Panopea abrupta
Pacific geoduck clam
GC content
35.61%
Whole genome
Non-coding
913 bp
Including the D-loop
Where Pacific geoduck clam sits among 2,335 species
Whole-genome GC content against maximum lifespan. Pacific geoduck clam has the 8th longest lifespan of them.
- This species
- All other species
Base composition
Whole genome15,381 bp
- GC skew (G − C) / (G + C)
- +0.363
- AT skew (A − T) / (A + T)
- −0.205
About this record
- Lifespan source
- SeaLifeBase v26.06
- Based on
- an animal in the wild
- Data quality
- acceptable
- Licence
- CC BY-NC 4.0
- Status
- New in build 2
- In the database since
- build 2 (2026-11-13)
The lifespan value is for non-commercial use only; the genome data is not restricted by it.
- May be the same species as Panopea generosa.
Every change against the 2015 build is in the changelog download.
Composition by region
Reference (L) strand as deposited in RefSeqWhole genome15,381 bp
Protein-coding11,138 bp
12S rRNA860 bp
16S rRNA1,057 bp
All tRNA1,414 bp
Genes and regions
Select a column to sort; select a gene to compare it across species| Composition | |||||||||
|---|---|---|---|---|---|---|---|---|---|
| ND1NADH dehydrogenase subunit 1 | 924 bp | 36.91% | +0.402 | −0.348 | |||||
| ND2NADH dehydrogenase subunit 2 | 1,047 bp | 36.39% | +0.417 | −0.324 | |||||
| COX1Cytochrome c oxidase subunit I | 1,563 bp | 38.07% | +0.264 | −0.238 | |||||
| COX2Cytochrome c oxidase subunit II | 738 bp | 37.26% | +0.447 | −0.171 | |||||
| ATP8ATP synthase F0 subunit 8 | 114 bp | 35.97% | +0.512 | −0.288 | |||||
| ATP6ATP synthase F0 subunit 6 | 708 bp | 33.19% | +0.455 | −0.328 | |||||
| COX3Cytochrome c oxidase subunit III | 789 bp | 39.16% | +0.333 | −0.329 | |||||
| ND3NADH dehydrogenase subunit 3 | 366 bp | 40.71% | +0.503 | −0.281 | |||||
| ND4LNADH dehydrogenase subunit 4L | 291 bp | 35.40% | +0.573 | −0.298 | |||||
| ND4NADH dehydrogenase subunit 4 | 1,188 bp | 37.63% | +0.414 | −0.266 | |||||
| ND5NADH dehydrogenase subunit 5 | 1,725 bp | 35.01% | +0.368 | −0.231 | |||||
| ND6NADH dehydrogenase subunit 6 | 528 bp | 33.52% | +0.424 | −0.328 | |||||
| CYTBCytochrome b | 1,158 bp | 36.96% | +0.206 | −0.268 | |||||
| 12S rRNA12S ribosomal RNA | 860 bp | 33.26% | +0.231 | −0.007 | |||||
| 16S rRNA16S ribosomal RNA | 1,057 bp | 30.65% | +0.315 | +0.004 |
Codon usage
Counts per codon, darker is more frequent3,713 codons in all protein-coding genes. Grouped with the Invertebrate mitochondrial code (NCBI table 5).
Phe F9.5%
UUU272
UUC79
Leu L14.5%
UUA250
UUG139
CUU61
CUC10
CUA42
CUG35
Ile I5.5%
AUU177
AUC26
Met M6.2%
AUA129
AUG103
Val V10.7%
GUU166
GUC24
GUA124
GUG82
Ser S12.3%
UCU107
UCC18
UCA38
UCG18
AGU73
AGC14
AGA77
AGG110
Pro P2.9%
CCU75
CCC5
CCA17
CCG9
Thr T2.7%
ACU48
ACC15
ACA24
ACG13
Ala A4.4%
GCU83
GCC15
GCA43
GCG22
Tyr Y3.6%
UAU109
UAC24
His H1.8%
CAU52
CAC13
Gln Q1.2%
CAA15
CAG28
Asn N2.6%
AAU84
AAC14
Lys K2.3%
AAA38
AAG47
Asp D1.8%
GAU56
GAC12
Glu E2.4%
GAA35
GAG53
Cys C2.0%
UGU58
UGC16
Trp W2.7%
UGA50
UGG51
Arg R1.8%
CGU22
CGC3
CGA17
CGG24
Gly G9.0%
GGU96
GGC21
GGA63
GGG156
Stop 0.4%
UAA7
UAG6
Genome map
37 annotated features in NC_033538.1Hover, 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 (35.6%, 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 |
|---|---|---|---|---|---|---|
| COX1 | Protein-coding gene | 1 | 1,563 | 1,563 bp | + | 38.1% |
| COX2 | Protein-coding gene | 1,865 | 2,602 | 738 bp | + | 37.3% |
| tRNA-Val | Transfer RNA | 2,613 | 2,677 | 65 bp | + | – |
| tRNA-Thr | Transfer RNA | 2,680 | 2,745 | 66 bp | + | – |
| tRNA-Tyr | Transfer RNA | 2,815 | 2,876 | 62 bp | + | – |
| ND4L | Protein-coding gene | 2,887 | 3,177 | 291 bp | + | 35.4% |
| ATP8 | Protein-coding gene | 3,230 | 3,343 | 114 bp | + | 36.0% |
| ND4 | Protein-coding gene | 3,507 | 4,694 | 1,188 bp | + | 37.6% |
| tRNA-His | Transfer RNA | 4,695 | 4,758 | 64 bp | + | – |
| tRNA-Glu | Transfer RNA | 4,759 | 4,822 | 64 bp | + | – |
| tRNA-Ser | Transfer RNA | 4,818 | 4,880 | 63 bp | + | – |
| ND3 | Protein-coding gene | 4,884 | 5,249 | 366 bp | + | 40.7% |
| tRNA-Ile | Transfer RNA | 5,249 | 5,315 | 67 bp | + | – |
| tRNA-Asp | Transfer RNA | 5,325 | 5,385 | 61 bp | + | – |
| tRNA-Lys | Transfer RNA | 5,393 | 5,452 | 60 bp | + | – |
| tRNA-Leu | Transfer RNA | 5,455 | 5,519 | 65 bp | + | – |
| ND1 | Protein-coding gene | 5,520 | 6,443 | 924 bp | + | 36.9% |
| tRNA-Leu | Transfer RNA | 6,445 | 6,509 | 65 bp | + | – |
| tRNA-Asn | Transfer RNA | 6,542 | 6,609 | 68 bp | + | – |
| ND5 | Protein-coding gene | 6,611 | 8,335 | 1,725 bp | + | 35.0% |
| ND6 | Protein-coding gene | 8,335 | 8,862 | 528 bp | + | 33.5% |
| tRNA-Arg | Transfer RNA | 8,865 | 8,925 | 61 bp | + | – |
| CYTB | Protein-coding gene | 8,928 | 10,085 | 1,158 bp | + | 37.0% |
| tRNA-Trp | Transfer RNA | 10,095 | 10,161 | 67 bp | + | – |
| 16S rRNA | Ribosomal RNA | 10,250 | 11,306 | 1,057 bp | + | 30.7% |
| ATP6 | Protein-coding gene | 11,307 | 12,014 | 708 bp | + | 33.2% |
| tRNA-Met | Transfer RNA | 12,022 | 12,085 | 64 bp | + | – |
| 12S rRNA | Ribosomal RNA | 12,087 | 12,946 | 860 bp | + | 33.3% |
| COX3 | Protein-coding gene | 12,947 | 13,735 | 789 bp | + | 39.2% |
| tRNA-Ser | Transfer RNA | 13,741 | 13,805 | 65 bp | + | – |
| ND2 | Protein-coding gene | 13,807 | 14,853 | 1,047 bp | + | 36.4% |
| tRNA-Gln | Transfer RNA | 14,867 | 14,932 | 66 bp | + | – |
| tRNA-Phe | Transfer RNA | 14,941 | 15,003 | 63 bp | + | – |
| tRNA-Cys | Transfer RNA | 15,018 | 15,082 | 65 bp | + | – |
| tRNA-Pro | Transfer RNA | 15,105 | 15,171 | 67 bp | + | – |
| tRNA-Gly | Transfer RNA | 15,182 | 15,247 | 66 bp | + | – |
| tRNA-Ala | Transfer RNA | 15,263 | 15,327 | 65 bp | + | – |