Budgerigar (bMelUnd1.mat.Z)

Budgerigar assembly and gene annotation

Assembly

The bMelUnd1.mat.Z assembly was submitted by G10K on April 2020. The assembly is on chromosome level, consisting of 1,148 contigs assembled into 864 scaffolds. From these sequences, 32 chromosomes have been built. The N50 size is the length such that 50% of the assembled genome lies in blocks of the N50 size or longer. The N50 length for the contigs is 16,636,420 while the scaffold N50 is 104,092,594.

Other assemblies

Gene annotation

The gene annotation process was carried out using a combination of protein-to-genome alignments, annotation mapping from a suitable reference species and RNA-seq alignments (where RNA-seq data with appropriate meta data were publicly available). For each candidate gene region, a selection process was applied to choose the most appropriate set of transcripts based on evolutionary distance, experimental evidence for the source data and quality of the alignments.
Small ncRNAs were obtained using a combination of BLAST and Infernal/RNAfold.
Pseudogenes were calculated by looking at genes with a large percentage of non-biological introns (introns of <10bp), where the gene was covered in repeats, or where the gene was single exon and evidence of a functional multi-exon paralog was found elsewhere in the genome.
lincRNAs were generated via RNA-seq data where no evidence of protein homology or protein domains could be found in the transcript.

In accordance with the Fort Lauderdale Agreement, please check the publication status of the genome/assembly before publishing any genome-wide analyses using these data.

More information

General information about this species can be found in Wikipedia.

Statistics

Summary

AssemblybMelUnd1.mat.Z, INSDC Assembly GCA_012275295.1, Apr 2020
Base Pairs1,171,617,451
Golden Path Length1,171,617,451
Annotation providerEnsembl
Annotation methodFull genebuild
Genebuild startedMay 2020
Genebuild releasedJun 2020
Genebuild last updated/patchedMay 2020
Database version111.1

Gene counts

Coding genes16,416
Non coding genes951
Small non coding genes636
Long non coding genes310
Misc non coding genes5
Pseudogenes123
Gene transcripts26,432

Other

Genscan gene predictions42,399