Info • Rhizophagus irregularis B3 v1.0

Status

The genome sequence of Rhizophagus irregularis B3 was not determined by the JGI.

The genome sequence was assembled with SPAdes (Nurk, Bankevich et al., 2013) and scaffolding was performed with SSPACE by Corradi Lab.

The genome was provided by INRA on January 20 2015. The annotation was done by Emmanuelle Morin of INRA using the JGI Annotation Pipeline.

This copy of the genome does not include the mitochondrial chromosome or genes.

Summary statistics for the Rhizophagus irregularis v1.0 release are below.
Genome Assembly
Genome Assembly size (Mbp) 124.89
Sequencing read coverage depth 0x
# of contigs 16875
# of scaffolds 10461
# of scaffolds >= 2Kbp 5229
Scaffold N50 732
Scaffold L50 (Mbp) 0.05
# of gaps 6414
% of scaffold length in gaps 4.2%
Three largest Scaffolds (Mbp) 0.30, 0.26, 0.25


ESTs Data set # sequences total # mapped to genome % mapped to genome
Ests 454_ESTs 365294 327322 89.6%
Ests Sanger_ESTs 40364 32582 80.7%
Other 454_and_Sanger_EST_contigs 25906 21947 84.7%
Other CIFAR_B3_RNAseq_contigs 22928 21888 95.5%
Other Solexa_RNA_contigs 26503 21679 81.8%


Gene Models FilteredModels1
length (bp) of: average median
gene 1392 1064
transcript 1044 785
exon 276 160
intron 127 81
description:
protein length (aa) 316 225
exons per gene 3.79 3
# of gene models 25164


Genome Reference(s)

Funding

This project was not sequenced at the JGI.