MitoAge

Cuora flavomarginata

Yellow-margined box turtle

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Retired record. RefSeq NC_012054.1 is not in NCBI RefSeq release 237 (mitochondrion.1.genomic.gbff.gz, file date 2026-09-03) (suppressed) and the release has no other complete mitogenome of NCBI species 204965 (Cuora flavomarginata); no longer qualifies under the RefSeq-only rule Its build 1 values are kept and it is left out of the correlations.

Maximum lifespan
19.1 yr
AnAge record
mtDNA size
16,721 bp
RefSeq NC_012054.1
GC content
38.33%
Whole genome
Non-coding
1,268 bp
D-loop 1,207 bp

Where Yellow-margined box turtle sits among 2,335 species

Whole-genome GC content against maximum lifespan. Yellow-margined box turtle has the 973rd longest lifespan of them.

10203040501 yr10 yr100 yrMaximum lifespan, log scaleGC %Yellow-margined box turtle
  • This species
  • Other reptiles
  • Other classes
Plot other mtDNA features with this species highlighted

Base composition

Whole genome16,721 bp
GC skew (G − C) / (G + C)
−0.332
AT skew (A − T) / (A + T)
+0.103

Life history

Maximum lifespan
19.1 years
Adult weight
499 g

Lifespan from AnAge · AnAge record · other traits from AnAge Build 15 (HAGRID 03718)

About this record

Lifespan source
AnAge build 15
Based on
an animal in captivity
Data quality
acceptable, medium sample
Licence
Free to use, subject to the Human Ageing Genomic Resources conditions of use
Status
Retired
In the database since
build 1 (2015-07-01)
Last changed
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 genome16,721 bp
Protein-coding11,355 bp
12S rRNA965 bp
16S rRNA1,597 bp
All tRNA1,550 bp
D-loop1,207 bp

Genes and regions

Select a column to sort; select a gene to compare it across species
Composition
ND1NADH dehydrogenase subunit 1972 bp31.9%29.1%11.1%27.9%38.99%−0.430+0.046
ND2NADH dehydrogenase subunit 21,041 bp36.0%24.7%9.7%29.6%39.29%−0.506+0.187
COX1Cytochrome c oxidase subunit I1,548 bp28.2%30.2%16.8%24.9%41.67%−0.194−0.034
COX2Cytochrome c oxidase subunit II687 bp34.9%28.4%13.1%23.6%36.68%−0.286+0.103
ATP8ATP synthase F0 subunit 8168 bp38.1%26.2%7.7%28.0%35.71%−0.567+0.185
ATP6ATP synthase F0 subunit 6684 bp33.6%29.7%9.9%26.8%36.70%−0.458+0.062
COX3Cytochrome c oxidase subunit III784 bp30.4%29.2%15.1%25.4%40.43%−0.256+0.019
ND3NADH dehydrogenase subunit 3352 bp32.7%32.4%10.5%24.4%34.94%−0.398+0.004
ND4LNADH dehydrogenase subunit 4L300 bp28.3%29.3%12.3%30.0%42.33%−0.417−0.017
ND4NADH dehydrogenase subunit 41,377 bp33.6%27.2%12.2%27.1%39.29%−0.379+0.105
ND5NADH dehydrogenase subunit 51,806 bp33.6%27.4%10.2%28.7%38.98%−0.474+0.102
ND6NADH dehydrogenase subunit 6525 bp46.5%13.9%8.2%31.4%39.62%−0.587+0.539
CYTBCytochrome b1,134 bp30.0%28.0%11.7%30.2%41.98%−0.441+0.033
12S rRNA12S ribosomal RNA965 bp36.5%22.3%17.0%24.2%41.24%−0.176+0.242
16S rRNA16S ribosomal RNA1,597 bp39.1%22.2%16.5%22.2%38.70%−0.149+0.275
D-loopControl region (D-loop)1,207 bp33.9%40.8%9.6%15.7%25.27%−0.239−0.093

Codon usage

Counts per codon, darker is more frequent

3,792 codons in all protein-coding genes. Grouped with the Vertebrate mitochondrial code (NCBI table 2).

Phe F6.0%
UUU103
UUC124
Leu L15.9%
UUA174
UUG24
CUU77
CUC75
CUA232
CUG22
Ile I8.4%
AUU155
AUC164
Met M6.4%
AUA206
AUG37
Val V4.2%
GUU34
GUC17
GUA90
GUG17
Ser S6.9%
UCU57
UCC54
UCA105
UCG2
AGU19
AGC26
Pro P5.6%
CCU29
CCC45
CCA127
CCG11
Thr T9.2%
ACU79
ACC117
ACA148
ACG3
Ala A6.9%
GCU71
GCC96
GCA87
GCG6
Tyr Y3.2%
UAU46
UAC74
His H2.7%
CAU43
CAC60
Gln Q2.7%
CAA95
CAG6
Asn N3.7%
AAU46
AAC94
Lys K2.3%
AAA85
AAG2
Asp D1.7%
GAU23
GAC40
Glu E2.5%
GAA80
GAG13
Cys C0.9%
UGU13
UGC21
Trp W2.9%
UGA104
UGG6
Arg R1.8%
CGU8
CGC13
CGA45
CGG3
Gly G6.0%
GGU39
GGC61
GGA89
GGG38
Stop 0.3%
UAA7
UAG3
AGA0
AGG2

Genome map

38 annotated features in NC_012054.1

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 (38.3%, dashed): out is GC-richer, in is AT-richer (full height = 6 points).
All 38 features as a table
FeatureTypeStartEndLengthStrandGC
tRNA-PheTransfer RNA17070 bp+–
12S rRNARibosomal RNA711,035965 bp+41.2%
tRNA-ValTransfer RNA1,0361,10570 bp+–
16S rRNARibosomal RNA1,1062,7021,597 bp+38.7%
tRNA-Leu (UUR)Transfer RNA2,7032,77876 bp+–
ND1Protein-coding gene2,7793,750972 bp+39.0%
tRNA-IleTransfer RNA3,7503,81970 bp+–
tRNA-GlnTransfer RNA3,8193,88971 bp−–
tRNA-MetTransfer RNA3,8893,95769 bp+–
ND2Protein-coding gene3,9584,9981,041 bp+39.3%
tRNA-TrpTransfer RNA4,9975,07478 bp+–
tRNA-AlaTransfer RNA5,0765,14469 bp−–
tRNA-AsnTransfer RNA5,1465,21873 bp−–
tRNA-CysTransfer RNA5,2465,31166 bp−–
tRNA-TyrTransfer RNA5,3125,38271 bp−–
COX1Protein-coding gene5,3846,9311,548 bp+41.7%
tRNA-Ser (UCN)Transfer RNA6,9236,99371 bp−–
tRNA-AspTransfer RNA6,9967,06570 bp+–
COX2Protein-coding gene7,0667,752687 bp+36.7%
tRNA-LysTransfer RNA7,7567,82873 bp+–
ATP8Protein-coding gene7,8297,996168 bp+35.7%
ATP6Protein-coding gene7,9878,670684 bp+36.7%
COX3Protein-coding gene8,6709,453784 bp+40.4%
tRNA-GlyTransfer RNA9,4549,52168 bp+–
ND3Protein-coding gene9,5229,873352 bp+34.9%
tRNA-ArgTransfer RNA9,8729,94170 bp+–
ND4LProtein-coding gene9,94210,241300 bp+42.3%
ND4Protein-coding gene10,23511,6111,377 bp+39.3%
tRNA-HisTransfer RNA11,62411,69370 bp+–
tRNA-Ser (AGY)Transfer RNA11,69411,76067 bp+–
tRNA-Leu (CUN)Transfer RNA11,76011,83172 bp+–
ND5Protein-coding gene11,83213,6371,806 bp+39.0%
ND6Protein-coding gene13,63314,157525 bp−39.6%
tRNA-GluTransfer RNA14,15814,22568 bp−–
CYTBProtein-coding gene14,23015,3631,134 bp+42.0%
tRNA-ThrTransfer RNA15,37315,44472 bp+–
tRNA-ProTransfer RNA15,44615,51469 bp−–
D-loopControl region15,51516,7211,207 bp–25.3%

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