family · mtDNA statistics

Ambystomatidae

4 species in 1 genus. Every region of their mitochondrial genomes, side by side.

Group

species

33.7%

mean GC, whole genome

SD 0.7, range 33.1–34.5%

16,368

median genome length, bp

Range 16,358–16,375 bp

genus

Regions

GC content of each region across Ambystomatidae, % of A + C + G + T

Parameter

Chart

GC % of every region
Region
Whole genome	4	33.67%	0.66	0.020	33.06%Ambystoma tigrinum	33.55%	34.53%Ambystoma talpoideum	–	–
Protein-coding	4	33.17%	0.92	0.028	32.34%Ambystoma tigrinum	32.96%	34.41%Ambystoma talpoideum	–	–
All rRNA	4	34.87%	0.13	0.004	34.73%Ambystoma talpoideum	34.86%	35.01%Ambystoma texanum	–	–
All tRNA	4	32.96%	0.87	0.027	32.12%Ambystoma tigrinum	32.78%	34.16%Ambystoma talpoideum	–	–
12S rRNA	4	37.89%	0.42	0.011	37.38%Ambystoma talpoideum	37.96%	38.25%Ambystoma tigrinum	–	–
16S rRNA	4	33.07%	0.10	0.003	32.93%Ambystoma tigrinum	33.09%	33.16%Ambystoma talpoideum	–	–
D-loop	4	37.15%	0.41	0.011	36.60%Ambystoma talpoideum	37.20%	37.58%Ambystoma tigrinum	–	–
ND1	4	32.28%	1.88	0.058	30.75%Ambystoma mexicanum	31.89%	34.61%Ambystoma talpoideum	–	–
ND2	4	29.48%	1.27	0.043	28.35%Ambystoma mexicanum	29.39%	30.81%Ambystoma talpoideum	–	–
COX1	4	36.87%	1.32	0.036	35.92%Ambystoma tigrinum	36.37%	38.81%Ambystoma talpoideum	–	–
COX2	4	35.62%	1.02	0.029	34.40%Ambystoma texanum	35.64%	36.79%Ambystoma talpoideum	–	–
ATP8	4	26.64%	2.08	0.078	24.40%Ambystoma tigrinum	26.49%	29.17%Ambystoma talpoideum	–	–
ATP6	4	33.22%	0.37	0.011	32.75%Ambystoma mexicanum	33.26%	33.63%Ambystoma talpoideum	–	–
COX3	4	37.51%	1.59	0.042	35.92%Ambystoma tigrinum	37.56%	38.98%Ambystoma texanum	–	–
ND3	4	32.88%	0.94	0.029	31.50%Ambystoma talpoideum	33.19%	33.62%Ambystoma mexicanum	–	–
ND4L	4	32.32%	0.87	0.027	31.31%Ambystoma mexicanum	32.32%	33.33%Ambystoma talpoideum	–	–
ND4	4	32.31%	0.30	0.009	31.93%Ambystoma tigrinum	32.36%	32.58%Ambystoma mexicanum	–	–
ND5	4	31.36%	1.07	0.034	30.00%Ambystoma tigrinum	31.42%	32.61%Ambystoma talpoideum	–	–
ND6	4	32.41%	1.29	0.040	30.81%Ambystoma texanum	32.56%	33.72%Ambystoma talpoideum	–	–
CYTB	4	33.33%	1.41	0.042	32.25%Ambystoma mexicanum	32.91%	35.23%Ambystoma talpoideum	–	–

Genera of Ambystomatidae

GC content of the whole genome, % of A + C + G + T

Region

Parameter

Chart

Genera of Ambystomatidae

Ambystoma	4	33.67%	0.66	0.020	33.06%Ambystoma tigrinum	33.55%	34.53%Ambystoma talpoideum	–	–

Codon usage

Share of each codon in all 13 protein-coding genes, across Ambystomatidae

Gene

Loading codon usage…

Every species, region by region

Each region's page lists the value of every species, with the same statistics by class, order or family and a CSV download.

Whole genome Protein-coding All rRNA All tRNA 12S rRNA 16S rRNA D-loop ND1 ND2 COX1 COX2 ATP8 ATP6 COX3 ND3 ND4L ND4 ND5 ND6 CYTB

Ambystomatidae taxon page All data downloads

The charts

Each chart draws the rows of the table under it, in the table's order: sort a column to reorder the chart.Chart sets its axis.
Distribution: the range (line), mean ± SD (bar), median (tick) and mean (dot). Lengths of the regions are on a log scale.
Variation: the coefficient of variation, or the SD for the skews, which vary around zero.
Lifespan r: r with its 95% confidence interval (Fisher z). Lifespan map: r of every parameter in every region at once, bold where the Benjamini–Hochberg q-value over the map is below 0.05.

What the numbers are

Species: species with the region annotated. SD is the sample standard deviation, CV = SD / mean.
Base percentages are over A + C + G + T, so GC % + AT % = 100. Skews are on the L strand as deposited in RefSeq: GC skew = (G − C) / (G + C), AT skew = (A − T) / (A + T).
Min and Max name the species with the extreme value.

Lifespan columns

r is the Pearson correlation of the parameter with log₁₀ maximum lifespan within the group (5 or more species), and p its two-tailed p-value, as on the original MitoAge. They are not corrected for multiple testing or for shared ancestry: the plot shows Benjamini–Hochberg q-values and phylogenetic contrasts.

The original site labelled the base columns with their complements, so its skews have the opposite sign. Seemethods.