Harengula jaguana

Scaled herring

Maximum lifespan

3 yr

AnAge record

mtDNA size

17,158 bp

RefSeq NC_016667.1

GC content

49.24%

Whole genome

Non-coding

1,563 bp

D-loop 1,494 bp

Where Scaled herring sits among 2,335 species

Whole-genome GC content against maximum lifespan. Scaled herring has the 2,176th longest lifespan of them.

This species
Other ray-finned fishes
Other classes

Plot other mtDNA features with this species highlighted

Base composition

Whole genome17,158 bp

GC skew (G − C) / (G + C): −0.175
AT skew (A − T) / (A + T): −0.021

Life history

Maximum lifespan: 3 years
Female sexual maturity: 365 days
Male sexual maturity: 365 days

Lifespan from AnAge · AnAge record · other traits from AnAge Build 15 (HAGRID 03843)

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 genome17,158 bp

Protein-coding11,404 bp

12S rRNA953 bp

16S rRNA1,687 bp

All tRNA1,551 bp

D-loop1,494 bp

Genes and regions

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

Base composition of Harengula jaguana genes

ND1NADH dehydrogenase subunit 1	975 bp	18.8%	29.4%	19.9%	31.9%	51.80%	−0.232	−0.221
ND2NADH dehydrogenase subunit 2	1,046 bp	22.0%	24.5%	19.4%	34.1%	53.54%	−0.275	−0.054
COX1Cytochrome c oxidase subunit I	1,551 bp	22.4%	28.8%	21.3%	27.5%	48.87%	−0.127	−0.125
COX2Cytochrome c oxidase subunit II	691 bp	25.3%	26.5%	19.5%	28.7%	48.19%	−0.189	−0.022
ATP8ATP synthase F0 subunit 8	168 bp	25.6%	26.2%	17.3%	31.0%	48.21%	−0.284	−0.011
ATP6ATP synthase F0 subunit 6	684 bp	22.4%	28.4%	18.3%	31.0%	49.27%	−0.258	−0.118
COX3Cytochrome c oxidase subunit III	785 bp	22.0%	26.4%	19.6%	32.0%	51.59%	−0.240	−0.089
ND3NADH dehydrogenase subunit 3	349 bp	18.6%	31.8%	17.5%	32.1%	49.57%	−0.295	−0.261
ND4LNADH dehydrogenase subunit 4L	297 bp	23.2%	24.6%	21.2%	31.0%	52.19%	−0.187	−0.028
ND4NADH dehydrogenase subunit 4	1,381 bp	21.8%	28.0%	19.6%	30.6%	50.18%	−0.218	−0.125
ND5NADH dehydrogenase subunit 5	1,836 bp	23.7%	27.5%	18.7%	30.1%	48.80%	−0.234	−0.072
ND6NADH dehydrogenase subunit 6	522 bp	34.5%	17.8%	20.5%	27.2%	47.70%	−0.141	+0.319
CYTBCytochrome b	1,141 bp	22.1%	29.1%	20.0%	28.8%	48.82%	−0.181	−0.137
12S rRNA12S ribosomal RNA	953 bp	28.5%	20.1%	24.3%	27.0%	51.31%	−0.051	+0.172
16S rRNA16S ribosomal RNA	1,687 bp	31.3%	19.3%	23.0%	26.4%	49.44%	−0.070	+0.238
D-loopControl region (D-loop)	1,494 bp	27.6%	29.3%	17.9%	25.2%	43.11%	−0.168	−0.028

Codon usage

Counts per codon, darker is more frequent

Gene

3,806 codons in all protein-coding genes. Grouped with the Vertebrate mitochondrial code (NCBI table 2).

Phe F6.1%

UUU77

UUC157

Leu L16.1%

UUA52

UUG40

CUU158

CUC118

CUA147

CUG98

Ile I7.1%

AUU143

AUC126

Met M3.9%

AUA43

AUG107

Val V6.7%

GUU63

GUC77

GUA59

GUG57

Ser S6.3%

UCU39

UCC66

UCA47

UCG33

AGU14

AGC40

Pro P5.7%

CCU68

CCC92

CCA37

CCG21

Thr T7.6%

ACU70

ACC124

ACA65

ACG32

Ala A9.7%

GCU74

GCC167

GCA89

GCG38

Tyr Y3.1%

UAU33

UAC84

His H2.7%

CAU21

CAC83

Gln Q2.5%

CAA60

CAG36

Asn N2.9%

AAU42

AAC69

Lys K2.0%

AAA41

AAG37

Asp D2.0%

GAU29

GAC47

Glu E2.7%

GAA46

GAG56

Cys C0.8%

UGU10

UGC22

Trp W3.2%

UGA75

UGG46

Arg R2.0%

CGU10

CGC6

CGA41

CGG19

Gly G6.5%

GGU37

GGC68

GGA67

GGG76

Stop 0.2%

UAA5

UAG2

AGA0

AGG0

Genome map

38 annotated features in NC_016667.1

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 (49.2%, dashed): out is GC-richer, in is AT-richer (full height = 6 points).

All 38 features as a table

Annotated features of Harengula jaguana (NC_016667.1)
Feature	Type	Start	End	Length	Strand	GC
tRNA-Phe	Transfer RNA	1	69	69 bp	+	–
12S rRNA	Ribosomal RNA	70	1,022	953 bp	+	51.3%
tRNA-Val	Transfer RNA	1,023	1,094	72 bp	+	–
16S rRNA	Ribosomal RNA	1,095	2,781	1,687 bp	+	49.4%
tRNA-Leu (UUR)	Transfer RNA	2,782	2,857	76 bp	+	–
ND1	Protein-coding gene	2,858	3,832	975 bp	+	51.8%
tRNA-Ile	Transfer RNA	3,841	3,912	72 bp	+	–
tRNA-Gln	Transfer RNA	3,912	3,982	71 bp	−	–
tRNA-Met	Transfer RNA	3,982	4,050	69 bp	+	–
ND2	Protein-coding gene	4,051	5,096	1,046 bp	+	53.5%
tRNA-Trp	Transfer RNA	5,097	5,168	72 bp	+	–
tRNA-Ala	Transfer RNA	5,170	5,238	69 bp	−	–
tRNA-Asn	Transfer RNA	5,239	5,312	74 bp	−	–
tRNA-Cys	Transfer RNA	5,346	5,411	66 bp	−	–
tRNA-Tyr	Transfer RNA	5,415	5,485	71 bp	−	–
COX1	Protein-coding gene	5,487	7,037	1,551 bp	+	48.9%
tRNA-Ser (UCN)	Transfer RNA	7,038	7,108	71 bp	−	–
tRNA-Asp	Transfer RNA	7,113	7,181	69 bp	+	–
COX2	Protein-coding gene	7,194	7,884	691 bp	+	48.2%
tRNA-Lys	Transfer RNA	7,885	7,958	74 bp	+	–
ATP8	Protein-coding gene	7,960	8,127	168 bp	+	48.2%
ATP6	Protein-coding gene	8,118	8,801	684 bp	+	49.3%
COX3	Protein-coding gene	8,801	9,585	785 bp	+	51.6%
tRNA-Gly	Transfer RNA	9,586	9,656	71 bp	+	–
ND3	Protein-coding gene	9,657	10,005	349 bp	+	49.6%
tRNA-Arg	Transfer RNA	10,006	10,075	70 bp	+	–
ND4L	Protein-coding gene	10,076	10,372	297 bp	+	52.2%
ND4	Protein-coding gene	10,366	11,746	1,381 bp	+	50.2%
tRNA-His	Transfer RNA	11,747	11,815	69 bp	+	–
tRNA-Ser (AGY)	Transfer RNA	11,816	11,882	67 bp	+	–
tRNA-Leu (CUN)	Transfer RNA	11,883	11,954	72 bp	+	–
ND5	Protein-coding gene	11,955	13,790	1,836 bp	+	48.8%
ND6	Protein-coding gene	13,787	14,308	522 bp	−	47.7%
tRNA-Glu	Transfer RNA	14,309	14,377	69 bp	−	–
CYTB	Protein-coding gene	14,384	15,524	1,141 bp	+	48.8%
tRNA-Thr	Transfer RNA	15,525	15,596	72 bp	+	–
tRNA-Pro	Transfer RNA	15,596	15,664	69 bp	−	–
D-loop	Control region	15,665	17,158	1,494 bp	–	43.1%