Plagiogeneion rubiginosum
Rubyfish
GC content
45.48%
Whole genome
Non-coding
993 bp
D-loop 926 bp
Where Rubyfish sits among 2,335 species
Whole-genome GC content against maximum lifespan. Rubyfish has the 1,613th longest lifespan of them.
- This species
- Other ray-finned fishes
- Other classes
Base composition
Whole genome16,598 bp
- GC skew (G − C) / (G + C)
- −0.268
- AT skew (A − T) / (A + T)
- +0.037
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 genome16,598 bp
Protein-coding11,408 bp
12S rRNA948 bp
16S rRNA1,697 bp
All tRNA1,552 bp
D-loop926 bp
Genes and regions
Select a column to sort; select a gene to compare it across species| Composition | |||||||||
|---|---|---|---|---|---|---|---|---|---|
| ND1NADH dehydrogenase subunit 1 | 975 bp | 45.03% | −0.339 | −0.037 | |||||
| ND2NADH dehydrogenase subunit 2 | 1,046 bp | 48.57% | −0.453 | +0.026 | |||||
| COX1Cytochrome c oxidase subunit I | 1,551 bp | 44.94% | −0.179 | −0.112 | |||||
| COX2Cytochrome c oxidase subunit II | 691 bp | 44.57% | −0.286 | +0.003 | |||||
| ATP8ATP synthase F0 subunit 8 | 168 bp | 45.83% | −0.506 | +0.121 | |||||
| ATP6ATP synthase F0 subunit 6 | 684 bp | 46.49% | −0.421 | −0.044 | |||||
| COX3Cytochrome c oxidase subunit III | 785 bp | 47.39% | −0.285 | −0.022 | |||||
| ND3NADH dehydrogenase subunit 3 | 349 bp | 49.00% | −0.345 | −0.258 | |||||
| ND4LNADH dehydrogenase subunit 4L | 297 bp | 46.80% | −0.367 | −0.089 | |||||
| ND4NADH dehydrogenase subunit 4 | 1,381 bp | 45.62% | −0.349 | +0.015 | |||||
| ND5NADH dehydrogenase subunit 5 | 1,839 bp | 44.54% | −0.385 | +0.027 | |||||
| ND6NADH dehydrogenase subunit 6 | 522 bp | 43.10% | −0.378 | +0.387 | |||||
| CYTBCytochrome b | 1,142 bp | 45.80% | −0.331 | −0.076 | |||||
| 12S rRNA12S ribosomal RNA | 948 bp | 47.89% | −0.062 | +0.174 | |||||
| 16S rRNA16S ribosomal RNA | 1,697 bp | 46.14% | −0.106 | +0.221 | |||||
| D-loopControl region (D-loop) | 926 bp | 38.45% | −0.129 | +0.014 |
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 F6.1%
UUU98
UUC136
Leu L17.3%
UUA97
UUG16
CUU153
CUC148
CUA197
CUG47
Ile I6.9%
AUU161
AUC102
Met M4.1%
AUA78
AUG77
Val V6.0%
GUU76
GUC58
GUA71
GUG22
Ser S6.4%
UCU40
UCC71
UCA68
UCG11
AGU16
AGC39
Pro P5.8%
CCU52
CCC100
CCA62
CCG8
Thr T7.9%
ACU56
ACC120
ACA110
ACG14
Ala A9.2%
GCU65
GCC155
GCA117
GCG12
Tyr Y2.9%
UAU50
UAC60
His H2.8%
CAU33
CAC73
Gln Q2.6%
CAA87
CAG13
Asn N3.2%
AAU45
AAC78
Lys K1.9%
AAA68
AAG6
Asp D1.9%
GAU13
GAC59
Glu E2.7%
GAA76
GAG25
Cys C0.6%
UGU6
UGC17
Trp W3.1%
UGA104
UGG15
Arg R2.0%
CGU10
CGC10
CGA48
CGG9
Gly G6.4%
GGU38
GGC78
GGA97
GGG29
Stop 0.2%
UAA7
UAG0
AGA0
AGG0
Genome map
38 annotated features in NC_088582.1Hover, 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 (45.5%, 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 | 1,016 | 948 bp | + | 47.9% |
| tRNA-Val | Transfer RNA | 1,017 | 1,088 | 72 bp | + | – |
| 16S rRNA | Ribosomal RNA | 1,089 | 2,785 | 1,697 bp | + | 46.1% |
| tRNA-Leu (UUR) | Transfer RNA | 2,786 | 2,859 | 74 bp | + | – |
| ND1 | Protein-coding gene | 2,860 | 3,834 | 975 bp | + | 45.0% |
| tRNA-Ile | Transfer RNA | 3,840 | 3,909 | 70 bp | + | – |
| tRNA-Gln | Transfer RNA | 3,909 | 3,979 | 71 bp | − | – |
| tRNA-Met | Transfer RNA | 3,979 | 4,047 | 69 bp | + | – |
| ND2 | Protein-coding gene | 4,048 | 5,093 | 1,046 bp | + | 48.6% |
| tRNA-Trp | Transfer RNA | 5,094 | 5,165 | 72 bp | + | – |
| tRNA-Ala | Transfer RNA | 5,166 | 5,234 | 69 bp | − | – |
| tRNA-Asn | Transfer RNA | 5,236 | 5,308 | 73 bp | − | – |
| tRNA-Cys | Transfer RNA | 5,348 | 5,414 | 67 bp | − | – |
| tRNA-Tyr | Transfer RNA | 5,415 | 5,485 | 71 bp | − | – |
| COX1 | Protein-coding gene | 5,487 | 7,037 | 1,551 bp | + | 44.9% |
| tRNA-Ser (UCN) | Transfer RNA | 7,039 | 7,109 | 71 bp | − | – |
| tRNA-Asp | Transfer RNA | 7,113 | 7,183 | 71 bp | + | – |
| COX2 | Protein-coding gene | 7,192 | 7,882 | 691 bp | + | 44.6% |
| tRNA-Lys | Transfer RNA | 7,883 | 7,957 | 75 bp | + | – |
| ATP8 | Protein-coding gene | 7,959 | 8,126 | 168 bp | + | 45.8% |
| ATP6 | Protein-coding gene | 8,117 | 8,800 | 684 bp | + | 46.5% |
| COX3 | Protein-coding gene | 8,800 | 9,584 | 785 bp | + | 47.4% |
| tRNA-Gly | Transfer RNA | 9,585 | 9,656 | 72 bp | + | – |
| ND3 | Protein-coding gene | 9,657 | 10,005 | 349 bp | + | 49.0% |
| tRNA-Arg | Transfer RNA | 10,006 | 10,074 | 69 bp | + | – |
| ND4L | Protein-coding gene | 10,075 | 10,371 | 297 bp | + | 46.8% |
| ND4 | Protein-coding gene | 10,365 | 11,745 | 1,381 bp | + | 45.6% |
| tRNA-His | Transfer RNA | 11,746 | 11,814 | 69 bp | + | – |
| tRNA-Ser (AGY) | Transfer RNA | 11,815 | 11,882 | 68 bp | + | – |
| tRNA-Leu (CUN) | Transfer RNA | 11,887 | 11,959 | 73 bp | + | – |
| ND5 | Protein-coding gene | 11,960 | 13,798 | 1,839 bp | + | 44.5% |
| ND6 | Protein-coding gene | 13,795 | 14,316 | 522 bp | − | 43.1% |
| tRNA-Glu | Transfer RNA | 14,317 | 14,385 | 69 bp | − | – |
| CYTB | Protein-coding gene | 14,390 | 15,531 | 1,142 bp | + | 45.8% |
| tRNA-Thr | Transfer RNA | 15,532 | 15,603 | 72 bp | + | – |
| tRNA-Pro | Transfer RNA | 15,603 | 15,672 | 70 bp | − | – |
| D-loop | Control region | 15,673 | 16,598 | 926 bp | – | 38.5% |