbd6_0007
circBase: hsa_circ_0015507, circAtlas: hsa-SCAF8_0001
Human Ortholog IDs:
Mature spliced Sequence:
GGAGGCATGGAAAGCCCTCGGTGACTCAAGCCCTAGCCAAGCAATGCAGGAATATATCGCGGCAGTTAAAAAACTAGATCCAGGATGGAATCCTCAGGTATCAGAGAAGAAGGGAAAAGAAGGCAGTAGTGGTTTCGGTGGTCCGGTTGTTAGTTCTCTATATCATGAAGAAACAATCAGGGAAGAAGACAAAAACATATTTGATTACTGCAGGGAAAACAACATTGACCATATAGCCAAAGCCATCAAATCGAAAGCTGCGGATGTGAATATGACAGATGAAGAGGGCAGAGCTCTGCTCCACTGGGCATGTGACCGAGGACATAAGGAACTGGTGAAAGTCTTGCTACAGTATGAAGCTGGCATTAATTGTCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ATGAAGAGGGCAGAGCTCTG
59.17
TGCCGCGATATATTCCTGCA
59.68
162
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ATGAAGAGGGCAGAGCTCTG
59.17
TTGCTTGGCTAGGGCTTGAG
60.32
142
PCR template sequence:
AGATGAAGAGGGCAGAGCTCTGCTCCACTGGGCATGTGACCGAGGACATAAGGAACTGGTGAAAGTCTTGCTACAGTATGAAGCTGGCATTAATTGTCAGGGAGGCATGGAAAGCCCTCGGTGACTCAAGCCCTAGCCAAGCAATGCAGGAATATATCGCGGCAGTTAAAAAACTAGATCCAGGATGGAATCCTCAGGTA
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-135a-5p(1), mmu-miR-670-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CATTAATTGTCAGGGAGGCATGGAAA
siRNA sets
TTTCCATGCCTCCCTGACA, TTCCATGCCTCCCTGACAA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCACBD6_376_ORF_1
0.9995
0.149181958
0.521804748
399
ORF sequence:
ATGAAGCTGGCATTAATTGTCAGGGAGGCATGGAAAGCCCTCGGTGACTCAAGCCCTAGCCAAGCAATGCAGGAATATATCGCGGCAGTTAAAAAACTAGATCCAGGATGGAATCCTCAGGTATCAGAGAAGAAGGGAAAAGAAGGCAGTAGTGGTTTCGGTGGTCCGGTTGTTAGTTCTCTATATCATGAAGAAACAATCAGGGAAGAAGACAAAAACATATTTGATTACTGCAGGGAAAACAACATTGACCATATAGCCAAAGCCATCAAATCGAAAGCTGCGGATGTGAATATGACAGATGAAGAGGGCAGAGCTCTGCTCCACTGGGCATGTGACCGAGGACATAAGGAACTGGTGAAAGTCTTGCTACAGTATGAAGCTGGCATTAATTGTCAG
Peptide sequence:
MKLALIVREAWKALGDSSPSQAMQEYIAAVKKLDPGWNPQVSEKKGKEGSSGFGGPVVSSLYHEETIREEDKNIFDYCRENNIDHIAKAIKSKAADVNMTDEEGRALLHWACDRGHKELVKVLLQYEAGINCQ
IRESfinder result
IRESfinder score
0.34726378
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page