MitoAge

Rattus fuscipes

Bush rat

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Maximum lifespan
5.3 yr
AnAge record
mtDNA size
16,301 bp
RefSeq NC_014867.1
GC content
38.94%
Whole genome
Non-coding
951 bp
D-loop 876 bp

Where Bush rat sits among 2,335 species

Whole-genome GC content against maximum lifespan. Bush rat has the 1,971st longest lifespan of them.

10203040501 yr10 yr100 yrMaximum lifespan, log scaleGC %Bush rat
  • This species
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Plot other mtDNA features with this species highlighted

Base composition

Whole genome16,301 bp
GC skew (G − C) / (G + C)
−0.361
AT skew (A − T) / (A + T)
+0.113

Life history

Maximum lifespan
5.3 years
Adult weight
130 g
Birth weight
4.5 g
Basal metabolic rate
0.471 W
Body temperature
37.5 °C
Female sexual maturity
107 days
Male sexual maturity
90 days
Gestation or incubation
26 days
Litter or clutch size
5
Litters per year
3.3

Lifespan from AnAge · AnAge record · other traits from AnAge Build 15 (HAGRID 03081)

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 genome16,301 bp
Protein-coding11,333 bp
12S rRNA961 bp
16S rRNA1,563 bp
All tRNA1,496 bp
D-loop876 bp

Genes and regions

Select a column to sort; select a gene to compare it across species
Composition
ND1NADH dehydrogenase subunit 1955 bp29.3%28.5%12.0%30.2%42.20%−0.429+0.014
ND2NADH dehydrogenase subunit 21,036 bp36.4%25.6%8.1%29.9%38.03%−0.574+0.174
COX1Cytochrome c oxidase subunit I1,545 bp28.8%30.6%15.9%24.7%40.58%−0.219−0.031
COX2Cytochrome c oxidase subunit II684 bp33.5%26.3%12.9%27.3%40.21%−0.360+0.120
ATP8ATP synthase F0 subunit 8204 bp36.8%28.9%6.9%27.5%34.31%−0.600+0.119
ATP6ATP synthase F0 subunit 6681 bp32.3%27.9%10.9%28.9%39.79%−0.454+0.073
COX3Cytochrome c oxidase subunit III784 bp29.7%28.8%13.5%27.9%41.45%−0.348+0.015
ND3NADH dehydrogenase subunit 3348 bp33.6%30.7%9.5%26.1%35.63%−0.468+0.045
ND4LNADH dehydrogenase subunit 4L297 bp30.3%29.3%9.8%30.6%40.40%−0.517+0.017
ND4NADH dehydrogenase subunit 41,378 bp34.3%26.6%9.4%29.7%39.12%−0.518+0.128
ND5NADH dehydrogenase subunit 51,833 bp33.8%27.8%9.8%28.6%38.41%−0.489+0.097
ND6NADH dehydrogenase subunit 6517 bp42.7%18.0%7.5%31.7%39.27%−0.616+0.408
CYTBCytochrome b1,143 bp29.6%26.3%13.0%31.1%44.09%−0.409+0.058
12S rRNA12S ribosomal RNA961 bp37.5%24.2%16.2%22.1%38.29%−0.152+0.214
16S rRNA16S ribosomal RNA1,563 bp38.6%24.2%16.8%20.4%37.17%−0.098+0.228
D-loopControl region (D-loop)876 bp35.0%29.8%11.2%24.0%35.16%−0.364+0.081

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%
UUU93
UUC143
Leu L15.6%
UUA103
UUG17
CUU76
CUC103
CUA268
CUG25
Ile I9.7%
AUU174
AUC194
Met M6.2%
AUA192
AUG43
Val V4.2%
GUU38
GUC33
GUA77
GUG10
Ser S8.1%
UCU43
UCC78
UCA130
UCG2
AGU15
AGC41
Pro P5.1%
CCU35
CCC63
CCA93
CCG3
Thr T8.2%
ACU54
ACC87
ACA165
ACG6
Ala A6.2%
GCU43
GCC106
GCA82
GCG5
Tyr Y3.4%
UAU48
UAC82
His H2.6%
CAU35
CAC64
Gln Q2.2%
CAA78
CAG7
Asn N4.4%
AAU55
AAC112
Lys K2.6%
AAA95
AAG3
Asp D1.8%
GAU21
GAC49
Glu E2.4%
GAA80
GAG12
Cys C0.8%
UGU8
UGC21
Trp W2.8%
UGA97
UGG8
Arg R1.7%
CGU13
CGC12
CGA38
CGG2
Gly G5.6%
GGU31
GGC50
GGA98
GGG33
Stop 0.2%
UAA8
UAG0
AGA0
AGG0

Genome map

38 annotated features in NC_014867.1

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 (38.9%, 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 RNA701,030961 bp+38.3%
tRNA-ValTransfer RNA1,0311,09868 bp+–
16S rRNARibosomal RNA1,0992,6611,563 bp+37.2%
tRNA-Leu (UUR)Transfer RNA2,6622,73675 bp+–
ND1Protein-coding gene2,7373,691955 bp+42.2%
tRNA-IleTransfer RNA3,6923,76069 bp+–
tRNA-GlnTransfer RNA3,7583,82871 bp−–
tRNA-MetTransfer RNA3,8323,90069 bp+–
ND2Protein-coding gene3,9014,9361,036 bp+38.0%
tRNA-TrpTransfer RNA4,9375,00266 bp+–
tRNA-AlaTransfer RNA5,0055,07369 bp−–
tRNA-AsnTransfer RNA5,0765,14772 bp−–
tRNA-CysTransfer RNA5,1795,24567 bp−–
tRNA-TyrTransfer RNA5,2495,31466 bp−–
COX1Protein-coding gene5,3166,8601,545 bp+40.6%
tRNA-Ser (UCN)Transfer RNA6,8586,92669 bp−–
tRNA-AspTransfer RNA6,9306,99768 bp+–
COX2Protein-coding gene6,9997,682684 bp+40.2%
tRNA-LysTransfer RNA7,6867,74964 bp+–
ATP8Protein-coding gene7,7517,954204 bp+34.3%
ATP6Protein-coding gene7,9128,592681 bp+39.8%
COX3Protein-coding gene8,5929,375784 bp+41.5%
tRNA-GlyTransfer RNA9,3769,44368 bp+–
ND3Protein-coding gene9,4449,791348 bp+35.6%
tRNA-ArgTransfer RNA9,7939,86068 bp+–
ND4LProtein-coding gene9,86310,159297 bp+40.4%
ND4Protein-coding gene10,15311,5301,378 bp+39.1%
tRNA-HisTransfer RNA11,53111,59868 bp+–
tRNA-Ser (AGY)Transfer RNA11,59911,65759 bp+–
tRNA-Leu (CUN)Transfer RNA11,65711,72771 bp+–
ND5Protein-coding gene11,72813,5601,833 bp+38.4%
ND6Protein-coding gene13,54014,056517 bp−39.3%
tRNA-GluTransfer RNA14,05714,12569 bp−–
CYTBProtein-coding gene14,13115,2731,143 bp+44.1%
tRNA-ThrTransfer RNA15,27615,34267 bp+–
tRNA-ProTransfer RNA15,35815,42568 bp−–
D-loopControl region15,42616,301876 bp–35.2%

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