Plethodon elongatus

Del Norte salamander

Maximum lifespan

13.3 yr

AnAge record

mtDNA size

18,767 bp

RefSeq NC_006335.1

GC content

36.20%

Whole genome

Non-coding

3,477 bp

D-loop 2,109 bp

Where Del Norte salamander sits among 2,335 species

Whole-genome GC content against maximum lifespan. Del Norte salamander has the 1,335th longest lifespan of them.

This species
Other amphibians
Other classes

Plot other mtDNA features with this species highlighted

Base composition

Whole genome18,767 bp

GC skew (G − C) / (G + C): −0.274
AT skew (A − T) / (A + T): +0.055

Life history

Maximum lifespan: 13.3 years
Litter or clutch size: 7

Lifespan from AnAge · AnAge record · other traits from AnAge Build 15 (HAGRID 00173)

About this record

Lifespan source: AnAge build 15
Based on: an animal in captivity
Data quality: acceptable, small 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 genome18,767 bp

Protein-coding11,336 bp

12S rRNA915 bp

16S rRNA1,523 bp

All tRNA1,521 bp

D-loop2,109 bp

Genes and regions

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

Base composition of Plethodon elongatus genes

ND1NADH dehydrogenase subunit 1	969 bp	31.5%	33.6%	11.9%	22.9%	34.81%	−0.318	−0.033
ND2NADH dehydrogenase subunit 2	1,041 bp	35.6%	29.8%	8.9%	25.6%	34.58%	−0.483	+0.090
COX1Cytochrome c oxidase subunit I	1,540 bp	29.4%	32.7%	15.6%	22.3%	37.92%	−0.175	−0.052
COX2Cytochrome c oxidase subunit II	682 bp	32.7%	30.1%	13.8%	23.5%	37.24%	−0.260	+0.042
ATP8ATP synthase F0 subunit 8	168 bp	42.3%	28.6%	6.5%	22.6%	29.17%	−0.551	+0.193
ATP6ATP synthase F0 subunit 6	684 bp	31.6%	32.2%	9.9%	26.3%	36.26%	−0.452	−0.009
COX3Cytochrome c oxidase subunit III	784 bp	27.6%	34.9%	15.8%	21.7%	37.50%	−0.156	−0.118
ND3NADH dehydrogenase subunit 3	348 bp	30.2%	34.2%	11.8%	23.9%	35.63%	−0.339	−0.063
ND4LNADH dehydrogenase subunit 4L	297 bp	27.9%	35.0%	12.5%	24.6%	37.04%	−0.327	−0.112
ND4NADH dehydrogenase subunit 4	1,375 bp	32.2%	32.3%	11.3%	24.1%	35.49%	−0.361	−0.001
ND5NADH dehydrogenase subunit 5	1,813 bp	34.8%	31.8%	10.2%	23.2%	33.43%	−0.389	+0.046
ND6NADH dehydrogenase subunit 6	510 bp	46.7%	17.5%	10.0%	25.9%	35.88%	−0.443	+0.456
CYTBCytochrome b	1,143 bp	31.2%	33.0%	12.0%	23.8%	35.78%	−0.330	−0.027
12S rRNA12S ribosomal RNA	915 bp	37.2%	22.7%	17.7%	22.4%	40.11%	−0.117	+0.241
16S rRNA16S ribosomal RNA	1,523 bp	39.1%	24.5%	16.5%	19.9%	36.44%	−0.092	+0.229
D-loopControl region (D-loop)	2,109 bp	32.3%	30.9%	13.7%	23.1%	36.80%	−0.258	+0.023

Codon usage

Counts per codon, darker is more frequent

Gene

3,782 codons in all protein-coding genes. Grouped with the Vertebrate mitochondrial code (NCBI table 2).

Phe F6.3%

UUU186

UUC51

Leu L16.2%

UUA197

UUG17

CUU150

CUC64

CUA171

CUG15

Ile I8.6%

AUU259

AUC66

Met M6.8%

AUA228

AUG28

Val V4.5%

GUU53

GUC20

GUA88

GUG10

Ser S7.4%

UCU76

UCC41

UCA107

UCG5

AGU17

AGC33

Pro P5.6%

CCU28

CCC48

CCA127

CCG8

Thr T7.8%

ACU62

ACC93

ACA135

ACG5

Ala A6.7%

GCU55

GCC95

GCA99

GCG6

Tyr Y2.8%

UAU80

UAC27

His H2.4%

CAU41

CAC51

Gln Q2.6%

CAA93

CAG5

Asn N4.2%

AAU94

AAC64

Lys K2.4%

AAA89

AAG2

Asp D1.7%

GAU38

GAC27

Glu E2.4%

GAA76

GAG15

Cys C0.7%

UGU14

UGC14

Trp W2.9%

UGA99

UGG10

Arg R1.8%

CGU8

CGC12

CGA48

CGG0

Gly G5.9%

GGU44

GGC46

GGA115

GGG19

Stop 0.2%

UAA6

UAG1

AGA0

AGG1

Genome map

38 annotated features in NC_006335.1

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 (36.2%, dashed): out is GC-richer, in is AT-richer (full height = 6 points).

All 38 features as a table

Annotated features of Plethodon elongatus (NC_006335.1)
Feature	Type	Start	End	Length	Strand	GC
tRNA-Phe	Transfer RNA	1	67	67 bp	+	–
12S rRNA	Ribosomal RNA	68	982	915 bp	+	40.1%
tRNA-Val	Transfer RNA	983	1,050	68 bp	+	–
16S rRNA	Ribosomal RNA	1,051	2,573	1,523 bp	+	36.4%
tRNA-Leu (UUR)	Transfer RNA	2,574	2,648	75 bp	+	–
ND1	Protein-coding gene	2,649	3,617	969 bp	+	34.8%
tRNA-Ile	Transfer RNA	3,617	3,687	71 bp	+	–
tRNA-Gln	Transfer RNA	3,686	3,756	71 bp	−	–
tRNA-Met	Transfer RNA	3,756	3,825	70 bp	+	–
ND2	Protein-coding gene	3,826	4,866	1,041 bp	+	34.6%
tRNA-Trp	Transfer RNA	4,865	4,932	68 bp	+	–
tRNA-Ala	Transfer RNA	4,935	5,003	69 bp	−	–
tRNA-Asn	Transfer RNA	5,005	5,076	72 bp	−	–
tRNA-Cys	Transfer RNA	5,111	5,176	66 bp	−	–
tRNA-Tyr	Transfer RNA	5,177	5,243	67 bp	−	–
COX1	Protein-coding gene	5,245	6,784	1,540 bp	+	37.9%
tRNA-Ser (UCN)	Transfer RNA	6,786	6,856	71 bp	−	–
tRNA-Asp	Transfer RNA	6,856	6,924	69 bp	+	–
COX2	Protein-coding gene	6,925	7,606	682 bp	+	37.2%
tRNA-Lys	Transfer RNA	7,613	7,684	72 bp	+	–
ATP8	Protein-coding gene	7,686	7,853	168 bp	+	29.2%
ATP6	Protein-coding gene	7,844	8,527	684 bp	+	36.3%
COX3	Protein-coding gene	8,527	9,310	784 bp	+	37.5%
tRNA-Gly	Transfer RNA	9,311	9,377	67 bp	+	–
ND3	Protein-coding gene	9,378	9,725	348 bp	+	35.6%
tRNA-Arg	Transfer RNA	9,724	9,790	67 bp	+	–
ND4L	Protein-coding gene	9,791	10,087	297 bp	+	37.0%
ND4	Protein-coding gene	10,081	11,455	1,375 bp	+	35.5%
tRNA-His	Transfer RNA	11,456	11,524	69 bp	+	–
tRNA-Ser (AGY)	Transfer RNA	11,525	11,592	68 bp	+	–
tRNA-Leu (CUN)	Transfer RNA	11,593	11,664	72 bp	+	–
ND5	Protein-coding gene	11,665	13,477	1,813 bp	+	33.4%
tRNA-Thr	Transfer RNA	13,519	13,587	69 bp	+	–
ND6	Protein-coding gene	14,762	15,271	510 bp	−	35.9%
tRNA-Glu	Transfer RNA	15,272	15,338	67 bp	−	–
CYTB	Protein-coding gene	15,341	16,483	1,143 bp	+	35.8%
tRNA-Pro	Transfer RNA	16,589	16,658	70 bp	−	–
D-loop	Control region	16,659	18,767	2,109 bp	–	36.8%