Hynobius leechii
Chinese salamander
GC content
33.95%
Whole genome
Non-coding
993 bp
D-loop 802 bp
Where Chinese salamander sits among 2,335 species
Whole-genome GC content against maximum lifespan. Chinese salamander has the 1,809th longest lifespan of them.
- This species
- Other amphibians
- Other classes
Base composition
Whole genome16,428 bp
- GC skew (G − C) / (G + C)
- −0.194
- AT skew (A − T) / (A + T)
- +0.015
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 RefSeqWhole genome16,428 bp
Protein-coding11,369 bp
12S rRNA934 bp
16S rRNA1,601 bp
All tRNA1,536 bp
D-loop802 bp
Genes and regions
Select a column to sort; select a gene to compare it across species| Composition | |||||||||
|---|---|---|---|---|---|---|---|---|---|
| ND1NADH dehydrogenase subunit 1 | 972 bp | 32.82% | −0.248 | −0.063 | |||||
| ND2NADH dehydrogenase subunit 2 | 1,044 bp | 28.83% | −0.362 | −0.020 | |||||
| COX1Cytochrome c oxidase subunit I | 1,551 bp | 37.65% | −0.065 | −0.100 | |||||
| COX2Cytochrome c oxidase subunit II | 687 bp | 33.48% | −0.191 | +0.024 | |||||
| ATP8ATP synthase F0 subunit 8 | 168 bp | 25.00% | −0.238 | +0.048 | |||||
| ATP6ATP synthase F0 subunit 6 | 684 bp | 29.53% | −0.337 | −0.046 | |||||
| COX3Cytochrome c oxidase subunit III | 785 bp | 37.20% | −0.130 | −0.051 | |||||
| ND3NADH dehydrogenase subunit 3 | 351 bp | 35.33% | −0.226 | −0.084 | |||||
| ND4LNADH dehydrogenase subunit 4L | 297 bp | 32.66% | −0.258 | −0.090 | |||||
| ND4NADH dehydrogenase subunit 4 | 1,378 bp | 32.58% | −0.314 | +0.001 | |||||
| ND5NADH dehydrogenase subunit 5 | 1,814 bp | 32.58% | −0.252 | −0.024 | |||||
| ND6NADH dehydrogenase subunit 6 | 519 bp | 34.68% | −0.344 | +0.327 | |||||
| CYTBCytochrome b | 1,142 bp | 37.04% | −0.262 | −0.051 | |||||
| 12S rRNA12S ribosomal RNA | 934 bp | 36.40% | −0.082 | +0.199 | |||||
| 16S rRNA16S ribosomal RNA | 1,601 bp | 32.98% | −0.057 | +0.195 | |||||
| D-loopControl region (D-loop) | 802 bp | 35.16% | −0.092 | −0.088 |
Codon usage
Counts per codon, darker is more frequent3,795 codons in all protein-coding genes. Grouped with the Vertebrate mitochondrial code (NCBI table 2).
Phe F6.8%
UUU208
UUC51
Leu L15.9%
UUA287
UUG21
CUU110
CUC47
CUA126
CUG11
Ile I9.1%
AUU276
AUC68
Met M6.5%
AUA215
AUG33
Val V4.6%
GUU50
GUC18
GUA96
GUG10
Ser S7.8%
UCU59
UCC38
UCA137
UCG12
AGU25
AGC25
Pro P5.2%
CCU47
CCC33
CCA106
CCG10
Thr T6.7%
ACU85
ACC48
ACA115
ACG5
Ala A6.9%
GCU58
GCC60
GCA133
GCG9
Tyr Y3.2%
UAU89
UAC34
His H2.4%
CAU48
CAC44
Gln Q2.4%
CAA81
CAG11
Asn N4.2%
AAU104
AAC55
Lys K2.2%
AAA80
AAG5
Asp D1.8%
GAU36
GAC31
Glu E2.6%
GAA82
GAG17
Cys C0.7%
UGU15
UGC13
Trp W3.0%
UGA95
UGG17
Arg R1.9%
CGU13
CGC4
CGA50
CGG6
Gly G5.9%
GGU39
GGC35
GGA103
GGG47
Stop 0.2%
UAA6
UAG2
AGA1
AGG0
Genome map
38 annotated features in NC_008079.1Hover, 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 (33.9%, 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 | 69 | 69 bp | + | – |
| 12S rRNA | Ribosomal RNA | 70 | 1,003 | 934 bp | + | 36.4% |
| tRNA-Val | Transfer RNA | 1,004 | 1,072 | 69 bp | + | – |
| 16S rRNA | Ribosomal RNA | 1,073 | 2,673 | 1,601 bp | + | 33.0% |
| tRNA-Leu (UUR) | Transfer RNA | 2,674 | 2,748 | 75 bp | + | – |
| ND1 | Protein-coding gene | 2,749 | 3,720 | 972 bp | + | 32.8% |
| tRNA-Ile | Transfer RNA | 3,720 | 3,790 | 71 bp | + | – |
| tRNA-Gln | Transfer RNA | 3,790 | 3,863 | 74 bp | − | – |
| tRNA-Met | Transfer RNA | 3,862 | 3,930 | 69 bp | + | – |
| ND2 | Protein-coding gene | 3,931 | 4,974 | 1,044 bp | + | 28.8% |
| tRNA-Trp | Transfer RNA | 4,973 | 5,042 | 70 bp | + | – |
| tRNA-Ala | Transfer RNA | 5,045 | 5,113 | 69 bp | − | – |
| tRNA-Asn | Transfer RNA | 5,115 | 5,187 | 73 bp | − | – |
| tRNA-Cys | Transfer RNA | 5,221 | 5,287 | 67 bp | − | – |
| tRNA-Tyr | Transfer RNA | 5,288 | 5,354 | 67 bp | − | – |
| COX1 | Protein-coding gene | 5,356 | 6,906 | 1,551 bp | + | 37.7% |
| tRNA-Ser (AGY) | Transfer RNA | 6,907 | 6,977 | 71 bp | − | – |
| tRNA-Asp | Transfer RNA | 6,980 | 7,048 | 69 bp | + | – |
| COX2 | Protein-coding gene | 7,051 | 7,737 | 687 bp | + | 33.5% |
| tRNA-Lys | Transfer RNA | 7,739 | 7,809 | 71 bp | + | – |
| ATP8 | Protein-coding gene | 7,811 | 7,978 | 168 bp | + | 25.0% |
| ATP6 | Protein-coding gene | 7,969 | 8,652 | 684 bp | + | 29.5% |
| COX3 | Protein-coding gene | 8,652 | 9,436 | 785 bp | + | 37.2% |
| tRNA-Gly | Transfer RNA | 9,436 | 9,503 | 68 bp | + | – |
| ND3 | Protein-coding gene | 9,504 | 9,854 | 351 bp | + | 35.3% |
| tRNA-Arg | Transfer RNA | 9,855 | 9,919 | 65 bp | + | – |
| ND4L | Protein-coding gene | 9,922 | 10,218 | 297 bp | + | 32.7% |
| ND4 | Protein-coding gene | 10,212 | 11,589 | 1,378 bp | + | 32.6% |
| tRNA-His | Transfer RNA | 11,590 | 11,659 | 70 bp | + | – |
| tRNA-Ser (UCN) | Transfer RNA | 11,660 | 11,727 | 68 bp | + | – |
| tRNA-Leu (CUN) | Transfer RNA | 11,728 | 11,799 | 72 bp | + | – |
| ND5 | Protein-coding gene | 11,800 | 13,613 | 1,814 bp | + | 32.6% |
| ND6 | Protein-coding gene | 13,609 | 14,127 | 519 bp | − | 34.7% |
| tRNA-Glu | Transfer RNA | 14,128 | 14,195 | 68 bp | − | – |
| CYTB | Protein-coding gene | 14,199 | 15,340 | 1,142 bp | + | 37.0% |
| tRNA-Thr | Transfer RNA | 15,340 | 15,409 | 70 bp | + | – |
| tRNA-Pro | Transfer RNA | 15,553 | 15,626 | 74 bp | − | – |
| D-loop | Control region | 15,627 | 16,428 | 802 bp | – | 35.2% |