Cyprinella spiloptera
Spotfin shiner
GC content
46.24%
Whole genome
Non-coding
952 bp
Including the D-loop
Where Spotfin shiner sits among 2,335 species
Whole-genome GC content against maximum lifespan. Spotfin shiner has the 1,983rd longest lifespan of them.
- This species
- Other ray-finned fishes
- Other classes
Base composition
Whole genome16,545 bp
- GC skew (G − C) / (G + C)
- −0.172
- AT skew (A − T) / (A + T)
- −0.004
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
- Updated in build 2
- In the database since
- build 1 (2015-07-01)
- Last changed
- build 2 (2026-11-13)
Every change against the 2015 build is in the changelog download.
Composition by region
Reference (L) strand as deposited in RefSeqWhole genome16,545 bp
Protein-coding11,397 bp
12S rRNA956 bp
16S rRNA1,681 bp
All tRNA1,561 bp
Genes and regions
Select a column to sort; select a gene to compare it across species| Composition | |||||||||
|---|---|---|---|---|---|---|---|---|---|
| ND1NADH dehydrogenase subunit 1 | 975 bp | 49.44% | −0.216 | −0.140 | |||||
| ND2NADH dehydrogenase subunit 2 | 1,047 bp | 49.67% | −0.250 | −0.063 | |||||
| COX1Cytochrome c oxidase subunit I | 1,551 bp | 44.42% | −0.112 | −0.128 | |||||
| COX2Cytochrome c oxidase subunit II | 691 bp | 44.14% | −0.180 | +0.036 | |||||
| ATP8ATP synthase F0 subunit 8 | 165 bp | 40.61% | −0.373 | +0.102 | |||||
| ATP6ATP synthase F0 subunit 6 | 684 bp | 43.42% | −0.293 | −0.096 | |||||
| COX3Cytochrome c oxidase subunit III | 784 bp | 46.81% | −0.128 | −0.098 | |||||
| ND3NADH dehydrogenase subunit 3 | 351 bp | 44.73% | −0.197 | −0.103 | |||||
| ND4LNADH dehydrogenase subunit 4L | 297 bp | 47.81% | −0.296 | −0.071 | |||||
| ND4NADH dehydrogenase subunit 4 | 1,381 bp | 46.13% | −0.221 | −0.113 | |||||
| ND5NADH dehydrogenase subunit 5 | 1,827 bp | 46.20% | −0.258 | −0.021 | |||||
| ND6NADH dehydrogenase subunit 6 | 522 bp | 48.28% | −0.294 | +0.267 | |||||
| CYTBCytochrome b | 1,141 bp | 48.20% | −0.218 | −0.100 | |||||
| 12S rRNA12S ribosomal RNA | 956 bp | 51.15% | −0.047 | +0.208 | |||||
| 16S rRNA16S ribosomal RNA | 1,681 bp | 45.45% | −0.042 | +0.230 |
Codon usage
Counts per codon, darker is more frequent3,804 codons in all protein-coding genes. Grouped with the Vertebrate mitochondrial code (NCBI table 2).
Phe F6.1%
UUU102
UUC131
Leu L16.3%
UUA111
UUG37
CUU139
CUC112
CUA154
CUG66
Ile I6.5%
AUU151
AUC98
Met M4.5%
AUA99
AUG74
Val V7.0%
GUU72
GUC65
GUA85
GUG43
Ser S6.4%
UCU49
UCC56
UCA67
UCG14
AGU12
AGC47
Pro P5.7%
CCU62
CCC57
CCA70
CCG27
Thr T7.8%
ACU69
ACC99
ACA92
ACG38
Ala A9.2%
GCU64
GCC137
GCA105
GCG43
Tyr Y3.0%
UAU52
UAC63
His H2.8%
CAU33
CAC74
Gln Q2.5%
CAA60
CAG37
Asn N2.7%
AAU48
AAC56
Lys K2.0%
AAA41
AAG34
Asp D2.1%
GAU28
GAC50
Glu E2.7%
GAA58
GAG43
Cys C0.7%
UGU10
UGC17
Trp W3.2%
UGA88
UGG32
Arg R2.0%
CGU8
CGC14
CGA38
CGG17
Gly G6.5%
GGU40
GGC63
GGA69
GGG75
Stop 0.2%
UAA6
UAG3
AGA0
AGG0
Genome map
37 annotated features in NC_008103.1Hover, 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
- Outer ring: + strand, arrows run clockwise. Inner ring: − strand.
- Middle ring: GC% of each gene against the whole genome (46.2%, dashed): out is GC-richer, in is AT-richer (full height = 6 points).
All 37 features as a table
| Feature | Type | Start | End | Length | Strand | GC |
|---|---|---|---|---|---|---|
| tRNA-Phe | Transfer RNA | 1 | 70 | 70 bp | + | – |
| 12S rRNA | Ribosomal RNA | 71 | 1,026 | 956 bp | + | 51.2% |
| tRNA-Val | Transfer RNA | 1,027 | 1,098 | 72 bp | + | – |
| 16S rRNA | Ribosomal RNA | 1,099 | 2,779 | 1,681 bp | + | 45.5% |
| tRNA-Leu (UUR) | Transfer RNA | 2,780 | 2,857 | 78 bp | + | – |
| ND1 | Protein-coding gene | 2,858 | 3,832 | 975 bp | + | 49.4% |
| tRNA-Ile | Transfer RNA | 3,836 | 3,909 | 74 bp | + | – |
| tRNA-Gln | Transfer RNA | 3,907 | 3,977 | 71 bp | − | – |
| tRNA-Met | Transfer RNA | 3,979 | 4,047 | 69 bp | + | – |
| ND2 | Protein-coding gene | 4,048 | 5,094 | 1,047 bp | + | 49.7% |
| tRNA-Trp | Transfer RNA | 5,098 | 5,163 | 66 bp | + | – |
| tRNA-Ala | Transfer RNA | 5,166 | 5,233 | 68 bp | − | – |
| tRNA-Asn | Transfer RNA | 5,235 | 5,307 | 73 bp | − | – |
| tRNA-Cys | Transfer RNA | 5,338 | 5,408 | 71 bp | − | – |
| tRNA-Tyr | Transfer RNA | 5,406 | 5,477 | 72 bp | − | – |
| COX1 | Protein-coding gene | 5,479 | 7,029 | 1,551 bp | + | 44.4% |
| tRNA-Ser (UCN) | Transfer RNA | 7,030 | 7,100 | 71 bp | − | – |
| tRNA-Asp | Transfer RNA | 7,103 | 7,174 | 72 bp | + | – |
| COX2 | Protein-coding gene | 7,182 | 7,872 | 691 bp | + | 44.1% |
| tRNA-Lys | Transfer RNA | 7,873 | 7,948 | 76 bp | + | – |
| ATP8 | Protein-coding gene | 7,950 | 8,114 | 165 bp | + | 40.6% |
| ATP6 | Protein-coding gene | 8,108 | 8,791 | 684 bp | + | 43.4% |
| COX3 | Protein-coding gene | 8,791 | 9,574 | 784 bp | + | 46.8% |
| tRNA-Gly | Transfer RNA | 9,575 | 9,646 | 72 bp | + | – |
| ND3 | Protein-coding gene | 9,647 | 9,997 | 351 bp | + | 44.7% |
| tRNA-Arg | Transfer RNA | 9,996 | 10,064 | 69 bp | + | – |
| ND4L | Protein-coding gene | 10,065 | 10,361 | 297 bp | + | 47.8% |
| ND4 | Protein-coding gene | 10,355 | 11,735 | 1,381 bp | + | 46.1% |
| tRNA-His | Transfer RNA | 11,737 | 11,805 | 69 bp | + | – |
| tRNA-Ser (AGY) | Transfer RNA | 11,806 | 11,874 | 69 bp | + | – |
| tRNA-Leu (CUN) | Transfer RNA | 11,876 | 11,948 | 73 bp | + | – |
| ND5 | Protein-coding gene | 11,958 | 13,784 | 1,827 bp | + | 46.2% |
| ND6 | Protein-coding gene | 13,781 | 14,302 | 522 bp | − | 48.3% |
| tRNA-Glu | Transfer RNA | 14,303 | 14,371 | 69 bp | − | – |
| CYTB | Protein-coding gene | 14,376 | 15,516 | 1,141 bp | + | 48.2% |
| tRNA-Thr | Transfer RNA | 15,517 | 15,589 | 73 bp | + | – |
| tRNA-Pro | Transfer RNA | 15,589 | 15,659 | 71 bp | + | – |