Notropis stramineus
Sand shiner
GC content
46.48%
Whole genome
Non-coding
1,106 bp
Including the D-loop
Where Sand shiner sits among 2,335 species
Whole-genome GC content against maximum lifespan. Sand shiner has the 2,180th longest lifespan of them.
- This species
- Other ray-finned fishes
- Other classes
Base composition
Whole genome16,711 bp
- GC skew (G − C) / (G + C)
- −0.173
- 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 genome16,711 bp
Protein-coding11,406 bp
12S rRNA958 bp
16S rRNA1,681 bp
All tRNA1,564 bp
Genes and regions
Select a column to sort; select a gene to compare it across species| Composition | |||||||||
|---|---|---|---|---|---|---|---|---|---|
| ND1NADH dehydrogenase subunit 1 | 975 bp | 50.26% | −0.180 | −0.146 | |||||
| ND2NADH dehydrogenase subunit 2 | 1,047 bp | 50.81% | −0.256 | −0.072 | |||||
| COX1Cytochrome c oxidase subunit I | 1,551 bp | 45.00% | −0.123 | −0.114 | |||||
| COX2Cytochrome c oxidase subunit II | 691 bp | 41.39% | −0.196 | +0.037 | |||||
| ATP8ATP synthase F0 subunit 8 | 165 bp | 42.42% | −0.486 | +0.158 | |||||
| ATP6ATP synthase F0 subunit 6 | 684 bp | 44.01% | −0.282 | −0.102 | |||||
| COX3Cytochrome c oxidase subunit III | 784 bp | 47.70% | −0.171 | −0.098 | |||||
| ND3NADH dehydrogenase subunit 3 | 351 bp | 46.15% | −0.198 | −0.101 | |||||
| ND4LNADH dehydrogenase subunit 4L | 297 bp | 48.82% | −0.283 | −0.105 | |||||
| ND4NADH dehydrogenase subunit 4 | 1,381 bp | 46.78% | −0.245 | −0.097 | |||||
| ND5NADH dehydrogenase subunit 5 | 1,836 bp | 45.70% | −0.225 | −0.031 | |||||
| ND6NADH dehydrogenase subunit 6 | 522 bp | 51.72% | −0.274 | +0.278 | |||||
| CYTBCytochrome b | 1,141 bp | 47.50% | −0.229 | −0.105 | |||||
| 12S rRNA12S ribosomal RNA | 958 bp | 50.42% | −0.068 | +0.242 | |||||
| 16S rRNA16S ribosomal RNA | 1,681 bp | 46.70% | −0.027 | +0.217 |
Codon usage
Counts per codon, darker is more frequent3,807 codons in all protein-coding genes. Grouped with the Vertebrate mitochondrial code (NCBI table 2).
Phe F5.9%
UUU96
UUC130
Leu L16.5%
UUA92
UUG47
CUU143
CUC117
CUA148
CUG80
Ile I6.7%
AUU167
AUC88
Met M4.5%
AUA86
AUG86
Val V6.8%
GUU70
GUC50
GUA88
GUG49
Ser S6.4%
UCU45
UCC58
UCA59
UCG25
AGU12
AGC43
Pro P5.6%
CCU62
CCC54
CCA74
CCG23
Thr T7.9%
ACU62
ACC109
ACA99
ACG32
Ala A9.3%
GCU67
GCC148
GCA100
GCG40
Tyr Y2.9%
UAU51
UAC61
His H2.8%
CAU33
CAC74
Gln Q2.5%
CAA65
CAG31
Asn N2.9%
AAU39
AAC72
Lys K2.1%
AAA44
AAG35
Asp D2.0%
GAU26
GAC49
Glu E2.7%
GAA57
GAG44
Cys C0.7%
UGU7
UGC20
Trp W3.2%
UGA84
UGG36
Arg R2.0%
CGU14
CGC12
CGA35
CGG16
Gly G6.4%
GGU42
GGC64
GGA74
GGG64
Stop 0.2%
UAA4
UAG5
AGA0
AGG0
Genome map
37 annotated features in NC_008110.1Hover, 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 (46.5%, 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 | 69 | 69 bp | + | – |
| 12S rRNA | Ribosomal RNA | 70 | 1,027 | 958 bp | + | 50.4% |
| tRNA-Val | Transfer RNA | 1,028 | 1,099 | 72 bp | + | – |
| 16S rRNA | Ribosomal RNA | 1,100 | 2,780 | 1,681 bp | + | 46.7% |
| tRNA-Leu (UUR) | Transfer RNA | 2,781 | 2,858 | 78 bp | + | – |
| ND1 | Protein-coding gene | 2,859 | 3,833 | 975 bp | + | 50.3% |
| tRNA-Ile | Transfer RNA | 3,837 | 3,910 | 74 bp | + | – |
| tRNA-Gln | Transfer RNA | 3,908 | 3,978 | 71 bp | − | – |
| tRNA-Met | Transfer RNA | 3,980 | 4,048 | 69 bp | + | – |
| ND2 | Protein-coding gene | 4,049 | 5,095 | 1,047 bp | + | 50.8% |
| tRNA-Trp | Transfer RNA | 5,094 | 5,164 | 71 bp | + | – |
| tRNA-Ala | Transfer RNA | 5,167 | 5,234 | 68 bp | − | – |
| tRNA-Asn | Transfer RNA | 5,236 | 5,308 | 73 bp | − | – |
| tRNA-Cys | Transfer RNA | 5,339 | 5,408 | 70 bp | − | – |
| tRNA-Tyr | Transfer RNA | 5,406 | 5,477 | 72 bp | − | – |
| COX1 | Protein-coding gene | 5,479 | 7,029 | 1,551 bp | + | 45.0% |
| tRNA-Ser (UCN) | Transfer RNA | 7,030 | 7,100 | 71 bp | − | – |
| tRNA-Asp | Transfer RNA | 7,104 | 7,176 | 73 bp | + | – |
| COX2 | Protein-coding gene | 7,184 | 7,874 | 691 bp | + | 41.4% |
| tRNA-Lys | Transfer RNA | 7,875 | 7,950 | 76 bp | + | – |
| ATP8 | Protein-coding gene | 7,952 | 8,116 | 165 bp | + | 42.4% |
| ATP6 | Protein-coding gene | 8,110 | 8,793 | 684 bp | + | 44.0% |
| COX3 | Protein-coding gene | 8,793 | 9,576 | 784 bp | + | 47.7% |
| tRNA-Gly | Transfer RNA | 9,577 | 9,648 | 72 bp | + | – |
| ND3 | Protein-coding gene | 9,649 | 9,999 | 351 bp | + | 46.2% |
| tRNA-Arg | Transfer RNA | 9,998 | 10,066 | 69 bp | + | – |
| ND4L | Protein-coding gene | 10,067 | 10,363 | 297 bp | + | 48.8% |
| ND4 | Protein-coding gene | 10,357 | 11,737 | 1,381 bp | + | 46.8% |
| tRNA-His | Transfer RNA | 11,739 | 11,807 | 69 bp | + | – |
| tRNA-Ser (AGY) | Transfer RNA | 11,808 | 11,876 | 69 bp | + | – |
| tRNA-Leu (CUN) | Transfer RNA | 11,878 | 11,950 | 73 bp | + | – |
| ND5 | Protein-coding gene | 11,951 | 13,786 | 1,836 bp | + | 45.7% |
| ND6 | Protein-coding gene | 13,783 | 14,304 | 522 bp | − | 51.7% |
| tRNA-Glu | Transfer RNA | 14,305 | 14,373 | 69 bp | − | – |
| CYTB | Protein-coding gene | 14,379 | 15,519 | 1,141 bp | + | 47.5% |
| tRNA-Thr | Transfer RNA | 15,520 | 15,591 | 72 bp | + | – |
| tRNA-Pro | Transfer RNA | 15,591 | 15,661 | 71 bp | + | – |