Takifugu rubripes
Japanese pufferfish
GC content
44.24%
Whole genome
Non-coding
888 bp
D-loop 821 bp
Where Japanese pufferfish sits among 2,335 species
Whole-genome GC content against maximum lifespan. Japanese pufferfish has the 1,663rd longest lifespan of them.
- This species
- Other ray-finned fishes
- Other classes
Base composition
Whole genome16,447 bp
- GC skew (G − C) / (G + C)
- −0.312
- AT skew (A − T) / (A + T)
- +0.072
About this record
- Lifespan source
- FishBase v26.06
- Based on
- an observed animal, origin not stated
- Data quality
- acceptable
- Licence
- CC BY-NC 4.0
- Status
- New in build 2
- In the database since
- build 2 (2026-11-13)
The lifespan value is for non-commercial use only; the genome data is not restricted by it.
Every change against the 2015 build is in the changelog download.
Composition by region
Reference (L) strand as deposited in RefSeqWhole genome16,447 bp
Protein-coding11,401 bp
12S rRNA947 bp
16S rRNA1,666 bp
All tRNA1,548 bp
D-loop821 bp
Genes and regions
Select a column to sort; select a gene to compare it across species| Composition | |||||||||
|---|---|---|---|---|---|---|---|---|---|
| ND1NADH dehydrogenase subunit 1 | 975 bp | 44.00% | −0.380 | +0.011 | |||||
| ND2NADH dehydrogenase subunit 2 | 1,047 bp | 43.84% | −0.490 | +0.122 | |||||
| COX1Cytochrome c oxidase subunit I | 1,546 bp | 47.15% | −0.240 | −0.043 | |||||
| COX2Cytochrome c oxidase subunit II | 691 bp | 44.72% | −0.327 | +0.021 | |||||
| ATP8ATP synthase F0 subunit 8 | 168 bp | 43.45% | −0.589 | +0.011 | |||||
| ATP6ATP synthase F0 subunit 6 | 684 bp | 45.61% | −0.449 | −0.005 | |||||
| COX3Cytochrome c oxidase subunit III | 786 bp | 47.58% | −0.337 | 0.000 | |||||
| ND3NADH dehydrogenase subunit 3 | 351 bp | 47.58% | −0.449 | −0.076 | |||||
| ND4LNADH dehydrogenase subunit 4L | 297 bp | 46.47% | −0.406 | −0.057 | |||||
| ND4NADH dehydrogenase subunit 4 | 1,381 bp | 46.49% | −0.383 | +0.015 | |||||
| ND5NADH dehydrogenase subunit 5 | 1,839 bp | 43.12% | −0.450 | +0.027 | |||||
| ND6NADH dehydrogenase subunit 6 | 522 bp | 42.72% | −0.408 | +0.405 | |||||
| CYTBCytochrome b | 1,137 bp | 45.21% | −0.374 | −0.027 | |||||
| 12S rRNA12S ribosomal RNA | 947 bp | 46.67% | −0.100 | +0.251 | |||||
| 16S rRNA16S ribosomal RNA | 1,666 bp | 42.80% | −0.114 | +0.228 | |||||
| D-loopControl region (D-loop) | 821 bp | 32.03% | −0.171 | +0.039 |
Codon usage
Counts per codon, darker is more frequent3,807 codons in all protein-coding genes. Grouped with the Vertebrate mitochondrial code (NCBI table 2).
Phe F5.9%
UUU76
UUC150
Leu L17.2%
UUA98
UUG25
CUU136
CUC139
CUA208
CUG47
Ile I7.8%
AUU145
AUC153
Met M4.4%
AUA113
AUG55
Val V5.5%
GUU55
GUC62
GUA77
GUG16
Ser S6.7%
UCU51
UCC78
UCA73
UCG4
AGU8
AGC41
Pro P5.8%
CCU53
CCC88
CCA75
CCG6
Thr T8.1%
ACU48
ACC124
ACA129
ACG6
Ala A8.2%
GCU59
GCC150
GCA98
GCG6
Tyr Y2.9%
UAU29
UAC80
His H2.7%
CAU15
CAC89
Gln Q2.7%
CAA91
CAG11
Asn N3.3%
AAU42
AAC84
Lys K2.0%
AAA69
AAG9
Asp D2.0%
GAU21
GAC55
Glu E2.6%
GAA86
GAG13
Cys C0.7%
UGU7
UGC21
Trp W3.0%
UGA107
UGG9
Arg R1.9%
CGU9
CGC12
CGA50
CGG3
Gly G6.1%
GGU38
GGC79
GGA83
GGG33
Stop 0.3%
UAA8
UAG1
AGA0
AGG1
Genome map
38 annotated features in NC_004299.1Hover, 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 (44.2%, 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 | 1,015 | 947 bp | + | 46.7% |
| tRNA-Val | Transfer RNA | 1,016 | 1,089 | 74 bp | + | – |
| 16S rRNA | Ribosomal RNA | 1,090 | 2,755 | 1,666 bp | + | 42.8% |
| tRNA-Leu (UUR) | Transfer RNA | 2,756 | 2,828 | 73 bp | + | – |
| ND1 | Protein-coding gene | 2,829 | 3,803 | 975 bp | + | 44.0% |
| tRNA-Ile | Transfer RNA | 3,806 | 3,875 | 70 bp | + | – |
| tRNA-Gln | Transfer RNA | 3,875 | 3,945 | 71 bp | − | – |
| tRNA-Met | Transfer RNA | 3,945 | 4,013 | 69 bp | + | – |
| ND2 | Protein-coding gene | 4,014 | 5,060 | 1,047 bp | + | 43.8% |
| tRNA-Trp | Transfer RNA | 5,060 | 5,130 | 71 bp | + | – |
| tRNA-Ala | Transfer RNA | 5,132 | 5,200 | 69 bp | + | – |
| tRNA-Asn | Transfer RNA | 5,203 | 5,276 | 74 bp | − | – |
| tRNA-Cys | Transfer RNA | 5,311 | 5,374 | 64 bp | − | – |
| tRNA-Tyr | Transfer RNA | 5,374 | 5,443 | 70 bp | + | – |
| COX1 | Protein-coding gene | 5,445 | 6,990 | 1,546 bp | + | 47.2% |
| tRNA-Ser (UCN) | Transfer RNA | 6,996 | 7,066 | 71 bp | − | – |
| tRNA-Asp | Transfer RNA | 7,070 | 7,141 | 72 bp | + | – |
| COX2 | Protein-coding gene | 7,148 | 7,838 | 691 bp | + | 44.7% |
| tRNA-Lys | Transfer RNA | 7,839 | 7,911 | 73 bp | + | – |
| ATP8 | Protein-coding gene | 7,913 | 8,080 | 168 bp | + | 43.5% |
| ATP6 | Protein-coding gene | 8,071 | 8,754 | 684 bp | + | 45.6% |
| COX3 | Protein-coding gene | 8,754 | 9,539 | 786 bp | + | 47.6% |
| tRNA-Gly | Transfer RNA | 9,540 | 9,610 | 71 bp | + | – |
| ND3 | Protein-coding gene | 9,611 | 9,961 | 351 bp | + | 47.6% |
| tRNA-Arg | Transfer RNA | 9,960 | 10,029 | 70 bp | + | – |
| ND4L | Protein-coding gene | 10,030 | 10,326 | 297 bp | + | 46.5% |
| ND4 | Protein-coding gene | 10,320 | 11,700 | 1,381 bp | + | 46.5% |
| tRNA-His | Transfer RNA | 11,701 | 11,769 | 69 bp | + | – |
| tRNA-Ser (AGY) | Transfer RNA | 11,770 | 11,837 | 68 bp | + | – |
| tRNA-Leu (CUN) | Transfer RNA | 11,843 | 11,915 | 73 bp | + | – |
| ND5 | Protein-coding gene | 11,916 | 13,754 | 1,839 bp | + | 43.1% |
| ND6 | Protein-coding gene | 13,750 | 14,271 | 522 bp | − | 42.7% |
| tRNA-Glu | Transfer RNA | 14,272 | 14,340 | 69 bp | − | – |
| CYTB | Protein-coding gene | 14,345 | 15,481 | 1,137 bp | + | 45.2% |
| tRNA-Thr | Transfer RNA | 15,485 | 15,556 | 72 bp | + | – |
| tRNA-Pro | Transfer RNA | 15,556 | 15,626 | 71 bp | − | – |
| D-loop | Control region | 15,627 | 16,447 | 821 bp | – | 32.0% |