family · mtDNA statistics

Cervidae

22 species in 15 genera. Every region of their mitochondrial genomes, side by side.

Group

species

37.2%

mean GC, whole genome

SD 0.7, range 35.5–38.2%

16,357

median genome length, bp

Range 16,330–16,505 bp

genera

Regions

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

Parameter

Chart

GC % of every region
Region
Whole genome	22	37.22%	0.71	0.019	35.53%Ozotoceros bezoarticus	37.44%	38.17%Rucervus eldii	0.49	0.02
Protein-coding	22	37.16%	0.92	0.025	35.12%Ozotoceros bezoarticus	37.44%	38.25%Rucervus eldii	0.48	0.02
All rRNA	22	38.01%	0.39	0.010	37.14%Muntiacus muntjak	38.14%	38.51%Cervus nippon	0.49	0.02
All tRNA	22	36.02%	0.39	0.011	35.28%Ozotoceros bezoarticus	36.13%	36.50%Cervus nippon	0.39	0.07
12S rRNA	22	40.13%	0.61	0.015	39.16%Capreolus capreolus	40.25%	41.26%Dama dama	0.50	0.02
16S rRNA	22	36.72%	0.48	0.013	35.23%Muntiacus muntjak	36.80%	37.32%Axis porcinus	0.25	0.27
D-loop	22	38.28%	1.10	0.029	36.08%Rusa unicolor	38.38%	40.09%Rucervus eldii	−0.17	0.44
ND1	22	37.65%	1.36	0.036	35.25%Ozotoceros bezoarticus	37.87%	39.54%Cervus nippon	0.56	0.007
ND2	22	34.00%	1.12	0.033	31.99%Rangifer tarandus	34.21%	36.56%Rucervus eldii	0.43	0.05
COX1	22	38.28%	1.07	0.028	35.99%Hydropotes inermis	38.51%	39.68%Cervus nippon	0.62	0.002
COX2	22	36.09%	1.14	0.032	33.77%Hydropotes inermis	36.33%	37.43%Muntiacus muntjak	0.40	0.07
ATP8	22	28.47%	1.60	0.056	25.37%Elaphodus cephalophus	29.35%	31.34%Muntiacus muntjak	−0.27	0.22
ATP6	22	37.67%	1.00	0.027	35.54%Pudu puda	37.67%	39.35%Rucervus eldii	0.22	0.33
COX3	22	41.66%	0.78	0.019	39.29%Ozotoceros bezoarticus	41.84%	42.60%Muntiacus reevesi	0.12	0.6
ND3	22	38.00%	1.38	0.036	35.26%Hydropotes inermis	38.01%	40.75%Axis porcinus	0.42	0.05
ND4L	22	35.30%	1.40	0.040	31.65%Ozotoceros bezoarticus	35.35%	37.37%Cervus elaphus	0.12	0.59
ND4	22	36.76%	1.15	0.031	34.18%Pudu puda	37.26%	38.24%Muntiacus muntjak	0.39	0.07
ND5	22	35.99%	1.12	0.031	33.66%Ozotoceros bezoarticus	36.27%	37.40%Muntiacus muntjak	0.35	0.11
ND6	22	35.77%	1.33	0.037	33.33%Rangifer tarandus	35.89%	37.88%Cervus nippon	0.43	0.05
CYTB	22	39.61%	1.20	0.030	36.49%Ozotoceros bezoarticus	39.91%	41.05%Elaphurus davidianus	0.35	0.11

Genera of Cervidae

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

Region

Parameter

Chart

Genera of Cervidae

Rusa	3	37.61%	0.07	0.002	37.53%Rusa unicolor	37.64%	37.66%Rusa alfredi	–	–
Axis	2	37.34%	0.14	0.004	37.24%Axis axis	37.34%	37.44%Axis porcinus	–	–
Cervus	2	37.90%	0.15	0.004	37.79%Cervus elaphus	37.90%	38.00%Cervus nippon	–	–
Muntiacus	2	37.85%	0.00	0.000	37.85%Muntiacus muntjak	37.85%	37.85%Muntiacus muntjak	–	–
Odocoileus	2	36.88%	0.03	0.001	36.86%Odocoileus hemionus	36.88%	36.90%Odocoileus virginianus	–	–
Rucervus	2	37.95%	0.31	0.008	37.73%Rucervus duvaucelii	37.95%	38.17%Rucervus eldii	–	–
Capreolus	1	36.55%	–	–	36.55%Capreolus capreolus	36.55%	36.55%Capreolus capreolus	–	–
Dama	1	37.23%	–	–	37.23%Dama dama	37.23%	37.23%Dama dama	–	–
Elaphodus	1	37.44%	–	–	37.44%Elaphodus cephalophus	37.44%	37.44%Elaphodus cephalophus	–	–
Elaphurus	1	37.97%	–	–	37.97%Elaphurus davidianus	37.97%	37.97%Elaphurus davidianus	–	–
Hydropotes	1	36.10%	–	–	36.10%Hydropotes inermis	36.10%	36.10%Hydropotes inermis	–	–
Mazama	1	36.70%	–	–	36.70%Mazama americana	36.70%	36.70%Mazama americana	–	–
Ozotoceros	1	35.53%	–	–	35.53%Ozotoceros bezoarticus	35.53%	35.53%Ozotoceros bezoarticus	–	–
Pudu	1	36.49%	–	–	36.49%Pudu puda	36.49%	36.49%Pudu puda	–	–
Rangifer	1	36.22%	–	–	36.22%Rangifer tarandus	36.22%	36.22%Rangifer tarandus	–	–

Codon usage

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

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

Cervidae 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.