Polypterus senegalus
Gray bichir
GC content
40.03%
Whole genome
Non-coding
1,126 bp
D-loop 1,073 bp
Where Gray bichir sits among 2,335 species
Whole-genome GC content against maximum lifespan. Gray bichir has the 345th longest lifespan of them.
- This species
- Other ray-finned fishes
- Other classes
Base composition
Whole genome16,627 bp
- GC skew (G − C) / (G + C)
- −0.279
- AT skew (A − T) / (A + T)
- +0.044
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 genome16,627 bp
Protein-coding11,362 bp
12S rRNA947 bp
16S rRNA1,655 bp
All tRNA1,547 bp
D-loop1,073 bp
Genes and regions
Select a column to sort; select a gene to compare it across species| Composition | |||||||||
|---|---|---|---|---|---|---|---|---|---|
| ND1NADH dehydrogenase subunit 1 | 959 bp | 41.19% | −0.403 | −0.018 | |||||
| ND2NADH dehydrogenase subunit 2 | 1,036 bp | 39.87% | −0.429 | +0.053 | |||||
| COX1Cytochrome c oxidase subunit I | 1,557 bp | 42.78% | −0.189 | −0.064 | |||||
| COX2Cytochrome c oxidase subunit II | 691 bp | 39.07% | −0.281 | +0.069 | |||||
| ATP8ATP synthase F0 subunit 8 | 168 bp | 35.12% | −0.492 | +0.028 | |||||
| ATP6ATP synthase F0 subunit 6 | 683 bp | 36.75% | −0.410 | −0.046 | |||||
| COX3Cytochrome c oxidase subunit III | 785 bp | 43.06% | −0.219 | −0.047 | |||||
| ND3NADH dehydrogenase subunit 3 | 346 bp | 40.75% | −0.333 | −0.112 | |||||
| ND4LNADH dehydrogenase subunit 4L | 297 bp | 43.10% | −0.422 | −0.101 | |||||
| ND4NADH dehydrogenase subunit 4 | 1,375 bp | 38.11% | −0.370 | −0.018 | |||||
| ND5NADH dehydrogenase subunit 5 | 1,842 bp | 37.57% | −0.379 | +0.009 | |||||
| ND6NADH dehydrogenase subunit 6 | 504 bp | 40.28% | −0.429 | +0.389 | |||||
| CYTBCytochrome b | 1,141 bp | 40.32% | −0.365 | −0.037 | |||||
| 12S rRNA12S ribosomal RNA | 947 bp | 45.20% | −0.056 | +0.156 | |||||
| 16S rRNA16S ribosomal RNA | 1,655 bp | 39.70% | −0.059 | +0.236 | |||||
| D-loopControl region (D-loop) | 1,073 bp | 36.63% | −0.359 | +0.035 |
Codon usage
Counts per codon, darker is more frequent3,791 codons in all protein-coding genes. Grouped with the Vertebrate mitochondrial code (NCBI table 2).
Phe F5.7%
UUU124
UUC92
Leu L16.2%
UUA169
UUG15
CUU129
CUC97
CUA176
CUG30
Ile I9.2%
AUU244
AUC106
Met M5.2%
AUA162
AUG36
Val V5.0%
GUU67
GUC32
GUA75
GUG15
Ser S6.7%
UCU60
UCC69
UCA86
UCG1
AGU5
AGC34
Pro P5.5%
CCU60
CCC45
CCA97
CCG6
Thr T7.9%
ACU69
ACC91
ACA130
ACG10
Ala A8.1%
GCU59
GCC123
GCA118
GCG8
Tyr Y3.1%
UAU70
UAC47
His H2.7%
CAU36
CAC65
Gln Q2.5%
CAA83
CAG11
Asn N3.7%
AAU71
AAC69
Lys K2.1%
AAA77
AAG4
Asp D1.9%
GAU31
GAC40
Glu E2.5%
GAA85
GAG10
Cys C0.7%
UGU9
UGC19
Trp W3.1%
UGA103
UGG13
Arg R2.0%
CGU11
CGC21
CGA39
CGG5
Gly G6.0%
GGU35
GGC68
GGA88
GGG36
Stop 0.1%
UAA3
UAG0
AGA1
AGG1
Genome map
38 annotated features in NC_004418.1Hover, 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 (40.0%, 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 | 72 | 72 bp | + | – |
| 12S rRNA | Ribosomal RNA | 72 | 1,018 | 947 bp | + | 45.2% |
| tRNA-Val | Transfer RNA | 1,019 | 1,089 | 71 bp | + | – |
| 16S rRNA | Ribosomal RNA | 1,090 | 2,744 | 1,655 bp | + | 39.7% |
| tRNA-Leu (UUR) | Transfer RNA | 2,745 | 2,819 | 75 bp | + | – |
| ND1 | Protein-coding gene | 2,820 | 3,778 | 959 bp | + | 41.2% |
| tRNA-Ile | Transfer RNA | 3,779 | 3,849 | 71 bp | + | – |
| tRNA-Gln | Transfer RNA | 3,848 | 3,918 | 71 bp | − | – |
| tRNA-Met | Transfer RNA | 3,918 | 3,987 | 70 bp | + | – |
| ND2 | Protein-coding gene | 3,988 | 5,023 | 1,036 bp | + | 39.9% |
| tRNA-Trp | Transfer RNA | 5,024 | 5,094 | 71 bp | + | – |
| tRNA-Ala | Transfer RNA | 5,100 | 5,168 | 69 bp | − | – |
| tRNA-Asn | Transfer RNA | 5,170 | 5,242 | 73 bp | − | – |
| tRNA-Cys | Transfer RNA | 5,279 | 5,346 | 68 bp | − | – |
| tRNA-Tyr | Transfer RNA | 5,347 | 5,417 | 71 bp | − | – |
| COX1 | Protein-coding gene | 5,419 | 6,975 | 1,557 bp | + | 42.8% |
| tRNA-Ser (UCN) | Transfer RNA | 6,967 | 7,037 | 71 bp | − | – |
| tRNA-Asp | Transfer RNA | 7,040 | 7,108 | 69 bp | + | – |
| COX2 | Protein-coding gene | 7,112 | 7,802 | 691 bp | + | 39.1% |
| tRNA-Lys | Transfer RNA | 7,803 | 7,875 | 73 bp | + | – |
| ATP8 | Protein-coding gene | 7,876 | 8,043 | 168 bp | + | 35.1% |
| ATP6 | Protein-coding gene | 8,034 | 8,716 | 683 bp | + | 36.8% |
| COX3 | Protein-coding gene | 8,717 | 9,501 | 785 bp | + | 43.1% |
| tRNA-Gly | Transfer RNA | 9,502 | 9,571 | 70 bp | + | – |
| ND3 | Protein-coding gene | 9,572 | 9,917 | 346 bp | + | 40.8% |
| tRNA-Arg | Transfer RNA | 9,918 | 9,987 | 70 bp | + | – |
| ND4L | Protein-coding gene | 9,988 | 10,284 | 297 bp | + | 43.1% |
| ND4 | Protein-coding gene | 10,278 | 11,652 | 1,375 bp | + | 38.1% |
| tRNA-His | Transfer RNA | 11,653 | 11,721 | 69 bp | + | – |
| tRNA-Ser (AGY) | Transfer RNA | 11,722 | 11,787 | 66 bp | + | – |
| tRNA-Leu (CUN) | Transfer RNA | 11,790 | 11,861 | 72 bp | + | – |
| ND5 | Protein-coding gene | 11,862 | 13,703 | 1,842 bp | + | 37.6% |
| ND6 | Protein-coding gene | 13,699 | 14,202 | 504 bp | − | 40.3% |
| tRNA-Glu | Transfer RNA | 14,203 | 14,271 | 69 bp | − | – |
| CYTB | Protein-coding gene | 14,275 | 15,415 | 1,141 bp | + | 40.3% |
| tRNA-Thr | Transfer RNA | 15,416 | 15,486 | 71 bp | + | – |
| tRNA-Pro | Transfer RNA | 15,486 | 15,554 | 69 bp | − | – |
| D-loop | Control region | 15,555 | 16,627 | 1,073 bp | – | 36.6% |