Apeltes quadracus
Fourspine stickleback
GC content
44.86%
Whole genome
Non-coding
896 bp
D-loop 831 bp
Where Fourspine stickleback sits among 2,335 species
Whole-genome GC content against maximum lifespan. Fourspine stickleback has the 2,183rd longest lifespan of them.
- This species
- Other ray-finned fishes
- Other classes
Base composition
Whole genome16,472 bp
- GC skew (G − C) / (G + C)
- −0.254
- AT skew (A − T) / (A + T)
- +0.001
About this record
- Lifespan source
- AnAge build 15
- Based on
- an animal in the wild
- 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 genome16,472 bp
Protein-coding11,411 bp
12S rRNA942 bp
16S rRNA1,683 bp
All tRNA1,545 bp
D-loop831 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% | −0.357 | −0.144 | |||||
| ND2NADH dehydrogenase subunit 2 | 1,047 bp | 45.27% | −0.443 | −0.040 | |||||
| COX1Cytochrome c oxidase subunit I | 1,551 bp | 46.10% | −0.217 | −0.098 | |||||
| COX2Cytochrome c oxidase subunit II | 691 bp | 41.97% | −0.269 | −0.002 | |||||
| ATP8ATP synthase F0 subunit 8 | 168 bp | 41.07% | −0.507 | +0.071 | |||||
| ATP6ATP synthase F0 subunit 6 | 684 bp | 44.01% | −0.402 | −0.081 | |||||
| COX3Cytochrome c oxidase subunit III | 786 bp | 47.58% | −0.273 | −0.117 | |||||
| ND3NADH dehydrogenase subunit 3 | 351 bp | 46.44% | −0.288 | −0.149 | |||||
| ND4LNADH dehydrogenase subunit 4L | 297 bp | 45.46% | −0.333 | −0.185 | |||||
| ND4NADH dehydrogenase subunit 4 | 1,381 bp | 44.10% | −0.350 | −0.044 | |||||
| ND5NADH dehydrogenase subunit 5 | 1,839 bp | 43.45% | −0.329 | −0.065 | |||||
| ND6NADH dehydrogenase subunit 6 | 522 bp | 45.98% | −0.417 | +0.433 | |||||
| CYTBCytochrome b | 1,141 bp | 44.96% | −0.314 | −0.111 | |||||
| 12S rRNA12S ribosomal RNA | 942 bp | 47.24% | −0.065 | +0.211 | |||||
| 16S rRNA16S ribosomal RNA | 1,683 bp | 44.92% | −0.066 | +0.184 | |||||
| D-loopControl region (D-loop) | 831 bp | 40.43% | −0.083 | −0.010 |
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 F6.5%
UUU126
UUC120
Leu L16.9%
UUA126
UUG29
CUU179
CUC121
CUA155
CUG32
Ile I6.9%
AUU146
AUC116
Met M3.9%
AUA91
AUG56
Val V6.2%
GUU87
GUC63
GUA63
GUG25
Ser S6.9%
UCU72
UCC66
UCA63
UCG8
AGU17
AGC37
Pro P5.6%
CCU58
CCC97
CCA51
CCG7
Thr T8.1%
ACU72
ACC117
ACA105
ACG15
Ala A8.7%
GCU100
GCC123
GCA101
GCG6
Tyr Y2.8%
UAU47
UAC60
His H2.8%
CAU33
CAC74
Gln Q2.6%
CAA88
CAG12
Asn N3.1%
AAU28
AAC90
Lys K1.9%
AAA61
AAG10
Asp D2.1%
GAU22
GAC57
Glu E2.7%
GAA71
GAG30
Cys C0.7%
UGU11
UGC14
Trp W3.1%
UGA101
UGG18
Arg R2.0%
CGU14
CGC13
CGA44
CGG5
Gly G6.5%
GGU46
GGC83
GGA76
GGG42
Stop 0.3%
UAA8
UAG2
AGA0
AGG0
Genome map
38 annotated features in NC_011580.1Hover, 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 (44.9%, 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 | + | 47.2% |
| tRNA-Val | Transfer RNA | 1,012 | 1,083 | 72 bp | + | – |
| 16S rRNA | Ribosomal RNA | 1,084 | 2,766 | 1,683 bp | + | 44.9% |
| tRNA-Leu (UUR) | Transfer RNA | 2,767 | 2,841 | 75 bp | + | – |
| ND1 | Protein-coding gene | 2,842 | 3,816 | 975 bp | + | 43.7% |
| tRNA-Ile | Transfer RNA | 3,820 | 3,889 | 70 bp | + | – |
| tRNA-Gln | Transfer RNA | 3,889 | 3,959 | 71 bp | − | – |
| tRNA-Met | Transfer RNA | 3,959 | 4,027 | 69 bp | + | – |
| ND2 | Protein-coding gene | 4,028 | 5,074 | 1,047 bp | + | 45.3% |
| tRNA-Trp | Transfer RNA | 5,073 | 5,140 | 68 bp | + | – |
| tRNA-Ala | Transfer RNA | 5,142 | 5,210 | 69 bp | − | – |
| tRNA-Asn | Transfer RNA | 5,212 | 5,284 | 73 bp | − | – |
| tRNA-Cys | Transfer RNA | 5,319 | 5,382 | 64 bp | − | – |
| tRNA-Tyr | Transfer RNA | 5,383 | 5,452 | 70 bp | − | – |
| COX1 | Protein-coding gene | 5,454 | 7,004 | 1,551 bp | + | 46.1% |
| tRNA-Ser (UCN) | Transfer RNA | 7,005 | 7,075 | 71 bp | − | – |
| tRNA-Asp | Transfer RNA | 7,079 | 7,151 | 73 bp | + | – |
| COX2 | Protein-coding gene | 7,158 | 7,848 | 691 bp | + | 42.0% |
| tRNA-Lys | Transfer RNA | 7,849 | 7,922 | 74 bp | + | – |
| ATP8 | Protein-coding gene | 7,924 | 8,091 | 168 bp | + | 41.1% |
| ATP6 | Protein-coding gene | 8,082 | 8,765 | 684 bp | + | 44.0% |
| COX3 | Protein-coding gene | 8,765 | 9,550 | 786 bp | + | 47.6% |
| tRNA-Gly | Transfer RNA | 9,550 | 9,620 | 71 bp | + | – |
| ND3 | Protein-coding gene | 9,621 | 9,971 | 351 bp | + | 46.4% |
| tRNA-Arg | Transfer RNA | 9,970 | 10,039 | 70 bp | + | – |
| ND4L | Protein-coding gene | 10,040 | 10,336 | 297 bp | + | 45.5% |
| ND4 | Protein-coding gene | 10,330 | 11,710 | 1,381 bp | + | 44.1% |
| tRNA-His | Transfer RNA | 11,711 | 11,777 | 67 bp | + | – |
| tRNA-Ser (AGY) | Transfer RNA | 11,778 | 11,845 | 68 bp | + | – |
| tRNA-Leu (CUN) | Transfer RNA | 11,850 | 11,922 | 73 bp | + | – |
| ND5 | Protein-coding gene | 11,926 | 13,764 | 1,839 bp | + | 43.5% |
| ND6 | Protein-coding gene | 13,761 | 14,282 | 522 bp | − | 46.0% |
| tRNA-Glu | Transfer RNA | 14,283 | 14,352 | 70 bp | − | – |
| CYTB | Protein-coding gene | 14,358 | 15,498 | 1,141 bp | + | 45.0% |
| tRNA-Thr | Transfer RNA | 15,499 | 15,570 | 72 bp | + | – |
| tRNA-Pro | Transfer RNA | 15,570 | 15,638 | 69 bp | − | – |
| D-loop | Control region | 15,639 | 16,469 | 831 bp | – | 40.4% |