Lepomis gibbosus
Pumpkinseed
GC content
47.54%
Whole genome
Non-coding
912 bp
D-loop 848 bp
Where Pumpkinseed sits among 2,335 species
Whole-genome GC content against maximum lifespan. Pumpkinseed has the 1,368th longest lifespan of them.
- This species
- Other ray-finned fishes
- Other classes
Base composition
Whole genome16,503 bp
- GC skew (G − C) / (G + C)
- −0.279
- AT skew (A − T) / (A + T)
- +0.014
About this record
- Lifespan source
- FishBase v26.06
- Based on
- an animal in captivity
- 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 genome16,503 bp
Protein-coding11,411 bp
12S rRNA950 bp
16S rRNA1,685 bp
All tRNA1,549 bp
D-loop848 bp
Genes and regions
Select a column to sort; select a gene to compare it across species| Composition | |||||||||
|---|---|---|---|---|---|---|---|---|---|
| ND1NADH dehydrogenase subunit 1 | 975 bp | 49.23% | −0.350 | −0.087 | |||||
| ND2NADH dehydrogenase subunit 2 | 1,047 bp | 49.67% | −0.481 | +0.021 | |||||
| COX1Cytochrome c oxidase subunit I | 1,551 bp | 47.58% | −0.201 | −0.137 | |||||
| COX2Cytochrome c oxidase subunit II | 691 bp | 46.74% | −0.226 | +0.016 | |||||
| ATP8ATP synthase F0 subunit 8 | 168 bp | 50.60% | −0.506 | +0.108 | |||||
| ATP6ATP synthase F0 subunit 6 | 684 bp | 49.12% | −0.435 | −0.109 | |||||
| COX3Cytochrome c oxidase subunit III | 786 bp | 50.13% | −0.264 | −0.066 | |||||
| ND3NADH dehydrogenase subunit 3 | 351 bp | 48.72% | −0.333 | −0.144 | |||||
| ND4LNADH dehydrogenase subunit 4L | 297 bp | 51.52% | −0.399 | −0.125 | |||||
| ND4NADH dehydrogenase subunit 4 | 1,381 bp | 49.39% | −0.384 | −0.047 | |||||
| ND5NADH dehydrogenase subunit 5 | 1,839 bp | 46.49% | −0.385 | −0.016 | |||||
| ND6NADH dehydrogenase subunit 6 | 522 bp | 45.79% | −0.490 | +0.385 | |||||
| CYTBCytochrome b | 1,141 bp | 48.20% | −0.364 | −0.127 | |||||
| 12S rRNA12S ribosomal RNA | 950 bp | 47.68% | −0.091 | +0.211 | |||||
| 16S rRNA16S ribosomal RNA | 1,685 bp | 46.17% | −0.080 | +0.193 | |||||
| D-loopControl region (D-loop) | 848 bp | 36.91% | −0.099 | −0.032 |
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 F6.0%
UUU93
UUC136
Leu L17.8%
UUA98
UUG22
CUU157
CUC195
CUA144
CUG63
Ile I7.1%
AUU157
AUC115
Met M3.8%
AUA90
AUG55
Val V5.6%
GUU67
GUC59
GUA57
GUG29
Ser S6.2%
UCU43
UCC86
UCA40
UCG16
AGU16
AGC37
Pro P5.9%
CCU38
CCC133
CCA40
CCG12
Thr T7.9%
ACU50
ACC136
ACA89
ACG25
Ala A9.3%
GCU58
GCC175
GCA106
GCG17
Tyr Y2.9%
UAU39
UAC72
His H2.9%
CAU27
CAC82
Gln Q2.5%
CAA75
CAG20
Asn N3.1%
AAU38
AAC80
Lys K1.9%
AAA65
AAG8
Asp D1.9%
GAU24
GAC50
Glu E2.7%
GAA79
GAG22
Cys C0.7%
UGU4
UGC22
Trp W3.2%
UGA89
UGG32
Arg R1.9%
CGU8
CGC22
CGA35
CGG9
Gly G6.4%
GGU27
GGC101
GGA52
GGG64
Stop 0.3%
UAA8
UAG2
AGA0
AGG0
Genome map
38 annotated features in NC_028284.1Hover, 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 (47.5%, 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 | 1,018 | 950 bp | + | 47.7% |
| tRNA-Val | Transfer RNA | 1,019 | 1,090 | 72 bp | + | – |
| 16S rRNA | Ribosomal RNA | 1,091 | 2,775 | 1,685 bp | + | 46.2% |
| tRNA-Leu (UUR) | Transfer RNA | 2,776 | 2,849 | 74 bp | + | – |
| ND1 | Protein-coding gene | 2,850 | 3,824 | 975 bp | + | 49.2% |
| tRNA-Ile | Transfer RNA | 3,829 | 3,898 | 70 bp | + | – |
| tRNA-Gln | Transfer RNA | 3,898 | 3,968 | 71 bp | − | – |
| tRNA-Met | Transfer RNA | 3,968 | 4,036 | 69 bp | + | – |
| ND2 | Protein-coding gene | 4,037 | 5,083 | 1,047 bp | + | 49.7% |
| tRNA-Trp | Transfer RNA | 5,083 | 5,153 | 71 bp | + | – |
| tRNA-Ala | Transfer RNA | 5,156 | 5,224 | 69 bp | − | – |
| tRNA-Asn | Transfer RNA | 5,226 | 5,298 | 73 bp | − | – |
| tRNA-Cys | Transfer RNA | 5,337 | 5,400 | 64 bp | − | – |
| tRNA-Tyr | Transfer RNA | 5,401 | 5,470 | 70 bp | − | – |
| COX1 | Protein-coding gene | 5,472 | 7,022 | 1,551 bp | + | 47.6% |
| tRNA-Ser (UCN) | Transfer RNA | 7,023 | 7,093 | 71 bp | + | – |
| tRNA-Asp | Transfer RNA | 7,097 | 7,169 | 73 bp | + | – |
| COX2 | Protein-coding gene | 7,177 | 7,867 | 691 bp | + | 46.7% |
| tRNA-Lys | Transfer RNA | 7,868 | 7,941 | 74 bp | + | – |
| ATP8 | Protein-coding gene | 7,943 | 8,110 | 168 bp | + | 50.6% |
| ATP6 | Protein-coding gene | 8,101 | 8,784 | 684 bp | + | 49.1% |
| COX3 | Protein-coding gene | 8,784 | 9,569 | 786 bp | + | 50.1% |
| tRNA-Gly | Transfer RNA | 9,569 | 9,640 | 72 bp | + | – |
| ND3 | Protein-coding gene | 9,641 | 9,991 | 351 bp | + | 48.7% |
| tRNA-Arg | Transfer RNA | 9,990 | 10,058 | 69 bp | + | – |
| ND4L | Protein-coding gene | 10,059 | 10,355 | 297 bp | + | 51.5% |
| ND4 | Protein-coding gene | 10,349 | 11,729 | 1,381 bp | + | 49.4% |
| tRNA-His | Transfer RNA | 11,730 | 11,798 | 69 bp | + | – |
| tRNA-Ser (AGY) | Transfer RNA | 11,799 | 11,866 | 68 bp | + | – |
| tRNA-Leu (CUN) | Transfer RNA | 11,871 | 11,943 | 73 bp | + | – |
| ND5 | Protein-coding gene | 11,944 | 13,782 | 1,839 bp | + | 46.5% |
| ND6 | Protein-coding gene | 13,779 | 14,300 | 522 bp | − | 45.8% |
| tRNA-Glu | Transfer RNA | 14,301 | 14,369 | 69 bp | − | – |
| CYTB | Protein-coding gene | 14,374 | 15,514 | 1,141 bp | + | 48.2% |
| tRNA-Thr | Transfer RNA | 15,515 | 15,586 | 72 bp | + | – |
| tRNA-Pro | Transfer RNA | 15,589 | 15,658 | 70 bp | − | – |
| D-loop | Control region | 15,656 | 16,503 | 848 bp | – | 36.9% |