family · mtDNA statistics

Phasianidae

15 species in 13 genera. Every region of their mitochondrial genomes, side by side.

Group

species

44.7%

mean GC, whole genome

SD 0.9, range 43.5–46.6%

16,686

median genome length, bp

Range 16,673–16,784 bp

genera

Regions

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

Parameter

Chart

GC % of every region
Region
Whole genome	15	44.68%	0.87	0.019	43.51%Meleagris gallopavo	44.49%	46.62%Polyplectron napoleonis	0.10	0.74
Protein-coding	15	45.21%	1.00	0.022	44.00%Meleagris gallopavo	44.98%	47.44%Polyplectron napoleonis	0.11	0.71
All rRNA	15	45.57%	1.00	0.022	43.92%Meleagris gallopavo	45.81%	47.34%Polyplectron napoleonis	0.13	0.63
All tRNA	15	42.39%	0.57	0.013	41.36%Phasianus colchicus	42.42%	43.81%Polyplectron napoleonis	−0.25	0.38
12S rRNA	15	46.92%	1.48	0.032	44.91%Meleagris gallopavo	47.13%	50.00%Polyplectron napoleonis	0.26	0.35
16S rRNA	15	44.75%	0.93	0.021	43.33%Meleagris gallopavo	44.61%	46.30%Gallus gallus	−0.02	0.95
D-loop	15	40.75%	0.80	0.020	39.83%Excalfactoria chinensis	40.58%	42.78%Syrmaticus reevesii	−0.04	0.88
ND1	15	46.01%	1.23	0.027	44.21%Coturnix japonica	45.74%	48.82%Polyplectron napoleonis	0.30	0.28
ND2	15	42.72%	1.43	0.034	40.90%Tetrastes bonasia	42.17%	45.52%Polyplectron napoleonis	0.15	0.6
COX1	15	45.83%	1.14	0.025	44.42%Phasianus colchicus	45.45%	47.78%Perdix perdix	−0.44	0.1
COX2	15	44.78%	1.24	0.028	43.13%Meleagris gallopavo	44.59%	47.81%Gallus gallus	0.03	0.9
ATP8	15	40.42%	1.58	0.039	38.10%Coturnix japonica	40.61%	44.85%Polyplectron napoleonis	0.11	0.69
ATP6	15	45.85%	1.39	0.030	43.86%Meleagris gallopavo	45.47%	48.98%Gallus gallus	0.11	0.69
COX3	15	46.20%	1.24	0.027	44.39%Excalfactoria chinensis	45.79%	49.36%Gallus gallus	0.43	0.11
ND3	15	45.63%	0.94	0.021	44.16%Phasianus colchicus	45.58%	47.86%Polyplectron napoleonis	−0.35	0.2
ND4L	15	46.97%	1.67	0.036	44.44%Lyrurus tetrix	46.46%	49.49%Phasianus colchicus	0.37	0.18
ND4	15	43.88%	1.64	0.037	41.29%Lagopus muta	43.83%	46.23%Gallus gallus	0.26	0.36
ND5	15	44.85%	1.00	0.022	43.12%Lyrurus tetrix	44.88%	47.50%Polyplectron napoleonis	0.08	0.78
ND6	15	45.97%	1.33	0.029	43.87%Chrysolophus amherstiae	45.79%	48.66%Polyplectron napoleonis	0.01	0.98
CYTB	15	46.72%	0.97	0.021	45.32%Meleagris gallopavo	46.63%	48.64%Polyplectron napoleonis	0.05	0.85

Genera of Phasianidae

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

Region

Parameter

Chart

Genera of Phasianidae

Chrysolophus	2	44.76%	0.06	0.001	44.72%Chrysolophus amherstiae	44.76%	44.81%Chrysolophus pictus	–	–
Lagopus	2	44.01%	0.10	0.002	43.94%Lagopus muta	44.01%	44.08%Lagopus lagopus	–	–
Excalfactoria	1	44.63%	–	–	44.63%Excalfactoria chinensis	44.63%	44.63%Excalfactoria chinensis	–	–
Coturnix	1	44.42%	–	–	44.42%Coturnix japonica	44.42%	44.42%Coturnix japonica	–	–
Gallus	1	45.95%	–	–	45.95%Gallus gallus	45.95%	45.95%Gallus gallus	–	–
Lyrurus	1	43.80%	–	–	43.80%Lyrurus tetrix	43.80%	43.80%Lyrurus tetrix	–	–
Meleagris	1	43.51%	–	–	43.51%Meleagris gallopavo	43.51%	43.51%Meleagris gallopavo	–	–
Pavo	1	44.49%	–	–	44.49%Pavo cristatus	44.49%	44.49%Pavo cristatus	–	–
Phasianus	1	44.13%	–	–	44.13%Phasianus colchicus	44.13%	44.13%Phasianus colchicus	–	–
Polyplectron	1	46.62%	–	–	46.62%Polyplectron napoleonis	46.62%	46.62%Polyplectron napoleonis	–	–
Syrmaticus	1	45.35%	–	–	45.35%Syrmaticus reevesii	45.35%	45.35%Syrmaticus reevesii	–	–
Tetrastes	1	44.09%	–	–	44.09%Tetrastes bonasia	44.09%	44.09%Tetrastes bonasia	–	–
Perdix	1	45.67%	–	–	45.67%Perdix perdix	45.67%	45.67%Perdix perdix	–	–

Codon usage

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

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

Phasianidae 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.