Oryzias sinensis
Chinese medaka
GC content
43.62%
Whole genome
Non-coding
1,081 bp
D-loop 1,014 bp
Where Chinese medaka sits among 2,335 species
Whole-genome GC content against maximum lifespan. Chinese medaka has the 2,314th longest lifespan of them.
- This species
- Other ray-finned fishes
- Other classes
Base composition
Whole genome16,654 bp
- GC skew (G − C) / (G + C)
- −0.200
- AT skew (A − T) / (A + T)
- −0.014
About this record
- Lifespan source
- FishBase v26.06
- Based on
- an animal in the wild
- 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 genome16,654 bp
Protein-coding11,417 bp
12S rRNA942 bp
16S rRNA1,673 bp
All tRNA1,541 bp
D-loop1,014 bp
Genes and regions
Select a column to sort; select a gene to compare it across species| Composition | |||||||||
|---|---|---|---|---|---|---|---|---|---|
| ND1NADH dehydrogenase subunit 1 | 975 bp | 43.69% | −0.263 | −0.122 | |||||
| ND2NADH dehydrogenase subunit 2 | 1,052 bp | 45.91% | −0.350 | −0.093 | |||||
| COX1Cytochrome c oxidase subunit I | 1,557 bp | 43.55% | −0.159 | −0.122 | |||||
| COX2Cytochrome c oxidase subunit II | 691 bp | 42.84% | −0.176 | −0.073 | |||||
| ATP8ATP synthase F0 subunit 8 | 168 bp | 39.29% | −0.485 | +0.020 | |||||
| ATP6ATP synthase F0 subunit 6 | 684 bp | 42.25% | −0.266 | −0.104 | |||||
| COX3Cytochrome c oxidase subunit III | 784 bp | 46.05% | −0.230 | −0.102 | |||||
| ND3NADH dehydrogenase subunit 3 | 349 bp | 46.13% | −0.230 | −0.298 | |||||
| ND4LNADH dehydrogenase subunit 4L | 297 bp | 43.43% | −0.225 | −0.179 | |||||
| ND4NADH dehydrogenase subunit 4 | 1,381 bp | 44.90% | −0.297 | −0.078 | |||||
| ND5NADH dehydrogenase subunit 5 | 1,839 bp | 42.20% | −0.245 | −0.050 | |||||
| ND6NADH dehydrogenase subunit 6 | 522 bp | 43.49% | −0.278 | +0.383 | |||||
| CYTBCytochrome b | 1,141 bp | 44.96% | −0.267 | −0.099 | |||||
| 12S rRNA12S ribosomal RNA | 942 bp | 43.21% | −0.037 | +0.193 | |||||
| 16S rRNA16S ribosomal RNA | 1,673 bp | 40.77% | −0.006 | +0.177 | |||||
| D-loopControl region (D-loop) | 1,014 bp | 44.77% | −0.172 | −0.029 |
Codon usage
Counts per codon, darker is more frequent3,811 codons in all protein-coding genes. Grouped with the Vertebrate mitochondrial code (NCBI table 2).
Phe F6.6%
UUU142
UUC110
Leu L17.2%
UUA147
UUG31
CUU155
CUC114
CUA157
CUG53
Ile I6.7%
AUU181
AUC76
Met M4.5%
AUA112
AUG59
Val V6.4%
GUU79
GUC61
GUA66
GUG37
Ser S7.2%
UCU64
UCC65
UCA73
UCG14
AGU18
AGC41
Pro P5.5%
CCU75
CCC71
CCA54
CCG11
Thr T7.2%
ACU57
ACC98
ACA103
ACG15
Ala A8.5%
GCU77
GCC113
GCA118
GCG16
Tyr Y2.8%
UAU54
UAC52
His H2.7%
CAU39
CAC64
Gln Q2.5%
CAA68
CAG29
Asn N3.0%
AAU42
AAC72
Lys K2.1%
AAA65
AAG16
Asp D1.9%
GAU23
GAC51
Glu E2.6%
GAA71
GAG29
Cys C0.8%
UGU14
UGC16
Trp W3.1%
UGA78
UGG39
Arg R1.9%
CGU12
CGC14
CGA34
CGG14
Gly G6.4%
GGU40
GGC80
GGA61
GGG64
Stop 0.2%
UAA6
UAG0
AGA1
AGG0
Genome map
38 annotated features in NC_013434.1Hover, 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 (43.6%, 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 | 69 | 69 bp | + | – |
| 12S rRNA | Ribosomal RNA | 70 | 1,011 | 942 bp | + | 43.2% |
| tRNA-Val | Transfer RNA | 1,012 | 1,083 | 72 bp | + | – |
| 16S rRNA | Ribosomal RNA | 1,084 | 2,756 | 1,673 bp | + | 40.8% |
| tRNA-Leu (UUR) | Transfer RNA | 2,757 | 2,830 | 74 bp | + | – |
| ND1 | Protein-coding gene | 2,831 | 3,805 | 975 bp | + | 43.7% |
| tRNA-Ile | Transfer RNA | 3,809 | 3,876 | 68 bp | + | – |
| tRNA-Gln | Transfer RNA | 3,876 | 3,946 | 71 bp | − | – |
| tRNA-Met | Transfer RNA | 3,946 | 4,015 | 70 bp | + | – |
| ND2 | Protein-coding gene | 4,016 | 5,067 | 1,052 bp | + | 45.9% |
| tRNA-Trp | Transfer RNA | 5,068 | 5,137 | 70 bp | + | – |
| tRNA-Ala | Transfer RNA | 5,139 | 5,209 | 71 bp | − | – |
| tRNA-Asn | Transfer RNA | 5,209 | 5,281 | 73 bp | − | – |
| tRNA-Cys | Transfer RNA | 5,318 | 5,382 | 65 bp | − | – |
| tRNA-Tyr | Transfer RNA | 5,382 | 5,451 | 70 bp | − | – |
| COX1 | Protein-coding gene | 5,453 | 7,009 | 1,557 bp | + | 43.6% |
| tRNA-Ser (UCN) | Transfer RNA | 7,012 | 7,080 | 69 bp | − | – |
| tRNA-Asp | Transfer RNA | 7,094 | 7,162 | 69 bp | + | – |
| COX2 | Protein-coding gene | 7,166 | 7,856 | 691 bp | + | 42.8% |
| tRNA-Lys | Transfer RNA | 7,857 | 7,929 | 73 bp | + | – |
| ATP8 | Protein-coding gene | 7,931 | 8,098 | 168 bp | + | 39.3% |
| ATP6 | Protein-coding gene | 8,089 | 8,772 | 684 bp | + | 42.3% |
| COX3 | Protein-coding gene | 8,772 | 9,555 | 784 bp | + | 46.1% |
| tRNA-Gly | Transfer RNA | 9,556 | 9,625 | 70 bp | + | – |
| ND3 | Protein-coding gene | 9,626 | 9,974 | 349 bp | + | 46.1% |
| tRNA-Arg | Transfer RNA | 9,975 | 10,043 | 69 bp | + | – |
| ND4L | Protein-coding gene | 10,044 | 10,340 | 297 bp | + | 43.4% |
| ND4 | Protein-coding gene | 10,334 | 11,714 | 1,381 bp | + | 44.9% |
| tRNA-His | Transfer RNA | 11,715 | 11,785 | 71 bp | + | – |
| tRNA-Ser (AGY) | Transfer RNA | 11,786 | 11,854 | 69 bp | + | – |
| tRNA-Leu (CUN) | Transfer RNA | 11,859 | 11,931 | 73 bp | + | – |
| ND5 | Protein-coding gene | 11,932 | 13,770 | 1,839 bp | + | 42.2% |
| ND6 | Protein-coding gene | 13,766 | 14,287 | 522 bp | − | 43.5% |
| tRNA-Glu | Transfer RNA | 14,288 | 14,355 | 68 bp | − | – |
| CYTB | Protein-coding gene | 14,359 | 15,499 | 1,141 bp | + | 45.0% |
| tRNA-Thr | Transfer RNA | 15,500 | 15,572 | 73 bp | + | – |
| tRNA-Pro | Transfer RNA | 15,573 | 15,640 | 68 bp | − | – |
| D-loop | Control region | 15,641 | 16,654 | 1,014 bp | – | 44.8% |