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Greater horseshoe bat assembly and gene annotation

Assembly

The mRhiFer1_v1.p assembly was submitted by Vertebrate Genomes Project on May 2019. The assembly is on chromosome level, consisting of 290 contigs assembled into 135 scaffolds. From these sequences, 28 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 31,900,497 while the scaffold N50 is 88,025,743.

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

AssemblymRhiFer1_v1.p, INSDC Assembly GCA_004115265.2, May 2019
Base Pairs2,075,768,562
Golden Path Length2,075,768,562
Annotation providerEnsembl
Annotation methodFull genebuild
Genebuild startedAug 2019
Genebuild releasedDec 2019
Genebuild last updated/patchedAug 2019
Database version100.1

Gene counts

Coding genes19,533
Non coding genes2,011
Small non coding genes1,733
Long non coding genes263
Misc non coding genes15
Pseudogenes628
Gene transcripts36,525

Other

Genscan gene predictions48,051

About this species

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