family · mtDNA statistics

Pectinidae

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

Group

species

42.4%

mean GC, whole genome

SD 2.0, range 39.2–44.3%

19,484

median genome length, bp

Range 16,211–32,115 bp

genera

Regions

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

Parameter

Chart

GC % of every region
Region
Whole genome	5	42.41%	1.99	0.047	39.18%Amusium pleuronectes	42.72%	44.33%Placopecten magellanicus	0.75	0.14
Protein-coding	5	42.36%	2.38	0.056	38.96%Amusium pleuronectes	42.99%	44.60%Mimachlamys varia	0.68	0.2
All rRNA	5	42.27%	2.51	0.059	38.51%Amusium pleuronectes	42.17%	44.97%Mimachlamys varia	0.77	0.13
All tRNA	5	48.54%	1.95	0.040	46.32%Argopecten irradians	48.25%	51.01%Ylistrum balloti	0.62	0.26
12S rRNA	5	44.67%	2.79	0.062	40.66%Amusium pleuronectes	45.04%	47.30%Mimachlamys varia	0.85	0.07
16S rRNA	5	40.84%	2.37	0.058	37.04%Amusium pleuronectes	41.36%	43.38%Mimachlamys varia	0.66	0.22
D-loop	2	25.12%	21.30	0.848	10.06%Amusium pleuronectes	25.12%	40.19%Ylistrum balloti	–	–
ND1	5	40.98%	2.50	0.061	37.42%Amusium pleuronectes	41.16%	43.94%Mimachlamys varia	0.67	0.22
ND2	5	42.66%	1.50	0.035	41.12%Ylistrum balloti	42.44%	44.55%Argopecten irradians	−0.02	0.98
COX1	5	41.51%	3.19	0.077	36.74%Amusium pleuronectes	42.63%	45.01%Mimachlamys varia	0.57	0.32
COX2	5	43.49%	2.47	0.057	40.49%Amusium pleuronectes	44.21%	46.13%Placopecten magellanicus	0.72	0.17
ATP8	3	39.05%	5.36	0.137	33.97%Ylistrum balloti	38.52%	44.65%Mimachlamys varia	–	–
ATP6	5	41.92%	1.98	0.047	38.80%Ylistrum balloti	43.07%	43.47%Argopecten irradians	0.26	0.67
COX3	5	43.25%	2.23	0.052	39.64%Amusium pleuronectes	43.39%	45.53%Placopecten magellanicus	0.79	0.11
ND3	5	42.67%	2.18	0.051	40.23%Amusium pleuronectes	42.53%	45.11%Mimachlamys varia	0.75	0.15
ND4L	5	45.84%	4.39	0.096	39.39%Amusium pleuronectes	45.61%	50.17%Placopecten magellanicus	0.86	0.06
ND4	5	41.82%	2.34	0.056	39.01%Amusium pleuronectes	41.84%	45.17%Mimachlamys varia	0.57	0.31
ND5	5	42.72%	2.79	0.065	38.55%Amusium pleuronectes	42.90%	46.08%Placopecten magellanicus	0.83	0.08
ND6	5	42.80%	4.53	0.106	36.97%Amusium pleuronectes	43.70%	48.32%Placopecten magellanicus	0.78	0.12
CYTB	5	42.25%	1.83	0.043	39.37%Amusium pleuronectes	43.01%	44.00%Mimachlamys varia	0.49	0.4

Genera of Pectinidae

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

Region

Parameter

Chart

Genera of Pectinidae

Placopecten	1	44.33%	–	–	44.33%Placopecten magellanicus	44.33%	44.33%Placopecten magellanicus	–	–
Argopecten	1	42.72%	–	–	42.72%Argopecten irradians	42.72%	42.72%Argopecten irradians	–	–
Mimachlamys	1	43.69%	–	–	43.69%Mimachlamys varia	43.69%	43.69%Mimachlamys varia	–	–
Amusium	1	39.18%	–	–	39.18%Amusium pleuronectes	39.18%	39.18%Amusium pleuronectes	–	–
Ylistrum	1	42.12%	–	–	42.12%Ylistrum balloti	42.12%	42.12%Ylistrum balloti	–	–

Codon usage

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

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

Pectinidae 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.