Plecoglossus altivelis
Ayu
GC content
50.64%
Whole genome
Non-coding
915 bp
D-loop 857 bp
Where Ayu sits among 2,335 species
Whole-genome GC content against maximum lifespan. Ayu has the 2,184th longest lifespan of them.
- This species
- Other ray-finned fishes
- Other classes
Base composition
Whole genome16,542 bp
- GC skew (G − C) / (G + C)
- −0.222
- AT skew (A − T) / (A + T)
- −0.054
About this record
- Lifespan source
- AnAge build 15
- Based on
- an observed animal, origin not stated
- Data quality
- acceptable, medium sample
- Licence
- Free to use, subject to the Human Ageing Genomic Resources conditions of use
- Status
- Unchanged since build 1
- In the database since
- build 1 (2015-07-01)
Every change against the 2015 build is in the changelog download.
Composition by region
Reference (L) strand as deposited in RefSeqWhole genome16,542 bp
Protein-coding11,413 bp
12S rRNA945 bp
16S rRNA1,713 bp
All tRNA1,557 bp
D-loop857 bp
Genes and regions
Select a column to sort; select a gene to compare it across species| Composition | |||||||||
|---|---|---|---|---|---|---|---|---|---|
| ND1NADH dehydrogenase subunit 1 | 975 bp | 52.92% | −0.267 | −0.259 | |||||
| ND2NADH dehydrogenase subunit 2 | 1,051 bp | 54.04% | −0.327 | −0.230 | |||||
| COX1Cytochrome c oxidase subunit I | 1,551 bp | 49.52% | −0.216 | −0.121 | |||||
| COX2Cytochrome c oxidase subunit II | 691 bp | 50.65% | −0.263 | −0.015 | |||||
| ATP8ATP synthase F0 subunit 8 | 168 bp | 46.43% | −0.410 | 0.000 | |||||
| ATP6ATP synthase F0 subunit 6 | 684 bp | 51.75% | −0.395 | −0.145 | |||||
| COX3Cytochrome c oxidase subunit III | 786 bp | 51.78% | −0.224 | −0.145 | |||||
| ND3NADH dehydrogenase subunit 3 | 349 bp | 52.44% | −0.213 | −0.349 | |||||
| ND4LNADH dehydrogenase subunit 4L | 297 bp | 55.89% | −0.349 | −0.191 | |||||
| ND4NADH dehydrogenase subunit 4 | 1,381 bp | 52.64% | −0.254 | −0.113 | |||||
| ND5NADH dehydrogenase subunit 5 | 1,839 bp | 50.35% | −0.300 | −0.128 | |||||
| ND6NADH dehydrogenase subunit 6 | 522 bp | 58.24% | −0.329 | +0.404 | |||||
| CYTBCytochrome b | 1,141 bp | 50.57% | −0.276 | −0.202 | |||||
| 12S rRNA12S ribosomal RNA | 945 bp | 50.90% | −0.056 | +0.129 | |||||
| 16S rRNA16S ribosomal RNA | 1,713 bp | 49.50% | −0.054 | +0.179 | |||||
| D-loopControl region (D-loop) | 857 bp | 40.96% | −0.162 | +0.004 |
Codon usage
Counts per codon, darker is more frequent3,810 codons in all protein-coding genes. Grouped with the Vertebrate mitochondrial code (NCBI table 2).
Phe F6.2%
UUU93
UUC144
Leu L16.8%
UUA40
UUG39
CUU180
CUC198
CUA103
CUG81
Ile I6.9%
AUU112
AUC152
Met M3.7%
AUA37
AUG104
Val V6.5%
GUU67
GUC87
GUA47
GUG47
Ser S7.0%
UCU58
UCC93
UCA43
UCG17
AGU11
AGC44
Pro P5.5%
CCU65
CCC101
CCA32
CCG13
Thr T7.1%
ACU71
ACC128
ACA56
ACG17
Ala A9.9%
GCU104
GCC174
GCA65
GCG33
Tyr Y2.8%
UAU21
UAC87
His H2.7%
CAU19
CAC84
Gln Q2.5%
CAA49
CAG46
Asn N3.0%
AAU19
AAC94
Lys K2.0%
AAA34
AAG41
Asp D1.9%
GAU18
GAC56
Glu E2.7%
GAA47
GAG56
Cys C0.7%
UGU8
UGC20
Trp W3.2%
UGA72
UGG49
Arg R2.0%
CGU9
CGC22
CGA25
CGG20
Gly G6.6%
GGU27
GGC93
GGA45
GGG85
Stop 0.2%
UAA7
UAG1
AGA0
AGG0
Genome map
38 annotated features in NC_002734.2Hover, tap or tab to a feature to see its position, length, strand and GC content. Genes and rRNAs open their own pages.
- Protein-coding13
- rRNA2
- tRNA22
- D-loop1
- Outer ring: + strand, arrows run clockwise. Inner ring: − strand.
- Middle ring: GC% of each gene against the whole genome (50.6%, dashed): out is GC-richer, in is AT-richer (full height = 6 points).
All 38 features as a table
| Feature | Type | Start | End | Length | Strand | GC |
|---|---|---|---|---|---|---|
| tRNA-Phe | Transfer RNA | 1 | 68 | 68 bp | + | – |
| 12S rRNA | Ribosomal RNA | 69 | 1,013 | 945 bp | + | 50.9% |
| tRNA-Val | Transfer RNA | 1,014 | 1,084 | 71 bp | + | – |
| 16S rRNA | Ribosomal RNA | 1,085 | 2,797 | 1,713 bp | + | 49.5% |
| tRNA-Leu (UUR) | Transfer RNA | 2,798 | 2,875 | 78 bp | + | – |
| ND1 | Protein-coding gene | 2,876 | 3,850 | 975 bp | + | 52.9% |
| tRNA-Ile | Transfer RNA | 3,852 | 3,923 | 72 bp | + | – |
| tRNA-Gln | Transfer RNA | 3,923 | 3,993 | 71 bp | − | – |
| tRNA-Met | Transfer RNA | 3,993 | 4,061 | 69 bp | + | – |
| ND2 | Protein-coding gene | 4,066 | 5,116 | 1,051 bp | + | 54.0% |
| tRNA-Trp | Transfer RNA | 5,117 | 5,188 | 72 bp | + | – |
| tRNA-Ala | Transfer RNA | 5,190 | 5,258 | 69 bp | − | – |
| tRNA-Asn | Transfer RNA | 5,260 | 5,332 | 73 bp | − | – |
| tRNA-Cys | Transfer RNA | 5,361 | 5,426 | 66 bp | − | – |
| tRNA-Tyr | Transfer RNA | 5,426 | 5,494 | 69 bp | − | – |
| COX1 | Protein-coding gene | 5,496 | 7,046 | 1,551 bp | + | 49.5% |
| tRNA-Ser (UCN) | Transfer RNA | 7,047 | 7,117 | 71 bp | − | – |
| tRNA-Asp | Transfer RNA | 7,122 | 7,193 | 72 bp | + | – |
| COX2 | Protein-coding gene | 7,208 | 7,898 | 691 bp | + | 50.7% |
| tRNA-Lys | Transfer RNA | 7,899 | 7,973 | 75 bp | + | – |
| ATP8 | Protein-coding gene | 7,975 | 8,142 | 168 bp | + | 46.4% |
| ATP6 | Protein-coding gene | 8,133 | 8,816 | 684 bp | + | 51.8% |
| COX3 | Protein-coding gene | 8,816 | 9,601 | 786 bp | + | 51.8% |
| tRNA-Gly | Transfer RNA | 9,601 | 9,671 | 71 bp | + | – |
| ND3 | Protein-coding gene | 9,672 | 10,020 | 349 bp | + | 52.4% |
| tRNA-Arg | Transfer RNA | 10,021 | 10,090 | 70 bp | + | – |
| ND4L | Protein-coding gene | 10,091 | 10,387 | 297 bp | + | 55.9% |
| ND4 | Protein-coding gene | 10,381 | 11,761 | 1,381 bp | + | 52.6% |
| tRNA-His | Transfer RNA | 11,762 | 11,831 | 70 bp | + | – |
| tRNA-Ser (AGY) | Transfer RNA | 11,831 | 11,900 | 70 bp | + | – |
| tRNA-Leu (CUN) | Transfer RNA | 11,900 | 11,973 | 74 bp | + | – |
| ND5 | Protein-coding gene | 11,974 | 13,812 | 1,839 bp | + | 50.4% |
| ND6 | Protein-coding gene | 13,809 | 14,330 | 522 bp | − | 58.2% |
| tRNA-Glu | Transfer RNA | 14,331 | 14,400 | 70 bp | − | – |
| CYTB | Protein-coding gene | 14,404 | 15,544 | 1,141 bp | + | 50.6% |
| tRNA-Thr | Transfer RNA | 15,545 | 15,616 | 72 bp | + | – |
| tRNA-Pro | Transfer RNA | 15,616 | 15,685 | 70 bp | − | – |
| D-loop | Control region | 15,686 | 16,542 | 857 bp | – | 41.0% |