MitoAge

Proechimys semispinosus

Tome's spiny rat, or Spiny rat

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Maximum lifespan
5.8 yr
AnAge record
mtDNA size
16,826 bp
RefSeq NC_039103.1
GC content
35.54%
Whole genome
Non-coding
1,472 bp
D-loop 1,388 bp

Where Tome's spiny rat, or Spiny rat sits among 2,335 species

Whole-genome GC content against maximum lifespan. Tome's spiny rat, or Spiny rat has the 1,956th longest lifespan of them.

10203040501 yr10 yr100 yrMaximum lifespan, log scaleGC %Tome's spiny rat, or Spiny rat
  • This species
  • Other mammals
  • Other classes
Plot other mtDNA features with this species highlighted

Base composition

Whole genome16,826 bp
GC skew (G − C) / (G + C)
−0.301
AT skew (A − T) / (A + T)
+0.080

Life history

Maximum lifespan
5.8 years
Adult weight
500 g
Birth weight
23 g
Basal metabolic rate
1.75 W
Body temperature
37.9 °C
Female sexual maturity
146 days
Male sexual maturity
146 days
Gestation or incubation
64 days
Litter or clutch size
2.4
Litters per year
4.7
Postnatal growth rate
0.0131 per day

Lifespan from AnAge · AnAge record · other traits from AnAge build 15 (HAGRID 02967)

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
New in build 2
In the database since
build 2 (2026-11-13)

Every change against the 2015 build is in the changelog download.

Composition by region

Reference (L) strand as deposited in RefSeq
Whole genome16,826 bp
Protein-coding11,347 bp
12S rRNA945 bp
16S rRNA1,559 bp
All tRNA1,503 bp
D-loop1,388 bp

Genes and regions

Select a column to sort; select a gene to compare it across species
Composition
ND1NADH dehydrogenase subunit 1958 bp32.3%32.0%10.3%25.4%35.70%−0.421+0.003
ND2NADH dehydrogenase subunit 21,042 bp37.1%29.5%8.5%24.9%33.40%−0.489+0.115
COX1Cytochrome c oxidase subunit I1,542 bp29.2%33.3%15.7%21.9%37.55%−0.164−0.065
COX2Cytochrome c oxidase subunit II684 bp35.2%30.8%12.7%21.2%33.92%−0.250+0.066
ATP8ATP synthase F0 subunit 8192 bp39.6%29.2%5.7%25.5%31.25%−0.633+0.152
ATP6ATP synthase F0 subunit 6681 bp32.0%31.6%11.0%25.4%36.42%−0.395+0.007
COX3Cytochrome c oxidase subunit III784 bp28.7%32.1%14.3%24.9%39.16%−0.270−0.057
ND3NADH dehydrogenase subunit 3346 bp30.3%33.5%10.4%25.7%36.13%−0.424−0.050
ND4LNADH dehydrogenase subunit 4L297 bp33.0%35.0%11.8%20.2%31.99%−0.263−0.030
ND4NADH dehydrogenase subunit 41,378 bp34.3%31.8%9.3%24.6%33.89%−0.452+0.038
ND5NADH dehydrogenase subunit 51,812 bp35.5%31.1%9.3%24.2%33.44%−0.446+0.066
ND6NADH dehydrogenase subunit 6534 bp44.0%21.5%7.9%26.6%34.46%−0.543+0.343
CYTBCytochrome b1,140 bp31.3%31.7%11.9%25.1%37.02%−0.355−0.006
12S rRNA12S ribosomal RNA945 bp38.3%23.8%16.2%21.7%37.88%−0.145+0.233
16S rRNA16S ribosomal RNA1,559 bp40.4%25.0%16.3%18.3%34.57%−0.058+0.235
D-loopControl region (D-loop)1,388 bp35.0%26.5%13.5%24.9%38.43%−0.295+0.138

Codon usage

Counts per codon, darker is more frequent

3,795 codons in all protein-coding genes. Grouped with the Vertebrate mitochondrial code (NCBI table 2).

Phe F6.3%
UUU122
UUC117
Leu L15.4%
UUA203
UUG11
CUU94
CUC40
CUA220
CUG15
Ile I9.4%
AUU217
AUC141
Met M6.4%
AUA218
AUG24
Val V4.4%
GUU49
GUC19
GUA89
GUG11
Ser S7.6%
UCU61
UCC52
UCA115
UCG7
AGU31
AGC24
Pro P4.9%
CCU70
CCC50
CCA67
CCG0
Thr T8.6%
ACU68
ACC83
ACA167
ACG9
Ala A6.1%
GCU69
GCC65
GCA92
GCG6
Tyr Y3.9%
UAU98
UAC50
His H2.7%
CAU45
CAC56
Gln Q2.3%
CAA82
CAG5
Asn N4.2%
AAU79
AAC81
Lys K2.6%
AAA98
AAG2
Asp D1.7%
GAU34
GAC30
Glu E2.6%
GAA90
GAG9
Cys C0.7%
UGU13
UGC13
Trp W2.8%
UGA100
UGG7
Arg R1.7%
CGU10
CGC9
CGA44
CGG0
Gly G5.4%
GGU47
GGC37
GGA95
GGG27
Stop 0.2%
UAA7
UAG0
AGA1
AGG0

Genome map

38 annotated features in NC_039103.1

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 (35.5%, dashed): out is GC-richer, in is AT-richer (full height = 6 points).
All 38 features as a table
FeatureTypeStartEndLengthStrandGC
tRNA-PheTransfer RNA16666 bp+–
12S rRNARibosomal RNA681,012945 bp+37.9%
tRNA-ValTransfer RNA1,0131,08068 bp+–
16S rRNARibosomal RNA1,0812,6391,559 bp+34.6%
tRNA-Leu (UUR)Transfer RNA2,6402,71475 bp+–
ND1Protein-coding gene2,7183,675958 bp+35.7%
tRNA-IleTransfer RNA3,6763,74368 bp+–
tRNA-GlnTransfer RNA3,7413,81171 bp−–
tRNA-MetTransfer RNA3,8143,88269 bp+–
ND2Protein-coding gene3,8834,9241,042 bp+33.4%
tRNA-TrpTransfer RNA4,9254,99268 bp+–
tRNA-AlaTransfer RNA4,9945,06370 bp−–
tRNA-AsnTransfer RNA5,0645,13673 bp−–
tRNA-CysTransfer RNA5,1735,23967 bp−–
tRNA-TyrTransfer RNA5,2435,31270 bp−–
COX1Protein-coding gene5,3146,8551,542 bp+37.6%
tRNA-Ser (UCN)Transfer RNA6,8596,92769 bp−–
tRNA-AspTransfer RNA6,9377,00569 bp+–
COX2Protein-coding gene7,0067,689684 bp+33.9%
tRNA-LysTransfer RNA7,6927,75665 bp+–
ATP8Protein-coding gene7,7587,949192 bp+31.3%
ATP6Protein-coding gene7,9198,599681 bp+36.4%
COX3Protein-coding gene8,5999,382784 bp+39.2%
tRNA-GlyTransfer RNA9,3839,45169 bp+–
ND3Protein-coding gene9,4529,797346 bp+36.1%
tRNA-ArgTransfer RNA9,7989,86669 bp+–
ND4LProtein-coding gene9,86810,164297 bp+32.0%
ND4Protein-coding gene10,15811,5351,378 bp+33.9%
tRNA-HisTransfer RNA11,53611,60570 bp+–
tRNA-Ser (AGY)Transfer RNA11,61211,66857 bp+–
tRNA-Leu (CUN)Transfer RNA11,67011,73970 bp+–
ND5Protein-coding gene11,74013,5511,812 bp+33.4%
ND6Protein-coding gene13,54814,081534 bp−34.5%
tRNA-GluTransfer RNA14,08214,15069 bp−–
CYTBProtein-coding gene14,15715,2961,140 bp+37.0%
tRNA-ThrTransfer RNA15,29715,36367 bp+–
tRNA-ProTransfer RNA15,37215,43867 bp−–
D-loopControl region15,43916,8261,388 bp–38.4%

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