family · mtDNA statistics

Salamandridae

7 species in 5 genera. Every region of their mitochondrial genomes, side by side.

Group

species

39.8%

mean GC, whole genome

SD 1.7, range 37.6–41.7%

16,546

median genome length, bp

Range 16,301–17,100 bp

genera

Regions

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

Parameter

Chart

GC % of every region
Region
Whole genome	7	39.83%	1.73	0.043	37.59%Notophthalmus perstriatus	40.66%	41.70%Triturus cristatus	0.62	0.14
Protein-coding	7	40.47%	2.02	0.050	37.79%Notophthalmus perstriatus	41.33%	42.58%Triturus cristatus	0.61	0.14
All rRNA	7	38.18%	1.09	0.028	36.86%Notophthalmus perstriatus	38.50%	39.45%Triturus cristatus	0.64	0.12
All tRNA	7	37.89%	0.71	0.019	37.07%Notophthalmus perstriatus	37.67%	38.74%Triturus marmoratus	0.65	0.11
12S rRNA	7	42.02%	1.49	0.036	40.09%Pachytriton brevipes	42.76%	43.61%Triturus carnifex	0.64	0.12
16S rRNA	7	35.89%	0.91	0.025	34.62%Notophthalmus perstriatus	35.98%	37.10%Triturus cristatus	0.59	0.16
D-loop	6	36.52%	0.42	0.011	35.87%Triturus carnifex	36.57%	37.04%Tylototriton verrucosus	0.21	0.69
ND1	7	39.00%	1.32	0.034	37.05%Notophthalmus perstriatus	39.36%	40.74%Triturus cristatus	0.60	0.15
ND2	7	38.42%	2.82	0.073	34.87%Notophthalmus perstriatus	37.84%	42.42%Triturus cristatus	0.77	0.04
COX1	7	43.37%	2.03	0.047	40.32%Pachytriton brevipes	44.36%	45.33%Triturus carnifex	0.55	0.2
COX2	7	40.49%	2.25	0.056	35.90%Notophthalmus perstriatus	41.13%	42.44%Triturus carnifex	0.23	0.62
ATP8	7	33.08%	2.28	0.069	29.17%Paramesotriton chinensis	33.33%	36.31%Triturus cristatus	0.54	0.21
ATP6	7	40.39%	3.11	0.077	35.96%Notophthalmus perstriatus	41.52%	44.01%Triturus carnifex	0.52	0.24
COX3	7	43.95%	1.73	0.039	41.20%Notophthalmus perstriatus	43.75%	46.68%Tylototriton verrucosus	0.05	0.92
ND3	7	42.01%	2.70	0.064	37.28%Pachytriton brevipes	41.91%	45.40%Triturus carnifex	0.67	0.1
ND4L	7	40.07%	1.90	0.048	37.71%Notophthalmus perstriatus	40.07%	42.42%Triturus marmoratus	0.37	0.42
ND4	7	40.67%	2.30	0.056	37.59%Pachytriton brevipes	42.02%	42.82%Triturus marmoratus	0.69	0.08
ND5	7	37.57%	2.36	0.063	34.93%Pachytriton brevipes	38.41%	40.11%Triturus cristatus	0.68	0.09
ND6	7	41.98%	2.48	0.059	38.73%Notophthalmus perstriatus	42.20%	45.09%Triturus carnifex	0.48	0.28
CYTB	7	41.55%	1.97	0.047	38.39%Notophthalmus perstriatus	41.72%	43.73%Triturus cristatus	0.44	0.32

Genera of Salamandridae

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

Region

Parameter

Chart

Genera of Salamandridae

Triturus	3	41.33%	0.45	0.011	40.84%Triturus marmoratus	41.46%	41.70%Triturus cristatus	–	–
Tylototriton	1	40.66%	–	–	40.66%Tylototriton verrucosus	40.66%	40.66%Tylototriton verrucosus	–	–
Notophthalmus	1	37.59%	–	–	37.59%Notophthalmus perstriatus	37.59%	37.59%Notophthalmus perstriatus	–	–
Paramesotriton	1	38.64%	–	–	38.64%Paramesotriton chinensis	38.64%	38.64%Paramesotriton chinensis	–	–
Pachytriton	1	37.92%	–	–	37.92%Pachytriton brevipes	37.92%	37.92%Pachytriton brevipes	–	–

Codon usage

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

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

Salamandridae 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.