Hemitriakis japanica
Japanese topeshark
GC content
40.04%
Whole genome
Non-coding
1,718 bp
D-loop 1,069 bp
Where Japanese topeshark sits among 2,335 species
Whole-genome GC content against maximum lifespan. Japanese topeshark has the 1,221st longest lifespan of them.
- This species
- Other sharks and rays
- Other classes
Base composition
Whole genome17,301 bp
- GC skew (G − C) / (G + C)
- −0.331
- AT skew (A − T) / (A + T)
- +0.037
About this record
- Lifespan source
- AnAge build 15
- Based on
- an animal in the wild
- Data quality
- acceptable, medium 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 genome17,301 bp
Protein-coding11,408 bp
12S rRNA952 bp
16S rRNA1,669 bp
All tRNA1,554 bp
D-loop1,069 bp
Genes and regions
Select a column to sort; select a gene to compare it across species| Composition | |||||||||
|---|---|---|---|---|---|---|---|---|---|
| ND1NADH dehydrogenase subunit 1 | 975 bp | 41.74% | −0.445 | +0.028 | |||||
| ND2NADH dehydrogenase subunit 2 | 1,045 bp | 40.67% | −0.525 | +0.042 | |||||
| COX1Cytochrome c oxidase subunit I | 1,557 bp | 41.43% | −0.222 | −0.064 | |||||
| COX2Cytochrome c oxidase subunit II | 691 bp | 40.81% | −0.291 | +0.095 | |||||
| ATP8ATP synthase F0 subunit 8 | 168 bp | 33.93% | −0.579 | +0.135 | |||||
| ATP6ATP synthase F0 subunit 6 | 684 bp | 38.16% | −0.433 | −0.021 | |||||
| COX3Cytochrome c oxidase subunit III | 786 bp | 43.64% | −0.254 | −0.020 | |||||
| ND3NADH dehydrogenase subunit 3 | 349 bp | 44.99% | −0.363 | −0.094 | |||||
| ND4LNADH dehydrogenase subunit 4L | 297 bp | 43.43% | −0.457 | −0.095 | |||||
| ND4NADH dehydrogenase subunit 4 | 1,381 bp | 40.70% | −0.459 | +0.006 | |||||
| ND5NADH dehydrogenase subunit 5 | 1,830 bp | 38.96% | −0.478 | +0.010 | |||||
| ND6NADH dehydrogenase subunit 6 | 522 bp | 40.42% | −0.564 | +0.363 | |||||
| CYTBCytochrome b | 1,146 bp | 42.06% | −0.407 | −0.081 | |||||
| 12S rRNA12S ribosomal RNA | 952 bp | 44.01% | −0.126 | +0.197 | |||||
| 16S rRNA16S ribosomal RNA | 1,669 bp | 37.45% | −0.098 | +0.140 | |||||
| D-loopControl region (D-loop) | 1,069 bp | 32.65% | −0.192 | −0.019 |
Codon usage
Counts per codon, darker is more frequent3,809 codons in all protein-coding genes. Grouped with the Vertebrate mitochondrial code (NCBI table 2).
Phe F6.2%
UUU113
UUC125
Leu L17.3%
UUA158
UUG13
CUU125
CUC146
CUA202
CUG16
Ile I9.0%
AUU177
AUC166
Met M4.3%
AUA127
AUG38
Val V4.5%
GUU45
GUC36
GUA79
GUG11
Ser S7.2%
UCU59
UCC62
UCA93
UCG4
AGU13
AGC42
Pro P5.5%
CCU53
CCC56
CCA97
CCG4
Thr T7.5%
ACU64
ACC90
ACA129
ACG3
Ala A7.4%
GCU63
GCC120
GCA89
GCG8
Tyr Y3.2%
UAU53
UAC67
His H2.8%
CAU46
CAC61
Gln Q2.5%
CAA89
CAG6
Asn N3.9%
AAU51
AAC99
Lys K2.2%
AAA79
AAG6
Asp D1.9%
GAU32
GAC39
Glu E2.5%
GAA91
GAG6
Cys C0.6%
UGU14
UGC9
Trp W3.2%
UGA113
UGG10
Arg R1.9%
CGU13
CGC19
CGA37
CGG4
Gly G6.0%
GGU58
GGC59
GGA87
GGG26
Stop 0.2%
UAA7
UAG1
AGA1
AGG0
Genome map
38 annotated features in NC_026774.1Hover, 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 (40.0%, 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 | 1,021 | 952 bp | + | 44.0% |
| tRNA-Val | Transfer RNA | 1,022 | 1,093 | 72 bp | + | – |
| 16S rRNA | Ribosomal RNA | 1,094 | 2,762 | 1,669 bp | + | 37.5% |
| tRNA-Leu (UUR) | Transfer RNA | 2,763 | 2,837 | 75 bp | + | – |
| ND1 | Protein-coding gene | 2,838 | 3,812 | 975 bp | + | 41.7% |
| tRNA-Ile | Transfer RNA | 3,813 | 3,882 | 70 bp | + | – |
| tRNA-Gln | Transfer RNA | 3,884 | 3,955 | 72 bp | − | – |
| tRNA-Met | Transfer RNA | 3,956 | 4,024 | 69 bp | + | – |
| ND2 | Protein-coding gene | 4,025 | 5,069 | 1,045 bp | + | 40.7% |
| tRNA-Trp | Transfer RNA | 5,070 | 5,140 | 71 bp | + | – |
| tRNA-Ala | Transfer RNA | 5,142 | 5,210 | 69 bp | − | – |
| tRNA-Asn | Transfer RNA | 5,211 | 5,283 | 73 bp | − | – |
| tRNA-Cys | Transfer RNA | 5,318 | 5,386 | 69 bp | − | – |
| tRNA-Tyr | Transfer RNA | 5,388 | 5,457 | 70 bp | − | – |
| COX1 | Protein-coding gene | 5,459 | 7,015 | 1,557 bp | + | 41.4% |
| tRNA-Ser (UCN) | Transfer RNA | 7,016 | 7,086 | 71 bp | − | – |
| tRNA-Asp | Transfer RNA | 7,090 | 7,159 | 70 bp | + | – |
| COX2 | Protein-coding gene | 7,167 | 7,857 | 691 bp | + | 40.8% |
| tRNA-Lys | Transfer RNA | 7,858 | 7,931 | 74 bp | + | – |
| ATP8 | Protein-coding gene | 7,933 | 8,100 | 168 bp | + | 33.9% |
| ATP6 | Protein-coding gene | 8,091 | 8,774 | 684 bp | + | 38.2% |
| COX3 | Protein-coding gene | 8,774 | 9,559 | 786 bp | + | 43.6% |
| tRNA-Gly | Transfer RNA | 9,562 | 9,631 | 70 bp | + | – |
| ND3 | Protein-coding gene | 9,632 | 9,980 | 349 bp | + | 45.0% |
| tRNA-Arg | Transfer RNA | 9,981 | 10,050 | 70 bp | + | – |
| ND4L | Protein-coding gene | 10,051 | 10,347 | 297 bp | + | 43.4% |
| ND4 | Protein-coding gene | 10,341 | 11,721 | 1,381 bp | + | 40.7% |
| tRNA-His | Transfer RNA | 11,722 | 11,791 | 70 bp | + | – |
| tRNA-Ser (AGY) | Transfer RNA | 11,792 | 11,858 | 67 bp | + | – |
| tRNA-Leu (CUN) | Transfer RNA | 11,859 | 11,930 | 72 bp | + | – |
| ND5 | Protein-coding gene | 11,931 | 13,760 | 1,830 bp | + | 39.0% |
| ND6 | Protein-coding gene | 13,756 | 14,277 | 522 bp | − | 40.4% |
| tRNA-Glu | Transfer RNA | 14,278 | 14,347 | 70 bp | − | – |
| CYTB | Protein-coding gene | 14,350 | 15,495 | 1,146 bp | + | 42.1% |
| tRNA-Thr | Transfer RNA | 16,090 | 16,161 | 72 bp | + | – |
| tRNA-Pro | Transfer RNA | 16,164 | 16,232 | 69 bp | − | – |
| D-loop | Control region | 16,233 | 17,301 | 1,069 bp | – | 32.7% |