Xenomystus nigri
African knifefish
GC content
45.25%
Whole genome
Non-coding
1,005 bp
D-loop 943 bp
Where African knifefish sits among 2,335 species
Whole-genome GC content against maximum lifespan. African knifefish has the 1,472nd longest lifespan of them.
- This species
- Other ray-finned fishes
- Other classes
Base composition
Whole genome16,635 bp
- GC skew (G − C) / (G + C)
- −0.292
- AT skew (A − T) / (A + T)
- +0.108
About this record
- Lifespan source
- AnAge build 15
- Based on
- an animal in captivity
- 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 genome16,635 bp
Protein-coding11,400 bp
12S rRNA978 bp
16S rRNA1,698 bp
All tRNA1,554 bp
D-loop943 bp
Genes and regions
Select a column to sort; select a gene to compare it across species| Composition | |||||||||
|---|---|---|---|---|---|---|---|---|---|
| ND1NADH dehydrogenase subunit 1 | 975 bp | 45.13% | −0.355 | +0.058 | |||||
| ND2NADH dehydrogenase subunit 2 | 1,045 bp | 44.21% | −0.485 | +0.184 | |||||
| COX1Cytochrome c oxidase subunit I | 1,548 bp | 47.93% | −0.221 | −0.012 | |||||
| COX2Cytochrome c oxidase subunit II | 688 bp | 42.59% | −0.283 | +0.099 | |||||
| ATP8ATP synthase F0 subunit 8 | 168 bp | 41.07% | −0.565 | +0.212 | |||||
| ATP6ATP synthase F0 subunit 6 | 683 bp | 44.22% | −0.437 | +0.008 | |||||
| COX3Cytochrome c oxidase subunit III | 786 bp | 47.84% | −0.303 | +0.044 | |||||
| ND3NADH dehydrogenase subunit 3 | 346 bp | 47.40% | −0.341 | −0.055 | |||||
| ND4LNADH dehydrogenase subunit 4L | 297 bp | 47.81% | −0.338 | −0.071 | |||||
| ND4NADH dehydrogenase subunit 4 | 1,381 bp | 46.27% | −0.355 | +0.065 | |||||
| ND5NADH dehydrogenase subunit 5 | 1,842 bp | 43.92% | −0.402 | +0.123 | |||||
| ND6NADH dehydrogenase subunit 6 | 522 bp | 48.85% | −0.498 | +0.536 | |||||
| CYTBCytochrome b | 1,141 bp | 45.40% | −0.351 | +0.014 | |||||
| 12S rRNA12S ribosomal RNA | 978 bp | 48.77% | −0.132 | +0.257 | |||||
| 16S rRNA16S ribosomal RNA | 1,698 bp | 45.23% | −0.104 | +0.275 | |||||
| D-loopControl region (D-loop) | 943 bp | 37.96% | −0.212 | −0.005 |
Codon usage
Counts per codon, darker is more frequent3,805 codons in all protein-coding genes. Grouped with the Vertebrate mitochondrial code (NCBI table 2).
Phe F6.0%
UUU91
UUC139
Leu L16.4%
UUA89
UUG24
CUU80
CUC133
CUA248
CUG50
Ile I7.4%
AUU141
AUC139
Met M5.0%
AUA141
AUG48
Val V5.4%
GUU41
GUC60
GUA78
GUG27
Ser S6.4%
UCU30
UCC73
UCA78
UCG8
AGU7
AGC46
Pro P5.5%
CCU26
CCC55
CCA97
CCG33
Thr T8.6%
ACU42
ACC137
ACA134
ACG14
Ala A8.7%
GCU54
GCC149
GCA116
GCG13
Tyr Y3.2%
UAU45
UAC75
His H2.7%
CAU16
CAC86
Gln Q2.6%
CAA86
CAG12
Asn N3.1%
AAU34
AAC83
Lys K2.3%
AAA83
AAG4
Asp D2.0%
GAU15
GAC62
Glu E2.5%
GAA81
GAG16
Cys C0.7%
UGU6
UGC22
Trp W3.1%
UGA101
UGG17
Arg R1.9%
CGU6
CGC13
CGA39
CGG14
Gly G6.3%
GGU18
GGC92
GGA84
GGG47
Stop 0.2%
UAA6
UAG0
AGA0
AGG1
Genome map
38 annotated features in NC_012715.1Hover, 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 (45.2%, 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 | 69 | 69 bp | + | – |
| 12S rRNA | Ribosomal RNA | 70 | 1,047 | 978 bp | + | 48.8% |
| tRNA-Val | Transfer RNA | 1,048 | 1,119 | 72 bp | + | – |
| 16S rRNA | Ribosomal RNA | 1,120 | 2,817 | 1,698 bp | + | 45.2% |
| tRNA-Leu (UUR) | Transfer RNA | 2,818 | 2,893 | 76 bp | + | – |
| ND1 | Protein-coding gene | 2,903 | 3,877 | 975 bp | + | 45.1% |
| tRNA-Ile | Transfer RNA | 3,880 | 3,951 | 72 bp | + | – |
| tRNA-Gln | Transfer RNA | 3,951 | 4,021 | 71 bp | − | – |
| tRNA-Met | Transfer RNA | 4,021 | 4,089 | 69 bp | + | – |
| ND2 | Protein-coding gene | 4,090 | 5,134 | 1,045 bp | + | 44.2% |
| tRNA-Trp | Transfer RNA | 5,135 | 5,204 | 70 bp | + | – |
| tRNA-Ala | Transfer RNA | 5,206 | 5,274 | 69 bp | − | – |
| tRNA-Asn | Transfer RNA | 5,276 | 5,348 | 73 bp | − | – |
| tRNA-Cys | Transfer RNA | 5,382 | 5,447 | 66 bp | − | – |
| tRNA-Tyr | Transfer RNA | 5,448 | 5,518 | 71 bp | − | – |
| COX1 | Protein-coding gene | 5,520 | 7,067 | 1,548 bp | + | 47.9% |
| tRNA-Ser (UCN) | Transfer RNA | 7,068 | 7,138 | 71 bp | − | – |
| tRNA-Asp | Transfer RNA | 7,142 | 7,213 | 72 bp | + | – |
| COX2 | Protein-coding gene | 7,217 | 7,904 | 688 bp | + | 42.6% |
| tRNA-Lys | Transfer RNA | 7,905 | 7,978 | 74 bp | + | – |
| ATP8 | Protein-coding gene | 7,980 | 8,147 | 168 bp | + | 41.1% |
| ATP6 | Protein-coding gene | 8,138 | 8,820 | 683 bp | + | 44.2% |
| COX3 | Protein-coding gene | 8,821 | 9,606 | 786 bp | + | 47.8% |
| tRNA-Gly | Transfer RNA | 9,607 | 9,678 | 72 bp | + | – |
| ND3 | Protein-coding gene | 9,679 | 10,024 | 346 bp | + | 47.4% |
| tRNA-Arg | Transfer RNA | 10,025 | 10,094 | 70 bp | + | – |
| ND4L | Protein-coding gene | 10,095 | 10,391 | 297 bp | + | 47.8% |
| ND4 | Protein-coding gene | 10,385 | 11,765 | 1,381 bp | + | 46.3% |
| tRNA-His | Transfer RNA | 11,766 | 11,834 | 69 bp | + | – |
| tRNA-Ser (AGY) | Transfer RNA | 11,837 | 11,903 | 67 bp | + | – |
| tRNA-Leu (CUN) | Transfer RNA | 11,904 | 11,976 | 73 bp | + | – |
| ND5 | Protein-coding gene | 11,977 | 13,818 | 1,842 bp | + | 43.9% |
| ND6 | Protein-coding gene | 13,814 | 14,335 | 522 bp | − | 48.9% |
| tRNA-Glu | Transfer RNA | 14,336 | 14,403 | 68 bp | − | – |
| CYTB | Protein-coding gene | 14,409 | 15,549 | 1,141 bp | + | 45.4% |
| tRNA-Thr | Transfer RNA | 15,550 | 15,621 | 72 bp | + | – |
| tRNA-Pro | Transfer RNA | 15,623 | 15,692 | 70 bp | − | – |
| D-loop | Control region | 15,693 | 16,635 | 943 bp | – | 38.0% |