Pteroplatytrygon violacea

Pelagic stingray

Maximum lifespan

24 yr

AnAge record

mtDNA size

17,665 bp

RefSeq NC_024570.1

GC content

40.60%

Whole genome

Non-coding

2,021 bp

D-loop 1,917 bp

Where Pelagic stingray sits among 2,335 species

Whole-genome GC content against maximum lifespan. Pelagic stingray has the 684th longest lifespan of them.

This species
Other sharks and rays
Other classes

Plot other mtDNA features with this species highlighted

Base composition

Whole genome17,665 bp

GC skew (G − C) / (G + C): −0.327
AT skew (A − T) / (A + T): +0.036

Life history

Maximum lifespan: 24 years
Female sexual maturity: 3 years
Litter or clutch size: 4.5

Lifespan from AnAge · AnAge record · other traits from AnAge Build 15 (HAGRID 01806)

About this record

Lifespan source: AnAge build 15
Based on: an animal in the wild
Data quality: acceptable, medium sample
Licence: Free to use, subject to the Human Ageing Genomic Resources conditions of use
Status: Unchanged since build 1
In the database since: build 1 (2015-07-01)

Every change against the 2015 build is in the changelog download.

Composition by region

Reference (L) strand as deposited in RefSeq

Whole genome17,665 bp

Protein-coding11,429 bp

12S rRNA962 bp

16S rRNA1,695 bp

All tRNA1,558 bp

D-loop1,917 bp

Genes and regions

Select a column to sort; select a gene to compare it across species

Base composition of Pteroplatytrygon violacea genes

ND1NADH dehydrogenase subunit 1	978 bp	28.9%	28.8%	11.0%	31.2%	42.23%	−0.477	+0.002
ND2NADH dehydrogenase subunit 2	1,046 bp	31.5%	27.6%	9.3%	31.5%	40.82%	−0.546	+0.066
COX1Cytochrome c oxidase subunit I	1,560 bp	27.4%	32.0%	16.2%	24.5%	40.64%	−0.205	−0.078
COX2Cytochrome c oxidase subunit II	691 bp	31.0%	28.1%	15.1%	25.9%	40.96%	−0.265	+0.049
ATP8ATP synthase F0 subunit 8	168 bp	36.9%	28.6%	7.7%	26.8%	34.52%	−0.552	+0.127
ATP6ATP synthase F0 subunit 6	684 bp	28.2%	30.7%	11.5%	29.5%	41.08%	−0.438	−0.042
COX3Cytochrome c oxidase subunit III	786 bp	23.7%	29.1%	17.4%	29.8%	47.20%	−0.261	−0.104
ND3NADH dehydrogenase subunit 3	349 bp	24.6%	30.7%	14.6%	30.1%	44.70%	−0.346	−0.109
ND4LNADH dehydrogenase subunit 4L	297 bp	23.2%	32.3%	13.1%	31.3%	44.44%	−0.409	−0.164
ND4NADH dehydrogenase subunit 4	1,381 bp	29.3%	28.6%	11.4%	30.8%	42.14%	−0.460	+0.011
ND5NADH dehydrogenase subunit 5	1,845 bp	31.1%	30.3%	9.8%	28.8%	38.59%	−0.492	+0.013
ND6NADH dehydrogenase subunit 6	522 bp	39.8%	18.4%	9.8%	32.0%	41.76%	−0.532	+0.368
CYTBCytochrome b	1,143 bp	27.0%	29.8%	11.8%	31.3%	43.13%	−0.452	−0.049
12S rRNA12S ribosomal RNA	962 bp	32.5%	24.1%	18.5%	24.8%	43.35%	−0.146	+0.149
16S rRNA16S ribosomal RNA	1,695 bp	35.6%	24.9%	17.3%	22.2%	39.53%	−0.122	+0.177
D-loopControl region (D-loop)	1,917 bp	32.8%	31.5%	13.8%	21.9%	35.68%	−0.228	+0.020

Codon usage

Counts per codon, darker is more frequent

Gene

3,815 codons in all protein-coding genes. Grouped with the Vertebrate mitochondrial code (NCBI table 2).

Phe F6.4%

UUU112

UUC134

Leu L17.5%

UUA125

UUG20

CUU131

CUC164

CUA211

CUG18

Ile I8.8%

AUU194

AUC142

Met M4.4%

AUA120

AUG47

Val V4.3%

GUU49

GUC43

GUA54

GUG19

Ser S7.2%

UCU41

UCC81

UCA93

UCG3

AGU23

AGC34

Pro P5.5%

CCU36

CCC76

CCA91

CCG8

Thr T8.2%

ACU62

ACC108

ACA133

ACG11

Ala A7.1%

GCU58

GCC111

GCA93

GCG8

Tyr Y3.0%

UAU65

UAC50

His H2.7%

CAU50

CAC52

Gln Q2.7%

CAA98

CAG5

Asn N3.9%

AAU64

AAC83

Lys K2.1%

AAA74

AAG8

Asp D1.8%

GAU33

GAC35

Glu E2.5%

GAA84

GAG12

Cys C0.7%

UGU13

UGC12

Trp W3.2%

UGA107

UGG15

Arg R1.9%

CGU12

CGC17

CGA40

CGG2

Gly G5.8%

GGU47

GGC74

GGA77

GGG24

Stop 0.2%

UAA7

UAG2

AGA0

AGG0

Genome map

38 annotated features in NC_024570.1

Hover, tap or tab to a feature to see its position, length, strand and GC content. Genes and rRNAs open their own pages.

Protein-coding13
rRNA2
tRNA22
D-loop1

Outer ring: + strand, arrows run clockwise. Inner ring: − strand.
Middle ring: GC% of each gene against the whole genome (40.6%, dashed): out is GC-richer, in is AT-richer (full height = 6 points).

All 38 features as a table

Annotated features of Pteroplatytrygon violacea (NC_024570.1)
Feature	Type	Start	End	Length	Strand	GC
tRNA-Phe	Transfer RNA	1	69	69 bp	+	–
12S rRNA	Ribosomal RNA	70	1,031	962 bp	+	43.4%
tRNA-Val	Transfer RNA	1,032	1,103	72 bp	+	–
16S rRNA	Ribosomal RNA	1,104	2,798	1,695 bp	+	39.5%
tRNA-Leu (UUR)	Transfer RNA	2,799	2,873	75 bp	+	–
ND1	Protein-coding gene	2,875	3,852	978 bp	+	42.2%
tRNA-Ile	Transfer RNA	3,854	3,922	69 bp	+	–
tRNA-Gln	Transfer RNA	3,927	3,998	72 bp	−	–
tRNA-Met	Transfer RNA	3,999	4,069	71 bp	+	–
ND2	Protein-coding gene	4,071	5,116	1,046 bp	+	40.8%
tRNA-Trp	Transfer RNA	5,117	5,187	71 bp	+	–
tRNA-Ala	Transfer RNA	5,188	5,256	69 bp	−	–
tRNA-Asn	Transfer RNA	5,258	5,330	73 bp	−	–
tRNA-Cys	Transfer RNA	5,367	5,434	68 bp	−	–
tRNA-Tyr	Transfer RNA	5,441	5,510	70 bp	−	–
COX1	Protein-coding gene	5,512	7,071	1,560 bp	+	40.6%
tRNA-Ser (UCN)	Transfer RNA	7,080	7,150	71 bp	−	–
tRNA-Asp	Transfer RNA	7,151	7,221	71 bp	+	–
COX2	Protein-coding gene	7,226	7,916	691 bp	+	41.0%
tRNA-Lys	Transfer RNA	7,917	7,990	74 bp	+	–
ATP8	Protein-coding gene	7,992	8,159	168 bp	+	34.5%
ATP6	Protein-coding gene	8,150	8,833	684 bp	+	41.1%
COX3	Protein-coding gene	8,836	9,621	786 bp	+	47.2%
tRNA-Gly	Transfer RNA	9,627	9,699	73 bp	+	–
ND3	Protein-coding gene	9,700	10,048	349 bp	+	44.7%
tRNA-Arg	Transfer RNA	10,049	10,119	71 bp	+	–
ND4L	Protein-coding gene	10,120	10,416	297 bp	+	44.4%
ND4	Protein-coding gene	10,410	11,790	1,381 bp	+	42.1%
tRNA-His	Transfer RNA	11,791	11,859	69 bp	+	–
tRNA-Ser (AGY)	Transfer RNA	11,861	11,927	67 bp	+	–
tRNA-Leu (CUN)	Transfer RNA	11,930	12,001	72 bp	+	–
ND5	Protein-coding gene	12,009	13,853	1,845 bp	+	38.6%
ND6	Protein-coding gene	13,850	14,371	522 bp	−	41.8%
tRNA-Glu	Transfer RNA	14,373	14,441	69 bp	−	–
CYTB	Protein-coding gene	14,449	15,591	1,143 bp	+	43.1%
tRNA-Thr	Transfer RNA	15,598	15,671	74 bp	+	–
tRNA-Pro	Transfer RNA	15,681	15,748	68 bp	−	–
D-loop	Control region	15,749	17,665	1,917 bp	–	35.7%