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Gelada assembly and gene annotation

Assembly

The Tgel_1.0 assembly was submitted by Kenneth Chiou's shared submissions on June 2018. The assembly is on chromosome level, consisting of 35,108 contigs assembled into 15,308 scaffolds. From these sequences, 22 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 310,061 while the scaffold N50 is 130,230,028.

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

AssemblyTgel_1.0, INSDC Assembly GCA_003255815.1, Jun 2018
Base Pairs2,889,614,139
Golden Path Length2,889,614,139
Annotation providerEnsembl
Annotation methodFull genebuild
Genebuild startedOct 2018
Genebuild releasedApr 2019
Genebuild last updated/patchedDec 2018
Database version100.1

Gene counts

Coding genes22,515
Non coding genes6,073
Small non coding genes3,803
Long non coding genes252
Misc non coding genes2,018
Pseudogenes783
Gene transcripts43,940

Other

Genscan gene predictions48,214

About this species

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