Geoclemys hamiltonii
Indian black pond turtle
GC content
40.56%
Whole genome
Non-coding
1,058 bp
D-loop 985 bp
Where Indian black pond turtle sits among 2,335 species
Whole-genome GC content against maximum lifespan. Indian black pond turtle has the 970th longest lifespan of them.
- This species
- Other reptiles
- Other classes
Base composition
Whole genome16,505 bp
- GC skew (G − C) / (G + C)
- −0.337
- AT skew (A − T) / (A + T)
- +0.131
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
- 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 RefSeqWhole genome16,505 bp
Protein-coding11,346 bp
12S rRNA959 bp
16S rRNA1,604 bp
All tRNA1,550 bp
D-loop985 bp
Genes and regions
Select a column to sort; select a gene to compare it across species| Composition | |||||||||
|---|---|---|---|---|---|---|---|---|---|
| ND1NADH dehydrogenase subunit 1 | 968 bp | 41.01% | −0.456 | +0.089 | |||||
| ND2NADH dehydrogenase subunit 2 | 1,039 bp | 41.10% | −0.536 | +0.225 | |||||
| COX1Cytochrome c oxidase subunit I | 1,551 bp | 43.33% | −0.208 | −0.001 | |||||
| COX2Cytochrome c oxidase subunit II | 687 bp | 40.18% | −0.246 | +0.095 | |||||
| ATP8ATP synthase F0 subunit 8 | 168 bp | 34.52% | −0.517 | +0.127 | |||||
| ATP6ATP synthase F0 subunit 6 | 684 bp | 40.35% | −0.507 | +0.098 | |||||
| COX3Cytochrome c oxidase subunit III | 784 bp | 41.71% | −0.266 | +0.028 | |||||
| ND3NADH dehydrogenase subunit 3 | 333 bp | 39.94% | −0.444 | +0.030 | |||||
| ND4LNADH dehydrogenase subunit 4L | 297 bp | 41.41% | −0.512 | 0.000 | |||||
| ND4NADH dehydrogenase subunit 4 | 1,377 bp | 39.94% | −0.396 | +0.122 | |||||
| ND5NADH dehydrogenase subunit 5 | 1,809 bp | 40.24% | −0.508 | +0.156 | |||||
| ND6NADH dehydrogenase subunit 6 | 528 bp | 40.15% | −0.566 | +0.538 | |||||
| CYTBCytochrome b | 1,144 bp | 42.83% | −0.445 | +0.052 | |||||
| 12S rRNA12S ribosomal RNA | 959 bp | 42.96% | −0.117 | +0.210 | |||||
| 16S rRNA16S ribosomal RNA | 1,604 bp | 39.90% | −0.153 | +0.284 | |||||
| D-loopControl region (D-loop) | 985 bp | 33.91% | −0.198 | −0.020 |
Codon usage
Counts per codon, darker is more frequent3,788 codons in all protein-coding genes. Grouped with the Vertebrate mitochondrial code (NCBI table 2).
Phe F5.8%
UUU90
UUC131
Leu L15.7%
UUA114
UUG22
CUU79
CUC80
CUA265
CUG33
Ile I8.1%
AUU128
AUC179
Met M6.2%
AUA198
AUG38
Val V4.3%
GUU26
GUC39
GUA81
GUG17
Ser S7.3%
UCU40
UCC67
UCA114
UCG7
AGU12
AGC35
Pro P5.6%
CCU32
CCC44
CCA130
CCG7
Thr T9.6%
ACU66
ACC131
ACA155
ACG10
Ala A6.6%
GCU61
GCC97
GCA89
GCG3
Tyr Y3.4%
UAU50
UAC78
His H2.8%
CAU41
CAC65
Gln Q2.5%
CAA89
CAG7
Asn N3.9%
AAU54
AAC93
Lys K2.4%
AAA88
AAG4
Asp D1.7%
GAU22
GAC41
Glu E2.4%
GAA80
GAG11
Cys C0.9%
UGU13
UGC20
Trp W2.8%
UGA95
UGG11
Arg R1.9%
CGU9
CGC12
CGA47
CGG5
Gly G5.9%
GGU28
GGC66
GGA93
GGG37
Stop 0.2%
UAA5
UAG1
AGA0
AGG3
Genome map
38 annotated features in NC_065016.1Hover, 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 (40.6%, dashed): out is GC-richer, in is AT-richer (full height = 6 points).
All 38 features as a table
| Feature | Type | Start | End | Length | Strand | GC |
|---|---|---|---|---|---|---|
| tRNA-Phe | Transfer RNA | 1 | 70 | 70 bp | + | – |
| 12S rRNA | Ribosomal RNA | 71 | 1,029 | 959 bp | + | 43.0% |
| tRNA-Val | Transfer RNA | 1,030 | 1,100 | 71 bp | + | – |
| 16S rRNA | Ribosomal RNA | 1,101 | 2,704 | 1,604 bp | + | 39.9% |
| tRNA-Leu (UUR) | Transfer RNA | 2,705 | 2,780 | 76 bp | + | – |
| ND1 | Protein-coding gene | 2,781 | 3,748 | 968 bp | + | 41.0% |
| tRNA-Ile | Transfer RNA | 3,749 | 3,818 | 70 bp | + | – |
| tRNA-Gln | Transfer RNA | 3,818 | 3,888 | 71 bp | − | – |
| tRNA-Met | Transfer RNA | 3,888 | 3,956 | 69 bp | + | – |
| ND2 | Protein-coding gene | 3,957 | 4,995 | 1,039 bp | + | 41.1% |
| tRNA-Trp | Transfer RNA | 4,996 | 5,071 | 76 bp | + | – |
| tRNA-Ala | Transfer RNA | 5,073 | 5,141 | 69 bp | − | – |
| tRNA-Asn | Transfer RNA | 5,143 | 5,215 | 73 bp | − | – |
| tRNA-Cys | Transfer RNA | 5,241 | 5,306 | 66 bp | − | – |
| tRNA-Tyr | Transfer RNA | 5,312 | 5,382 | 71 bp | − | – |
| COX1 | Protein-coding gene | 5,384 | 6,934 | 1,551 bp | + | 43.3% |
| tRNA-Ser (UCN) | Transfer RNA | 6,923 | 6,993 | 71 bp | − | – |
| tRNA-Asp | Transfer RNA | 6,994 | 7,063 | 70 bp | + | – |
| COX2 | Protein-coding gene | 7,064 | 7,750 | 687 bp | + | 40.2% |
| tRNA-Lys | Transfer RNA | 7,751 | 7,825 | 75 bp | + | – |
| ATP8 | Protein-coding gene | 7,827 | 7,994 | 168 bp | + | 34.5% |
| ATP6 | Protein-coding gene | 7,985 | 8,668 | 684 bp | + | 40.4% |
| COX3 | Protein-coding gene | 8,668 | 9,451 | 784 bp | + | 41.7% |
| tRNA-Gly | Transfer RNA | 9,452 | 9,519 | 68 bp | + | – |
| ND3 | Protein-coding gene | 9,521 | 9,853 | 333 bp | + | 39.9% |
| tRNA-Arg | Transfer RNA | 9,871 | 9,940 | 70 bp | + | – |
| ND4L | Protein-coding gene | 9,941 | 10,237 | 297 bp | + | 41.4% |
| ND4 | Protein-coding gene | 10,231 | 11,607 | 1,377 bp | + | 39.9% |
| tRNA-His | Transfer RNA | 11,623 | 11,692 | 70 bp | + | – |
| tRNA-Ser (AGY) | Transfer RNA | 11,693 | 11,758 | 66 bp | + | – |
| tRNA-Leu (CUN) | Transfer RNA | 11,758 | 11,829 | 72 bp | + | – |
| ND5 | Protein-coding gene | 11,830 | 13,638 | 1,809 bp | + | 40.2% |
| ND6 | Protein-coding gene | 13,634 | 14,161 | 528 bp | − | 40.2% |
| tRNA-Glu | Transfer RNA | 14,162 | 14,229 | 68 bp | − | – |
| CYTB | Protein-coding gene | 14,235 | 15,378 | 1,144 bp | + | 42.8% |
| tRNA-Thr | Transfer RNA | 15,379 | 15,450 | 72 bp | + | – |
| tRNA-Pro | Transfer RNA | 15,452 | 15,520 | 69 bp | − | – |
| D-loop | Control region | 15,521 | 16,505 | 985 bp | – | 33.9% |