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Genome Overview
| Analysis Name | Cajanus cajan Asha genome v1.0 |
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| Method | Illumina HiSeq, SOAPdenovo (v1.05) |
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| Source | NCBI |
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| Date performed | 2019-09-17 |
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This assembly and genome were downloaded from NCBI, BioProject PRJNA72815 (GCA_000340665.1). This genome was submitted to NCBI by BGI and published in Varshney et al. 2012.
About the assembly (from Varshney et al):
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All scaffolds |
Scaffolds longer than 2 kb |
| Number of scaffolds |
137,542 |
6,534 |
| Total span |
605.78 Mb |
578 Mb |
| N50 (scaffolds) |
516.06 kb |
585 kb |
| Longest scaffold (pseudomolecule) |
48.97 Mb |
48.97 Mb |
| Number of contigs |
173,708 |
35,854 |
| Longest contig |
185.39 kb |
185.39 kb |
| N50 (contigs) |
21.95 kb |
23.1 kb |
| GC content |
32.8% |
32.7% |
| Number of gene models |
48,680 |
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| Number of gene models (non-TE containing) |
40,071 |
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| Mean transcript length |
2,348.70 bp |
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| Mean coding sequence length |
959.35 bp |
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| Mean number of exons per gene |
3.59 |
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| Mean exon length |
267.39 bp |
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| Mean intron length |
536.89 bp |
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| Number of genes annotated |
46,750 (96.04%) |
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| Number of genes unannotated |
1,930 (3.96%) |
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| Number of miRNA genes |
862 |
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| Mean length of miRNA genes |
106.92 bp |
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| miRNA genes share in genome |
0.0152% |
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| Number of rRNA fragments |
329 |
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| Mean length of rRNA fragments |
129.59 bp |
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| rRNA fragments share in genome |
0.0070% |
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| Number of tRNA genes |
763 |
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| Mean length of tRNA genes |
75.18 bp |
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| tRNA genes share in genome |
0.0095% |
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| Number of snRNA genes |
363 |
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| Mean length of snRNA genes |
114.02 bp |
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| snRNA genes share in genome |
0.0068% |
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| Total size of transposable elements (TEs) |
313,027,948 bp |
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| TEs share in genome |
51.67% |
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Download
C. cajan Asha, Genome Assembly v1.0 Files:
Please see the PCD Data Repository, or click on links below.
Homology Analysis Results:
These homology analyses were conducted using the proteins sequences from the genome and blastp (blast+, v2.9.0). The proteins were queried against the UniProt SwissProt (-outfmt 7 -evalue 1e-6 -max_target_seqs 10) and TrEMBL (-evalue 1e-6 -max_target_seqs 1 -outfmt 7) databases.
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