Clupea harengus

Atlantic herring

Maximum lifespan

22 yr

AnAge record

mtDNA size

16,701 bp

RefSeq NC_009577.1

GC content

47.38%

Whole genome

Non-coding

1,107 bp

D-loop 1,047 bp

Where Atlantic herring sits among 2,335 species

Whole-genome GC content against maximum lifespan. Atlantic herring has the 784th longest lifespan of them.

This species
Other ray-finned fishes
Other classes

Plot other mtDNA features with this species highlighted

Base composition

Whole genome16,701 bp

GC skew (G − C) / (G + C): −0.191
AT skew (A − T) / (A + T): +0.024

Life history

Maximum lifespan: 22 years
Female sexual maturity: 3 years
Male sexual maturity: 3 years

Lifespan from AnAge · AnAge record · other traits from AnAge Build 15 (HAGRID 03836)

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 genome16,701 bp

Protein-coding11,405 bp

12S rRNA952 bp

16S rRNA1,684 bp

All tRNA1,553 bp

D-loop1,047 bp

Genes and regions

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

Base composition of Clupea harengus genes

ND1NADH dehydrogenase subunit 1	975 bp	21.5%	29.1%	19.9%	29.4%	49.33%	−0.193	−0.150
ND2NADH dehydrogenase subunit 2	1,045 bp	23.9%	25.7%	17.4%	32.9%	50.34%	−0.308	−0.037
COX1Cytochrome c oxidase subunit I	1,551 bp	25.3%	28.6%	19.5%	26.6%	46.10%	−0.155	−0.062
COX2Cytochrome c oxidase subunit II	691 bp	28.1%	26.8%	18.2%	26.9%	45.15%	−0.192	+0.024
ATP8ATP synthase F0 subunit 8	168 bp	30.4%	26.8%	13.7%	29.2%	42.86%	−0.361	+0.063
ATP6ATP synthase F0 subunit 6	685 bp	25.0%	29.1%	15.0%	30.9%	45.99%	−0.346	−0.076
COX3Cytochrome c oxidase subunit III	785 bp	24.1%	27.0%	19.0%	29.9%	48.92%	−0.224	−0.057
ND3NADH dehydrogenase subunit 3	349 bp	21.8%	30.4%	19.8%	28.1%	47.85%	−0.174	−0.165
ND4LNADH dehydrogenase subunit 4L	297 bp	24.2%	27.3%	16.5%	32.0%	48.49%	−0.319	−0.059
ND4NADH dehydrogenase subunit 4	1,381 bp	24.4%	26.0%	19.1%	30.5%	49.60%	−0.229	−0.032
ND5NADH dehydrogenase subunit 5	1,836 bp	26.3%	27.1%	17.8%	28.9%	46.62%	−0.238	−0.016
ND6NADH dehydrogenase subunit 6	522 bp	33.5%	15.3%	19.0%	32.2%	51.15%	−0.258	+0.373
CYTBCytochrome b	1,141 bp	24.5%	28.8%	18.4%	28.2%	46.63%	−0.211	−0.080
12S rRNA12S ribosomal RNA	952 bp	30.4%	19.5%	22.8%	27.3%	50.11%	−0.090	+0.217
16S rRNA16S ribosomal RNA	1,684 bp	33.6%	19.2%	21.4%	25.8%	47.15%	−0.093	+0.272
D-loopControl region (D-loop)	1,047 bp	30.6%	31.2%	16.5%	21.7%	38.20%	−0.135	−0.011

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 F6.3%

UUU99

UUC140

Leu L16.1%

UUA71

UUG33

CUU126

CUC101

CUA189

CUG91

Ile I6.7%

AUU160

AUC96

Met M4.5%

AUA69

AUG103

Val V6.6%

GUU64

GUC62

GUA84

GUG43

Ser S6.0%

UCU40

UCC62

UCA54

UCG19

AGU9

AGC46

Pro P5.8%

CCU56

CCC93

CCA46

CCG24

Thr T7.9%

ACU66

ACC120

ACA80

ACG36

Ala A9.8%

GCU61

GCC150

GCA131

GCG30

Tyr Y3.0%

UAU38

UAC77

His H2.7%

CAU19

CAC82

Gln Q2.6%

CAA60

CAG38

Asn N3.1%

AAU44

AAC74

Lys K2.0%

AAA47

AAG30

Asp D1.9%

GAU28

GAC45

Glu E2.5%

GAA61

GAG35

Cys C0.8%

UGU11

UGC20

Trp W3.1%

UGA98

UGG20

Arg R2.0%

CGU8

CGC10

CGA48

CGG12

Gly G6.3%

GGU32

GGC42

GGA77

GGG90

Stop 0.2%

UAA3

UAG3

AGA0

AGG0

Genome map

38 annotated features in NC_009577.1

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 (47.4%, dashed): out is GC-richer, in is AT-richer (full height = 6 points).

All 38 features as a table

Annotated features of Clupea harengus (NC_009577.1)
Feature	Type	Start	End	Length	Strand	GC
tRNA-Phe	Transfer RNA	1	69	69 bp	+	–
12S rRNA	Ribosomal RNA	70	1,021	952 bp	+	50.1%
tRNA-Val	Transfer RNA	1,022	1,092	71 bp	+	–
16S rRNA	Ribosomal RNA	1,093	2,776	1,684 bp	+	47.2%
tRNA-Leu (UUR)	Transfer RNA	2,777	2,852	76 bp	+	–
ND1	Protein-coding gene	2,853	3,827	975 bp	+	49.3%
tRNA-Ile	Transfer RNA	3,834	3,905	72 bp	+	–
tRNA-Gln	Transfer RNA	3,905	3,975	71 bp	−	–
tRNA-Met	Transfer RNA	3,975	4,043	69 bp	+	–
ND2	Protein-coding gene	4,044	5,088	1,045 bp	+	50.3%
tRNA-Trp	Transfer RNA	5,089	5,160	72 bp	+	–
tRNA-Ala	Transfer RNA	5,162	5,230	69 bp	−	–
tRNA-Asn	Transfer RNA	5,231	5,304	74 bp	−	–
tRNA-Cys	Transfer RNA	5,336	5,401	66 bp	−	–
tRNA-Tyr	Transfer RNA	5,402	5,472	71 bp	−	–
COX1	Protein-coding gene	5,474	7,024	1,551 bp	+	46.1%
tRNA-Ser (UCN)	Transfer RNA	7,025	7,095	71 bp	−	–
tRNA-Asp	Transfer RNA	7,100	7,169	70 bp	+	–
COX2	Protein-coding gene	7,182	7,872	691 bp	+	45.2%
tRNA-Lys	Transfer RNA	7,873	7,947	75 bp	+	–
ATP8	Protein-coding gene	7,949	8,116	168 bp	+	42.9%
ATP6	Protein-coding gene	8,107	8,791	685 bp	+	46.0%
COX3	Protein-coding gene	8,792	9,576	785 bp	+	48.9%
tRNA-Gly	Transfer RNA	9,577	9,648	72 bp	+	–
ND3	Protein-coding gene	9,649	9,997	349 bp	+	47.9%
tRNA-Arg	Transfer RNA	9,998	10,067	70 bp	+	–
ND4L	Protein-coding gene	10,068	10,364	297 bp	+	48.5%
ND4	Protein-coding gene	10,358	11,738	1,381 bp	+	49.6%
tRNA-His	Transfer RNA	11,739	11,807	69 bp	+	–
tRNA-Ser (AGY)	Transfer RNA	11,808	11,874	67 bp	+	–
tRNA-Leu (CUN)	Transfer RNA	11,875	11,946	72 bp	+	–
ND5	Protein-coding gene	11,947	13,782	1,836 bp	+	46.6%
ND6	Protein-coding gene	13,779	14,300	522 bp	−	51.2%
tRNA-Glu	Transfer RNA	14,301	14,369	69 bp	−	–
CYTB	Protein-coding gene	14,374	15,514	1,141 bp	+	46.6%
tRNA-Thr	Transfer RNA	15,515	15,584	70 bp	+	–
tRNA-Pro	Transfer RNA	15,585	15,654	70 bp	−	–
D-loop	Control region	15,655	16,701	1,047 bp	–	38.2%