Table 4 Summary of annotated non-coding RNA genes, pseudogenes, and cis-regulatory elements in the Trichiurus japonicus nuclear genome.

From: Chromosome-Level Genome Assembly and Annotation of the Japanese Cutlassfish (Trichiurus japonicus): A High-Quality Genomic Resource Featuring Nuclear and Mitochondrial Completeness for Future Studies

ncRNA type

counts

Average length(bp)

Total length (bp)

% of nuclear genome

tRNA

12,075

75.62

913,151

0.0806%

pseudogene

6,699

74.81

507,863

0.0449%

rRNA

1,728

403.79

697,763

0.0616%

snRNA

1,554

149.31

232,036

0.0205%

miRNA

849

72.57

61,615

0.0054%

Cis-reg elements

244

62.18

15,416

0.0014%

Metazoa SRP

40

297.67

11,907

0.0011%

mascRNA-menRNA

113

56.82

6,421

0.0006%

Vault

6

98.16

589

0.0001%

ribozyme

5

295.60

1,478

0.0001%

sRNA

6

217.16

1,303

0.0001%

lncRNA(preliminary)*

3

224.66

674

0.0001%

Y RNA

2

104

208

0.0000%

7SK

1

318

318

0.0000%

Telomerase-vert

1

351

351

0.0000%

  1. *“lncRNA (preliminary)” refers to a small number of known lncRNA families identified via Infernal and Rfam. Comprehensive lncRNA annotation requires transcriptome data and dedicated pipelines.
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