MitoAge

Rattus rattus

Rat

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Maximum lifespan
4.2 yr
AnAge record
mtDNA size
16,305 bp
RefSeq NC_012374.1
GC content
38.10%
Whole genome
Non-coding
957 bp
D-loop 898 bp

Where Rat sits among 2,335 species

Whole-genome GC content against maximum lifespan. Rat has the 2,071st longest lifespan of them.

10203040501 yr10 yr100 yrMaximum lifespan, log scaleGC %Rat
  • This species
  • Other mammals
  • Other classes
Plot other mtDNA features with this species highlighted

Base composition

Whole genome16,305 bp
GC skew (G − C) / (G + C)
−0.340
AT skew (A − T) / (A + T)
+0.099

Life history

Maximum lifespan
4.2 years
Adult weight
200 g
Birth weight
4.6 g
Basal metabolic rate
0.77 W
Body temperature
38 °C
Female sexual maturity
90 days
Male sexual maturity
112 days
Gestation or incubation
22 days
Litter or clutch size
7.3
Litters per year
4.3
Postnatal growth rate
0.0207 per day

Lifespan from AnAge · AnAge record · other traits from AnAge Build 15 (HAGRID 03084)

About this record

Lifespan source
AnAge build 15
Based on
an animal in captivity
Data quality
acceptable, large 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 genome16,305 bp
Protein-coding11,330 bp
12S rRNA956 bp
16S rRNA1,569 bp
All tRNA1,496 bp
D-loop898 bp

Genes and regions

Select a column to sort; select a gene to compare it across species
Composition
ND1NADH dehydrogenase subunit 1955 bp30.2%26.9%12.1%30.8%42.93%−0.434+0.057
ND2NADH dehydrogenase subunit 21,036 bp35.8%26.4%8.4%29.3%37.74%−0.555+0.150
COX1Cytochrome c oxidase subunit I1,545 bp27.8%30.8%16.6%24.9%41.42%−0.200−0.052
COX2Cytochrome c oxidase subunit II684 bp34.1%26.5%13.3%26.2%39.47%−0.326+0.126
ATP8ATP synthase F0 subunit 8204 bp37.7%27.5%6.4%28.4%34.80%−0.634+0.158
ATP6ATP synthase F0 subunit 6681 bp31.9%30.2%10.9%27.0%37.89%−0.426+0.026
COX3Cytochrome c oxidase subunit III784 bp30.6%28.8%13.6%26.9%40.56%−0.327+0.030
ND3NADH dehydrogenase subunit 3348 bp31.0%29.3%11.2%28.4%39.66%−0.435+0.029
ND4LNADH dehydrogenase subunit 4L297 bp30.6%32.0%10.1%27.3%37.37%−0.459−0.022
ND4NADH dehydrogenase subunit 41,378 bp34.5%27.6%10.2%27.6%37.81%−0.463+0.111
ND5NADH dehydrogenase subunit 51,830 bp33.7%29.1%9.7%27.5%37.21%−0.480+0.074
ND6NADH dehydrogenase subunit 6519 bp44.5%21.8%6.6%27.2%33.72%−0.611+0.343
CYTBCytochrome b1,143 bp31.2%28.6%12.2%27.9%40.16%−0.390+0.044
12S rRNA12S ribosomal RNA956 bp36.8%24.9%17.1%21.2%38.29%−0.109+0.193
16S rRNA16S ribosomal RNA1,569 bp38.8%25.5%16.4%19.3%35.69%−0.082+0.207
D-loopControl region (D-loop)898 bp35.2%29.6%10.9%24.3%35.19%−0.380+0.086

Codon usage

Counts per codon, darker is more frequent

3,800 codons in all protein-coding genes. Grouped with the Vertebrate mitochondrial code (NCBI table 2).

Phe F6.2%
UUU115
UUC122
Leu L15.6%
UUA123
UUG21
CUU80
CUC98
CUA257
CUG12
Ile I9.6%
AUU188
AUC177
Met M6.2%
AUA190
AUG45
Val V4.2%
GUU32
GUC33
GUA80
GUG16
Ser S8.0%
UCU47
UCC69
UCA128
UCG3
AGU17
AGC40
Pro P5.2%
CCU42
CCC50
CCA100
CCG4
Thr T8.2%
ACU55
ACC88
ACA163
ACG6
Ala A6.3%
GCU51
GCC97
GCA90
GCG2
Tyr Y3.4%
UAU53
UAC77
His H2.6%
CAU38
CAC59
Gln Q2.3%
CAA81
CAG5
Asn N4.4%
AAU56
AAC112
Lys K2.6%
AAA87
AAG12
Asp D1.9%
GAU25
GAC46
Glu E2.4%
GAA80
GAG13
Cys C0.8%
UGU8
UGC21
Trp W2.8%
UGA96
UGG9
Arg R1.7%
CGU9
CGC11
CGA40
CGG4
Gly G5.5%
GGU34
GGC47
GGA104
GGG23
Stop 0.2%
UAA9
UAG0
AGA0
AGG0

Genome map

38 annotated features in NC_012374.1

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 (38.1%, dashed): out is GC-richer, in is AT-richer (full height = 6 points).
All 38 features as a table
FeatureTypeStartEndLengthStrandGC
tRNA-PheTransfer RNA16969 bp+–
12S rRNARibosomal RNA701,025956 bp+38.3%
tRNA-ValTransfer RNA1,0261,09368 bp+–
16S rRNARibosomal RNA1,0942,6621,569 bp+35.7%
tRNA-Leu (UUR)Transfer RNA2,6632,73775 bp+–
ND1Protein-coding gene2,7383,692955 bp+42.9%
tRNA-IleTransfer RNA3,6933,76169 bp+–
tRNA-GlnTransfer RNA3,7593,82971 bp−–
tRNA-MetTransfer RNA3,8333,90169 bp+–
ND2Protein-coding gene3,9024,9371,036 bp+37.7%
tRNA-TrpTransfer RNA4,9385,00366 bp+–
tRNA-AlaTransfer RNA5,0055,07369 bp−–
tRNA-AsnTransfer RNA5,0765,14772 bp−–
tRNA-CysTransfer RNA5,1795,24668 bp−–
tRNA-TyrTransfer RNA5,2495,31466 bp−–
COX1Protein-coding gene5,3166,8601,545 bp+41.4%
tRNA-Ser (UCN)Transfer RNA6,8586,92669 bp−–
tRNA-AspTransfer RNA6,9306,99768 bp+–
COX2Protein-coding gene6,9997,682684 bp+39.5%
tRNA-LysTransfer RNA7,6867,74964 bp+–
ATP8Protein-coding gene7,7517,954204 bp+34.8%
ATP6Protein-coding gene7,9128,592681 bp+37.9%
COX3Protein-coding gene8,5929,375784 bp+40.6%
tRNA-GlyTransfer RNA9,3769,44267 bp+–
ND3Protein-coding gene9,4439,790348 bp+39.7%
tRNA-ArgTransfer RNA9,7929,85968 bp+–
ND4LProtein-coding gene9,86210,158297 bp+37.4%
ND4Protein-coding gene10,15211,5291,378 bp+37.8%
tRNA-HisTransfer RNA11,53011,59768 bp+–
tRNA-Ser (AGY)Transfer RNA11,59811,65659 bp+–
tRNA-Leu (CUN)Transfer RNA11,65611,72671 bp+–
ND5Protein-coding gene11,72713,5561,830 bp+37.2%
ND6Protein-coding gene13,53414,052519 bp−33.7%
tRNA-GluTransfer RNA14,05314,12169 bp−–
CYTBProtein-coding gene14,12715,2691,143 bp+40.2%
tRNA-ThrTransfer RNA15,27115,33767 bp+–
tRNA-ProTransfer RNA15,34015,40768 bp−–
D-loopControl region15,40816,305898 bp–35.2%

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