Microbat assembly and gene annotation

Assembly

Myoluc2.0 (GCA_000147115.1) is the latest assembly of the microbat or little brown bat (Myotis lucifugus), sequenced to 7X coverage. The genome sequencing and assembly are provided by the Broad Institute as part of the Mammalian Genome Project.

The N50 size is the length such that 50% of the assembled genome lies in blocks of the N50 size or longer. The N50 size of scaffolds is 4.3Mb. The total of all scaffolds is 1.96Gb.

The genome assembly represented here corresponds to GenBank Assembly ID GCA_000147115.1

Gene annotation

The gene set for microbat was built using the Ensembl pipeline. Gene models are based on genewise alignments of microbat proteins, mammal proteins as well as genetically distance proteins from other species, including most vertebrate proteins from Uniprot. Additionally, dog and cow proteins were aligned using exonerate. The protein based gene models were then extended using microbat and cow cDNA. In addition to the coding transcript models, non-coding RNAs and pseudogenes were annotated

Mammalian Genome Project

Myotis lucifugus is one of 24 mammals that will be sequenced as part of the Mammalian Genome Project, funded by the National Institutes of Health (NIH). A group of species were chosen to maximise the branch length of the evolutionary tree while representing the diversity of mammalian species. The aim is to increase our understanding of functional elements, especially in the human genome.

More information

General information about this species can be found in Wikipedia.

Statistics

Summary

AssemblyMyoluc2.0, INSDC Assembly GCA_000147115.1, Sep 2010
Database version78.2
Base Pairs1,966,419,868
Golden Path Length

The golden path is the length of the reference assembly. It consists of the sum of all top-level sequences in the seq_region table, omitting any redundant regions such as haplotypes and PARs (pseudoautosomal regions).

2,034,575,300
Genebuild byEnsembl
Genebuild methodFull genebuild
Genebuild startedDec 2010
Genebuild releasedJun 2011
Genebuild last updated/patchedJun 2011

Gene counts

Coding genes

Genes and/or transcript that contains an open reading frame (ORF).

19,728
Small non coding genes

Small non coding genes are usually fewer than 200 bases long. They may be transcribed but are not translated. In Ensembl, genes with the following biotypes are classed as small non coding genes: miRNA, miscRNA, rRNA, scRNA, snlRNA, snoRNA, snRNA, and also the pseudogenic form of these biotypes. The majority of the small non coding genes in Ensembl are annotated automatically by our ncRNA pipeline. Please note that tRNAs are annotated separately using tRNAscan. tRNAs are included as 'simple fetaures', not genes, because they are not annotated using aligned sequence evidence.

4,408
Pseudogenes

A pseudogene shares an evolutionary history with a functional protein-coding gene but it has been mutated through evolution to contain frameshift and/or stop codon(s) that disrupt the open reading frame.

1,713
Gene transcriptsNucleotide sequence resulting from the transcription of the genomic DNA to mRNA. One gene can have different transcripts or splice variants resulting from the alternative splicing of different exons in genes.26,840

Other

Genscan gene predictions68,558