Potamalosa richmondia
Australian freshwater herring
GC content
45.29%
Whole genome
Non-coding
1,092 bp
D-loop 1,033 bp
Where Australian freshwater herring sits among 2,335 species
Whole-genome GC content against maximum lifespan. Australian freshwater herring has the 1,484th longest lifespan of them.
- This species
- Other ray-finned fishes
- Other classes
Base composition
Whole genome16,681 bp
- GC skew (G − C) / (G + C)
- −0.261
- AT skew (A − T) / (A + T)
- +0.072
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 genome16,681 bp
Protein-coding11,408 bp
12S rRNA952 bp
16S rRNA1,680 bp
All tRNA1,554 bp
D-loop1,033 bp
Genes and regions
Select a column to sort; select a gene to compare it across species| Composition | |||||||||
|---|---|---|---|---|---|---|---|---|---|
| ND1NADH dehydrogenase subunit 1 | 975 bp | 45.33% | −0.326 | −0.047 | |||||
| ND2NADH dehydrogenase subunit 2 | 1,047 bp | 46.80% | −0.445 | +0.135 | |||||
| COX1Cytochrome c oxidase subunit I | 1,551 bp | 44.87% | −0.167 | −0.083 | |||||
| COX2Cytochrome c oxidase subunit II | 691 bp | 43.85% | −0.254 | +0.052 | |||||
| ATP8ATP synthase F0 subunit 8 | 168 bp | 41.07% | −0.420 | +0.091 | |||||
| ATP6ATP synthase F0 subunit 6 | 684 bp | 45.18% | −0.385 | −0.056 | |||||
| COX3Cytochrome c oxidase subunit III | 786 bp | 47.71% | −0.296 | +0.037 | |||||
| ND3NADH dehydrogenase subunit 3 | 351 bp | 43.59% | −0.281 | −0.141 | |||||
| ND4LNADH dehydrogenase subunit 4L | 297 bp | 51.18% | −0.355 | +0.007 | |||||
| ND4NADH dehydrogenase subunit 4 | 1,381 bp | 44.17% | −0.331 | +0.051 | |||||
| ND5NADH dehydrogenase subunit 5 | 1,836 bp | 43.68% | −0.369 | +0.085 | |||||
| ND6NADH dehydrogenase subunit 6 | 522 bp | 45.79% | −0.439 | +0.463 | |||||
| CYTBCytochrome b | 1,141 bp | 44.61% | −0.285 | −0.016 | |||||
| 12S rRNA12S ribosomal RNA | 952 bp | 50.11% | −0.120 | +0.221 | |||||
| 16S rRNA16S ribosomal RNA | 1,680 bp | 47.86% | −0.107 | +0.263 | |||||
| D-loopControl region (D-loop) | 1,033 bp | 34.56% | −0.204 | +0.009 |
Codon usage
Counts per codon, darker is more frequent3,809 codons in all protein-coding genes. Grouped with the Vertebrate mitochondrial code (NCBI table 2).
Phe F6.0%
UUU110
UUC117
Leu L16.3%
UUA103
UUG30
CUU123
CUC110
CUA213
CUG42
Ile I6.9%
AUU145
AUC119
Met M4.4%
AUA109
AUG60
Val V6.1%
GUU60
GUC69
GUA89
GUG16
Ser S6.0%
UCU36
UCC63
UCA64
UCG10
AGU11
AGC44
Pro P5.7%
CCU57
CCC81
CCA73
CCG7
Thr T8.2%
ACU65
ACC121
ACA119
ACG9
Ala A9.6%
GCU61
GCC146
GCA145
GCG15
Tyr Y3.1%
UAU42
UAC77
His H2.7%
CAU27
CAC76
Gln Q2.5%
CAA89
CAG8
Asn N3.1%
AAU34
AAC83
Lys K2.0%
AAA64
AAG12
Asp D1.9%
GAU25
GAC49
Glu E2.7%
GAA90
GAG12
Cys C0.7%
UGU8
UGC19
Trp W3.2%
UGA110
UGG10
Arg R2.0%
CGU7
CGC7
CGA53
CGG9
Gly G6.5%
GGU22
GGC64
GGA100
GGG60
Stop 0.3%
UAA7
UAG3
AGA0
AGG0
Genome map
38 annotated features in NC_016674.1Hover, 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 (45.3%, 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 | 1,020 | 952 bp | + | 50.1% |
| tRNA-Val | Transfer RNA | 1,021 | 1,092 | 72 bp | + | – |
| 16S rRNA | Ribosomal RNA | 1,093 | 2,772 | 1,680 bp | + | 47.9% |
| tRNA-Leu (UUR) | Transfer RNA | 2,773 | 2,848 | 76 bp | + | – |
| ND1 | Protein-coding gene | 2,849 | 3,823 | 975 bp | + | 45.3% |
| tRNA-Ile | Transfer RNA | 3,829 | 3,900 | 72 bp | + | – |
| tRNA-Gln | Transfer RNA | 3,900 | 3,970 | 71 bp | − | – |
| tRNA-Met | Transfer RNA | 3,970 | 4,038 | 69 bp | + | – |
| ND2 | Protein-coding gene | 4,039 | 5,085 | 1,047 bp | + | 46.8% |
| tRNA-Trp | Transfer RNA | 5,084 | 5,156 | 73 bp | + | – |
| tRNA-Ala | Transfer RNA | 5,158 | 5,226 | 69 bp | − | – |
| tRNA-Asn | Transfer RNA | 5,227 | 5,300 | 74 bp | − | – |
| tRNA-Cys | Transfer RNA | 5,329 | 5,394 | 66 bp | − | – |
| tRNA-Tyr | Transfer RNA | 5,396 | 5,466 | 71 bp | − | – |
| COX1 | Protein-coding gene | 5,468 | 7,018 | 1,551 bp | + | 44.9% |
| tRNA-Ser (UCN) | Transfer RNA | 7,019 | 7,089 | 71 bp | − | – |
| tRNA-Asp | Transfer RNA | 7,094 | 7,163 | 70 bp | + | – |
| COX2 | Protein-coding gene | 7,178 | 7,868 | 691 bp | + | 43.9% |
| tRNA-Lys | Transfer RNA | 7,869 | 7,942 | 74 bp | + | – |
| ATP8 | Protein-coding gene | 7,944 | 8,111 | 168 bp | + | 41.1% |
| ATP6 | Protein-coding gene | 8,102 | 8,785 | 684 bp | + | 45.2% |
| COX3 | Protein-coding gene | 8,785 | 9,570 | 786 bp | + | 47.7% |
| tRNA-Gly | Transfer RNA | 9,570 | 9,641 | 72 bp | + | – |
| ND3 | Protein-coding gene | 9,642 | 9,992 | 351 bp | + | 43.6% |
| tRNA-Arg | Transfer RNA | 9,991 | 10,060 | 70 bp | + | – |
| ND4L | Protein-coding gene | 10,061 | 10,357 | 297 bp | + | 51.2% |
| ND4 | Protein-coding gene | 10,351 | 11,731 | 1,381 bp | + | 44.2% |
| tRNA-His | Transfer RNA | 11,732 | 11,801 | 70 bp | + | – |
| tRNA-Ser (AGY) | Transfer RNA | 11,802 | 11,868 | 67 bp | + | – |
| tRNA-Leu (CUN) | Transfer RNA | 11,869 | 11,940 | 72 bp | + | – |
| ND5 | Protein-coding gene | 11,941 | 13,776 | 1,836 bp | + | 43.7% |
| ND6 | Protein-coding gene | 13,773 | 14,294 | 522 bp | − | 45.8% |
| tRNA-Glu | Transfer RNA | 14,295 | 14,363 | 69 bp | − | – |
| CYTB | Protein-coding gene | 14,368 | 15,508 | 1,141 bp | + | 44.6% |
| tRNA-Thr | Transfer RNA | 15,509 | 15,578 | 70 bp | + | – |
| tRNA-Pro | Transfer RNA | 15,579 | 15,648 | 70 bp | − | – |
| D-loop | Control region | 15,649 | 16,681 | 1,033 bp | – | 34.6% |