order · mtDNA statistics

Rajiformes

24 species in 2 families. Every region of their mitochondrial genomes, side by side.

Group

species

39.6%

mean GC, whole genome

SD 3.1, range 33.7–42.4%

16,910

median genome length, bp

Range 16,719–17,127 bp

families

Regions

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

Parameter

Chart

GC % of every region
Region
Whole genome	24	39.63%	3.14	0.079	33.65%Bathyraja maculata	41.11%	42.39%Okamejei kenojei	−0.22	0.29
Protein-coding	24	40.59%	3.70	0.091	33.56%Bathyraja interrupta	42.30%	43.92%Okamejei kenojei	−0.23	0.29
All rRNA	24	39.33%	1.56	0.040	36.38%Bathyraja taranetzi	39.87%	40.86%Okamejei kenojei	−0.17	0.43
All tRNA	24	38.50%	1.39	0.036	35.64%Bathyraja parmifera	39.10%	39.73%Dipturus batis	−0.14	0.51
12S rRNA	24	41.10%	1.61	0.039	37.98%Bathyraja albomaculata	41.62%	42.71%Caliraja rhina	−0.20	0.36
16S rRNA	24	38.32%	1.56	0.041	35.32%Bathyraja taranetzi	38.83%	40.33%Okamejei kenojei	−0.15	0.49
D-loop	17	34.02%	1.94	0.057	27.31%Bathyraja albomaculata	34.46%	36.48%Leucoraja naevus	−0.14	0.6
ND1	24	41.41%	4.54	0.110	32.41%Bathyraja parmifera	43.64%	45.44%Okamejei kenojei	−0.20	0.34
ND2	24	40.55%	4.44	0.109	31.74%Bathyraja albomaculata	42.45%	44.74%Leucoraja naevus	−0.24	0.27
COX1	24	41.50%	3.12	0.075	35.39%Bathyraja parmifera	42.87%	44.83%Okamejei kenojei	−0.21	0.33
COX2	24	37.65%	2.59	0.069	32.27%Bathyraja interrupta	38.64%	40.38%Beringraja binoculata	−0.23	0.28
ATP8	24	34.60%	4.51	0.130	25.60%Bathyraja maculata	36.31%	39.29%Dipturus trachyderma	−0.16	0.46
ATP6	24	39.19%	4.44	0.113	30.41%Bathyraja interrupta	40.94%	44.15%Beringraja binoculata	−0.16	0.45
COX3	24	44.39%	3.78	0.085	36.90%Bathyraja albomaculata	45.99%	47.96%Leucoraja naevus	−0.22	0.3
ND3	24	43.38%	4.54	0.105	34.38%Bathyraja interrupta	45.13%	47.85%Beringraja binoculata	−0.20	0.35
ND4L	24	43.24%	3.80	0.088	35.69%Bathyraja interrupta	44.95%	46.80%Dipturus trachyderma	−0.12	0.57
ND4	24	40.27%	3.88	0.096	32.37%Bathyraja maculata	42.07%	43.98%Okamejei kenojei	−0.25	0.24
ND5	24	39.45%	3.38	0.086	32.52%Bathyraja taranetzi	40.93%	42.97%Okamejei kenojei	−0.27	0.21
ND6	24	37.19%	2.17	0.058	32.95%Bathyraja taranetzi	37.86%	40.46%Leucoraja naevus	−0.16	0.46
CYTB	24	41.43%	4.30	0.104	33.07%Bathyraja taranetzi	43.35%	45.93%Okamejei kenojei	−0.26	0.22

Families of Rajiformes

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

Region

Parameter

Chart

Families of Rajiformes

Rajidae	19	41.18%	0.67	0.016	39.60%Raja undulata	41.24%	42.39%Okamejei kenojei	0.14	0.56
Arhynchobatidae	5	33.74%	0.12	0.004	33.65%Bathyraja maculata	33.69%	33.94%Bathyraja albomaculata	−0.35	0.57

Codon usage

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

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

Rajiformes taxon page Plot GC content against GC skew 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.