Alosa sapidissima

American shad

Maximum lifespan

13 yr

AnAge record

mtDNA size

16,697 bp

RefSeq NC_014690.1

GC content

46.82%

Whole genome

Non-coding

1,104 bp

D-loop 1,041 bp

Where American shad sits among 2,335 species

Whole-genome GC content against maximum lifespan. American shad has the 1,341st longest lifespan of them.

This species
Other ray-finned fishes
Other classes

Plot other mtDNA features with this species highlighted

Base composition

Whole genome16,697 bp

GC skew (G − C) / (G + C): −0.233
AT skew (A − T) / (A + T): +0.066

Life history

Maximum lifespan: 13 years
Adult weight: 3 kg
Female sexual maturity: 4.6 years
Male sexual maturity: 4.3 years

Lifespan from AnAge · AnAge record · other traits from AnAge Build 15 (HAGRID 03834)

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 RefSeq

Whole genome16,697 bp

Protein-coding11,403 bp

12S rRNA952 bp

16S rRNA1,684 bp

All tRNA1,554 bp

D-loop1,041 bp

Genes and regions

Select a column to sort; select a gene to compare it across species

Base composition of Alosa sapidissima genes

ND1NADH dehydrogenase subunit 1	975 bp	24.5%	27.1%	17.2%	31.2%	48.41%	−0.288	−0.050
ND2NADH dehydrogenase subunit 2	1,045 bp	26.9%	22.5%	14.1%	36.6%	50.62%	−0.444	+0.089
COX1Cytochrome c oxidase subunit I	1,551 bp	24.8%	28.0%	20.3%	27.0%	47.26%	−0.141	−0.061
COX2Cytochrome c oxidase subunit II	691 bp	28.9%	25.3%	17.7%	28.1%	45.73%	−0.228	+0.067
ATP8ATP synthase F0 subunit 8	168 bp	31.5%	28.0%	12.5%	28.0%	40.48%	−0.382	+0.060
ATP6ATP synthase F0 subunit 6	684 bp	26.0%	27.8%	14.2%	32.0%	46.20%	−0.386	−0.033
COX3Cytochrome c oxidase subunit III	785 bp	24.8%	25.6%	18.7%	30.8%	49.55%	−0.244	−0.015
ND3NADH dehydrogenase subunit 3	349 bp	23.5%	28.1%	17.5%	30.9%	48.42%	−0.278	−0.089
ND4LNADH dehydrogenase subunit 4L	297 bp	23.2%	27.3%	17.8%	31.6%	49.50%	−0.279	−0.080
ND4NADH dehydrogenase subunit 4	1,381 bp	26.9%	26.6%	17.1%	29.4%	46.49%	−0.265	+0.004
ND5NADH dehydrogenase subunit 5	1,836 bp	29.0%	25.3%	14.6%	31.1%	45.70%	−0.361	+0.067
ND6NADH dehydrogenase subunit 6	522 bp	39.3%	14.6%	14.2%	32.0%	46.17%	−0.386	+0.459
CYTBCytochrome b	1,141 bp	26.5%	27.5%	17.0%	29.0%	46.01%	−0.261	−0.019
12S rRNA12S ribosomal RNA	952 bp	29.4%	20.1%	22.6%	27.9%	50.53%	−0.106	+0.189
16S rRNA16S ribosomal RNA	1,684 bp	33.3%	19.1%	21.9%	25.8%	47.68%	−0.081	+0.271
D-loopControl region (D-loop)	1,041 bp	33.9%	30.2%	15.1%	20.8%	35.93%	−0.160	+0.058

Codon usage

Counts per codon, darker is more frequent

Gene

3,806 codons in all protein-coding genes. Grouped with the Vertebrate mitochondrial code (NCBI table 2).

Phe F6.2%

UUU92

UUC143

Leu L15.9%

UUA83

UUG25

CUU117

CUC112

CUA204

CUG65

Ile I6.8%

AUU145

AUC115

Met M4.3%

AUA69

AUG95

Val V6.5%

GUU57

GUC59

GUA94

GUG36

Ser S6.4%

UCU38

UCC70

UCA71

UCG6

AGU13

AGC45

Pro P5.8%

CCU52

CCC85

CCA71

CCG13

Thr T8.1%

ACU49

ACC112

ACA130

ACG19

Ala A9.6%

GCU39

GCC183

GCA123

GCG19

Tyr Y3.1%

UAU36

UAC81

His H2.7%

CAU18

CAC85

Gln Q2.4%

CAA80

CAG13

Asn N3.0%

AAU34

AAC79

Lys K2.0%

AAA67

AAG8

Asp D2.0%

GAU17

GAC58

Glu E2.5%

GAA66

GAG28

Cys C0.8%

UGU15

UGC15

Trp W3.1%

UGA103

UGG16

Arg R2.2%

CGU9

CGC11

CGA51

CGG11

Gly G6.5%

GGU28

GGC60

GGA87

GGG74

Stop 0.2%

UAA5

UAG2

AGA0

AGG0

Genome map

38 annotated features in NC_014690.1

Hover, 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 (46.8%, dashed): out is GC-richer, in is AT-richer (full height = 6 points).

All 38 features as a table

Annotated features of Alosa sapidissima (NC_014690.1)
Feature	Type	Start	End	Length	Strand	GC
tRNA-Phe	Transfer RNA	1	69	69 bp	+	–
12S rRNA	Ribosomal RNA	70	1,021	952 bp	+	50.5%
tRNA-Val	Transfer RNA	1,022	1,093	72 bp	+	–
16S rRNA	Ribosomal RNA	1,094	2,777	1,684 bp	+	47.7%
tRNA-Leu (UUR)	Transfer RNA	2,778	2,854	77 bp	+	–
ND1	Protein-coding gene	2,855	3,829	975 bp	+	48.4%
tRNA-Ile	Transfer RNA	3,838	3,909	72 bp	+	–
tRNA-Gln	Transfer RNA	3,909	3,979	71 bp	−	–
tRNA-Met	Transfer RNA	3,979	4,047	69 bp	+	–
ND2	Protein-coding gene	4,048	5,092	1,045 bp	+	50.6%
tRNA-Trp	Transfer RNA	5,093	5,164	72 bp	+	–
tRNA-Ala	Transfer RNA	5,166	5,234	69 bp	−	–
tRNA-Asn	Transfer RNA	5,235	5,308	74 bp	−	–
tRNA-Cys	Transfer RNA	5,340	5,405	66 bp	−	–
tRNA-Tyr	Transfer RNA	5,408	5,478	71 bp	−	–
COX1	Protein-coding gene	5,480	7,030	1,551 bp	+	47.3%
tRNA-Ser (UCN)	Transfer RNA	7,031	7,101	71 bp	−	–
tRNA-Asp	Transfer RNA	7,105	7,173	69 bp	+	–
COX2	Protein-coding gene	7,186	7,876	691 bp	+	45.7%
tRNA-Lys	Transfer RNA	7,877	7,950	74 bp	+	–
ATP8	Protein-coding gene	7,952	8,119	168 bp	+	40.5%
ATP6	Protein-coding gene	8,110	8,793	684 bp	+	46.2%
COX3	Protein-coding gene	8,793	9,577	785 bp	+	49.6%
tRNA-Gly	Transfer RNA	9,578	9,649	72 bp	+	–
ND3	Protein-coding gene	9,650	9,998	349 bp	+	48.4%
tRNA-Arg	Transfer RNA	9,999	10,068	70 bp	+	–
ND4L	Protein-coding gene	10,069	10,365	297 bp	+	49.5%
ND4	Protein-coding gene	10,359	11,739	1,381 bp	+	46.5%
tRNA-His	Transfer RNA	11,740	11,808	69 bp	+	–
tRNA-Ser (AGY)	Transfer RNA	11,809	11,875	67 bp	+	–
tRNA-Leu (CUN)	Transfer RNA	11,876	11,947	72 bp	+	–
ND5	Protein-coding gene	11,948	13,783	1,836 bp	+	45.7%
ND6	Protein-coding gene	13,780	14,301	522 bp	−	46.2%
tRNA-Glu	Transfer RNA	14,302	14,370	69 bp	−	–
CYTB	Protein-coding gene	14,375	15,515	1,141 bp	+	46.0%
tRNA-Thr	Transfer RNA	15,516	15,587	72 bp	+	–
tRNA-Pro	Transfer RNA	15,587	15,656	70 bp	−	–
D-loop	Control region	15,657	16,697	1,041 bp	–	35.9%