Hynobius nebulosus
Clouded salamander
GC content
34.18%
Whole genome
Non-coding
1,016 bp
D-loop 804 bp
Where Clouded salamander sits among 2,335 species
Whole-genome GC content against maximum lifespan. Clouded salamander has the 1,278th longest lifespan of them.
- This species
- Other amphibians
- Other classes
Base composition
Whole genome16,447 bp
- GC skew (G − C) / (G + C)
- −0.212
- AT skew (A − T) / (A + T)
- +0.023
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
- Updated in build 2
- 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 RefSeqWhole genome16,447 bp
Protein-coding11,362 bp
12S rRNA934 bp
16S rRNA1,602 bp
All tRNA1,533 bp
D-loop804 bp
Genes and regions
Select a column to sort; select a gene to compare it across species| Composition | |||||||||
|---|---|---|---|---|---|---|---|---|---|
| ND1NADH dehydrogenase subunit 1 | 971 bp | 32.03% | −0.286 | −0.042 | |||||
| ND2NADH dehydrogenase subunit 2 | 1,042 bp | 30.13% | −0.408 | −0.019 | |||||
| COX1Cytochrome c oxidase subunit I | 1,551 bp | 37.59% | −0.091 | −0.081 | |||||
| COX2Cytochrome c oxidase subunit II | 687 bp | 33.62% | −0.203 | +0.053 | |||||
| ATP8ATP synthase F0 subunit 8 | 168 bp | 26.79% | −0.289 | +0.089 | |||||
| ATP6ATP synthase F0 subunit 6 | 684 bp | 33.63% | −0.313 | −0.040 | |||||
| COX3Cytochrome c oxidase subunit III | 784 bp | 38.65% | −0.155 | −0.048 | |||||
| ND3NADH dehydrogenase subunit 3 | 349 bp | 33.52% | −0.265 | −0.121 | |||||
| ND4LNADH dehydrogenase subunit 4L | 297 bp | 31.99% | −0.200 | −0.119 | |||||
| ND4NADH dehydrogenase subunit 4 | 1,378 bp | 33.16% | −0.322 | +0.016 | |||||
| ND5NADH dehydrogenase subunit 5 | 1,824 bp | 32.24% | −0.252 | −0.010 | |||||
| ND6NADH dehydrogenase subunit 6 | 519 bp | 34.49% | −0.453 | +0.341 | |||||
| CYTBCytochrome b | 1,141 bp | 38.30% | −0.300 | −0.048 | |||||
| 12S rRNA12S ribosomal RNA | 934 bp | 37.05% | −0.092 | +0.197 | |||||
| 16S rRNA16S ribosomal RNA | 1,602 bp | 32.46% | −0.038 | +0.205 | |||||
| D-loopControl region (D-loop) | 804 bp | 34.58% | −0.144 | −0.068 |
Codon usage
Counts per codon, darker is more frequent3,796 codons in all protein-coding genes. Grouped with the Vertebrate mitochondrial code (NCBI table 2).
Phe F6.7%
UUU195
UUC61
Leu L16.0%
UUA274
UUG25
CUU114
CUC46
CUA136
CUG13
Ile I9.1%
AUU255
AUC89
Met M6.3%
AUA198
AUG41
Val V4.7%
GUU53
GUC17
GUA94
GUG13
Ser S7.7%
UCU51
UCC44
UCA136
UCG11
AGU25
AGC25
Pro P5.2%
CCU51
CCC26
CCA108
CCG12
Thr T6.6%
ACU71
ACC57
ACA121
ACG3
Ala A6.9%
GCU59
GCC59
GCA138
GCG6
Tyr Y3.3%
UAU81
UAC45
His H2.4%
CAU45
CAC48
Gln Q2.4%
CAA84
CAG7
Asn N4.2%
AAU108
AAC52
Lys K2.3%
AAA86
AAG2
Asp D1.8%
GAU40
GAC29
Glu E2.6%
GAA81
GAG19
Cys C0.7%
UGU17
UGC11
Trp W3.0%
UGA101
UGG13
Arg R1.9%
CGU13
CGC4
CGA52
CGG3
Gly G5.8%
GGU36
GGC39
GGA106
GGG40
Stop 0.2%
UAA6
UAG0
AGA1
AGG0
Genome map
38 annotated features in NC_020650.1Hover, 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 (34.2%, 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 | 68 | 68 bp | + | – |
| 12S rRNA | Ribosomal RNA | 69 | 1,002 | 934 bp | + | 37.1% |
| tRNA-Val | Transfer RNA | 1,003 | 1,071 | 69 bp | + | – |
| 16S rRNA | Ribosomal RNA | 1,072 | 2,673 | 1,602 bp | + | 32.5% |
| tRNA-Leu (UUR) | Transfer RNA | 2,674 | 2,748 | 75 bp | + | – |
| ND1 | Protein-coding gene | 2,749 | 3,719 | 971 bp | + | 32.0% |
| tRNA-Ile | Transfer RNA | 3,720 | 3,790 | 71 bp | + | – |
| tRNA-Gln | Transfer RNA | 3,791 | 3,862 | 72 bp | − | – |
| tRNA-Met | Transfer RNA | 3,862 | 3,930 | 69 bp | + | – |
| ND2 | Protein-coding gene | 3,931 | 4,972 | 1,042 bp | + | 30.1% |
| tRNA-Trp | Transfer RNA | 4,973 | 5,041 | 69 bp | + | – |
| tRNA-Ala | Transfer RNA | 5,044 | 5,112 | 69 bp | − | – |
| tRNA-Asn | Transfer RNA | 5,114 | 5,186 | 73 bp | − | – |
| tRNA-Cys | Transfer RNA | 5,221 | 5,285 | 65 bp | − | – |
| tRNA-Tyr | Transfer RNA | 5,286 | 5,353 | 68 bp | − | – |
| COX1 | Protein-coding gene | 5,355 | 6,905 | 1,551 bp | + | 37.6% |
| tRNA-Ser (UCN) | Transfer RNA | 6,906 | 6,976 | 71 bp | − | – |
| tRNA-Asp | Transfer RNA | 6,979 | 7,046 | 68 bp | + | – |
| COX2 | Protein-coding gene | 7,048 | 7,734 | 687 bp | + | 33.6% |
| tRNA-Lys | Transfer RNA | 7,736 | 7,806 | 71 bp | + | – |
| ATP8 | Protein-coding gene | 7,808 | 7,975 | 168 bp | + | 26.8% |
| ATP6 | Protein-coding gene | 7,966 | 8,649 | 684 bp | + | 33.6% |
| COX3 | Protein-coding gene | 8,649 | 9,432 | 784 bp | + | 38.7% |
| tRNA-Gly | Transfer RNA | 9,433 | 9,500 | 68 bp | + | – |
| ND3 | Protein-coding gene | 9,501 | 9,849 | 349 bp | + | 33.5% |
| tRNA-Arg | Transfer RNA | 9,850 | 9,918 | 69 bp | + | – |
| ND4L | Protein-coding gene | 9,919 | 10,215 | 297 bp | + | 32.0% |
| ND4 | Protein-coding gene | 10,209 | 11,586 | 1,378 bp | + | 33.2% |
| tRNA-His | Transfer RNA | 11,587 | 11,655 | 69 bp | + | – |
| tRNA-Ser (AGY) | Transfer RNA | 11,656 | 11,723 | 68 bp | + | – |
| tRNA-Leu (CUN) | Transfer RNA | 11,724 | 11,795 | 72 bp | + | – |
| ND5 | Protein-coding gene | 11,796 | 13,619 | 1,824 bp | + | 32.2% |
| ND6 | Protein-coding gene | 13,605 | 14,123 | 519 bp | − | 34.5% |
| tRNA-Glu | Transfer RNA | 14,124 | 14,191 | 68 bp | − | – |
| CYTB | Protein-coding gene | 14,196 | 15,336 | 1,141 bp | + | 38.3% |
| tRNA-Thr | Transfer RNA | 15,337 | 15,406 | 70 bp | + | – |
| tRNA-Pro | Transfer RNA | 15,572 | 15,643 | 72 bp | − | – |
| D-loop | Control region | 15,644 | 16,447 | 804 bp | – | 34.6% |