Mesocentrotus franciscanus
Red sea urchin
GC content
40.59%
Whole genome
Non-coding
244 bp
Including the D-loop
Where Red sea urchin sits among 2,335 species
Whole-genome GC content against maximum lifespan. Red sea urchin has the 7th longest lifespan of them.
- This species
- All other species
Base composition
Whole genome15,649 bp
- GC skew (G − C) / (G + C)
- −0.139
- AT skew (A − T) / (A + T)
- +0.002
Life history
- Maximum lifespan
- 200 years
- Female sexual maturity
- 550 days
- Male sexual maturity
- 550 days
Lifespan from AnAge · AnAge record · other traits from AnAge build 15 (HAGRID 04604)
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
- 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 genome15,649 bp
Protein-coding11,422 bp
12S rRNA897 bp
16S rRNA1,541 bp
All tRNA1,562 bp
Genes and regions
Select a column to sort; select a gene to compare it across species| Composition | |||||||||
|---|---|---|---|---|---|---|---|---|---|
| ND1NADH dehydrogenase subunit 1 | 972 bp | 40.43% | −0.130 | −0.143 | |||||
| ND2NADH dehydrogenase subunit 2 | 1,059 bp | 39.09% | −0.198 | −0.113 | |||||
| COX1Cytochrome c oxidase subunit I | 1,554 bp | 43.50% | −0.136 | −0.103 | |||||
| COX2Cytochrome c oxidase subunit II | 690 bp | 42.32% | −0.192 | −0.025 | |||||
| ATP8ATP synthase F0 subunit 8 | 165 bp | 35.76% | −0.424 | +0.057 | |||||
| ATP6ATP synthase F0 subunit 6 | 690 bp | 38.26% | −0.205 | −0.094 | |||||
| COX3Cytochrome c oxidase subunit III | 783 bp | 42.91% | −0.131 | −0.074 | |||||
| ND3NADH dehydrogenase subunit 3 | 351 bp | 44.44% | −0.141 | −0.138 | |||||
| ND4LNADH dehydrogenase subunit 4L | 294 bp | 39.46% | −0.224 | −0.112 | |||||
| ND4NADH dehydrogenase subunit 4 | 1,389 bp | 41.18% | −0.210 | −0.001 | |||||
| ND5NADH dehydrogenase subunit 5 | 1,854 bp | 40.67% | −0.175 | −0.027 | |||||
| ND6NADH dehydrogenase subunit 6 | 489 bp | 39.26% | −0.292 | +0.367 | |||||
| CYTBCytochrome b | 1,143 bp | 41.38% | −0.235 | −0.024 | |||||
| 12S rRNA12S ribosomal RNA | 897 bp | 40.91% | −0.003 | +0.245 | |||||
| 16S rRNA16S ribosomal RNA | 1,541 bp | 38.22% | +0.002 | +0.166 |
Codon usage
Counts per codon, darker is more frequent3,811 codons in all protein-coding genes. Grouped with the Echinoderm and flatworm mitochondrial code (NCBI table 9).
Phe F8.0%
UUU172
UUC131
Leu L16.0%
UUA141
UUG53
CUU119
CUC68
CUA189
CUG38
Ile I9.7%
AUU144
AUC72
AUA153
Met M2.7%
AUG101
Val V6.6%
GUU81
GUC50
GUA91
GUG29
Ser S9.9%
UCU97
UCC75
UCA74
UCG15
AGU21
AGC23
AGA53
AGG19
Pro P4.5%
CCU38
CCC52
CCA73
CCG8
Thr T6.2%
ACU64
ACC72
ACA86
ACG15
Ala A7.8%
GCU78
GCC110
GCA100
GCG11
Tyr Y2.9%
UAU39
UAC72
His H2.1%
CAU24
CAC57
Gln Q2.2%
CAA65
CAG17
Asn N4.0%
AAU31
AAC56
AAA64
Lys K1.4%
AAG53
Asp D1.8%
GAU29
GAC40
Glu E2.6%
GAA68
GAG30
Cys C0.8%
UGU12
UGC18
Trp W2.7%
UGA80
UGG23
Arg R1.9%
CGU6
CGC6
CGA54
CGG7
Gly G6.1%
GGU29
GGC37
GGA119
GGG46
Stop 0.3%
UAA10
UAG3
Genome map
37 annotated features in NC_024177.1Hover, 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
- 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 37 features as a table
| Feature | Type | Start | End | Length | Strand | GC |
|---|---|---|---|---|---|---|
| tRNA-Phe | Transfer RNA | 1 | 73 | 73 bp | + | – |
| 12S rRNA | Ribosomal RNA | 74 | 970 | 897 bp | + | 40.9% |
| tRNA-Glu | Transfer RNA | 970 | 1,038 | 69 bp | + | – |
| tRNA-Thr | Transfer RNA | 1,043 | 1,115 | 73 bp | + | – |
| tRNA-Pro | Transfer RNA | 1,240 | 1,312 | 73 bp | + | – |
| tRNA-Gln | Transfer RNA | 1,313 | 1,384 | 72 bp | + | – |
| tRNA-Asn | Transfer RNA | 1,394 | 1,465 | 72 bp | + | – |
| tRNA-Leu (CUN) | Transfer RNA | 1,466 | 1,537 | 72 bp | + | – |
| tRNA-Ala | Transfer RNA | 1,537 | 1,607 | 71 bp | − | – |
| tRNA-Trp | Transfer RNA | 1,610 | 1,678 | 69 bp | + | – |
| tRNA-Cys | Transfer RNA | 1,679 | 1,746 | 68 bp | + | – |
| tRNA-Val | Transfer RNA | 1,746 | 1,815 | 70 bp | − | – |
| tRNA-Met | Transfer RNA | 1,839 | 1,914 | 76 bp | + | – |
| tRNA-Asp | Transfer RNA | 1,914 | 1,983 | 70 bp | − | – |
| tRNA-Tyr | Transfer RNA | 1,990 | 2,063 | 74 bp | + | – |
| tRNA-Gly | Transfer RNA | 2,066 | 2,136 | 71 bp | + | – |
| tRNA-Leu (UUR) | Transfer RNA | 2,135 | 2,208 | 74 bp | + | – |
| ND1 | Protein-coding gene | 2,210 | 3,181 | 972 bp | + | 40.4% |
| tRNA-Ile | Transfer RNA | 3,183 | 3,255 | 73 bp | + | – |
| ND2 | Protein-coding gene | 3,255 | 4,313 | 1,059 bp | + | 39.1% |
| 16S rRNA | Ribosomal RNA | 4,314 | 5,854 | 1,541 bp | + | 38.2% |
| COX1 | Protein-coding gene | 5,851 | 7,404 | 1,554 bp | + | 43.5% |
| tRNA-Arg | Transfer RNA | 7,414 | 7,482 | 69 bp | + | – |
| ND4L | Protein-coding gene | 7,484 | 7,777 | 294 bp | + | 39.5% |
| COX2 | Protein-coding gene | 7,777 | 8,466 | 690 bp | + | 42.3% |
| tRNA-Lys | Transfer RNA | 8,471 | 8,541 | 71 bp | + | – |
| ATP8 | Protein-coding gene | 8,542 | 8,706 | 165 bp | + | 35.8% |
| ATP6 | Protein-coding gene | 8,697 | 9,386 | 690 bp | + | 38.3% |
| COX3 | Protein-coding gene | 9,390 | 10,172 | 783 bp | + | 42.9% |
| tRNA-Ser (UCN) | Transfer RNA | 10,172 | 10,241 | 70 bp | − | – |
| ND3 | Protein-coding gene | 10,258 | 10,608 | 351 bp | + | 44.4% |
| ND4 | Protein-coding gene | 10,623 | 12,011 | 1,389 bp | + | 41.2% |
| tRNA-His | Transfer RNA | 12,002 | 12,070 | 69 bp | + | – |
| tRNA-Ser | Transfer RNA | 12,072 | 12,139 | 68 bp | + | – |
| ND5 | Protein-coding gene | 12,140 | 13,993 | 1,854 bp | + | 40.7% |
| ND6 | Protein-coding gene | 13,994 | 14,482 | 489 bp | − | 39.3% |
| CYTB | Protein-coding gene | 14,507 | 15,649 | 1,143 bp | + | 41.4% |