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All closed Assembly Issues


  8 issues

Issue Version Chr Position Description Resolution Status
ASMBLY-221 RefGen_B73 v3 Chr1 unknown GRMZM2G121570 is a myb transcription factor that is missing 830 bp from 5' end of gene. Fixed in v4 (Zm00001d033265). Resolved
ASMBLY-14 RefGen_B73 v3 Chr10 unknown Sequence NP_001105869 is not in B73_V3 per Barkan review (Table 1 summary). Belcher et al 2015 BBA . doi:10.1016/j.bbabio.2015.02.014 Looking at the NCBI annotation, it is placed at NC_024463.1 (4773716..4774253) on Chromosome 5. This region on the MaizeGDB B73_V3 browser shows an NCBI gene, but there are no gene models in the 5b+ gene model set. Fixed in v4 (Zm00001d026654). Resolved
ASMBLY-1069 RefGen_B73 v2 Chr10 unknown 5' end of gene zcn3 is lost in a gap near B73_V2 gene model GRMZM2G338454; based on Genbank sequence accession EU241919 (Classical genes list, Schnable J & Freeeling M 2011 PLoS One 108:4069-74 ). Strand -1 Fixed in v4 (Zm00001d023420). Resolved
ASMBLY-1092 RefGen_B73 v2 Chr2 unknown There may be an assembly error near gene cesa, which has a partial identical duplicate:GRMZM2G150404 with B73_V2 gene model GRMZM2G018241; based on Genbank sequence accession AF200533 (Classical genes list, Schnable J & Freeeling M 2011 PLoS One 108:4069-74 ). Assembly error is fixed in v4. Resolved
ASMBLY-1068 RefGen_B73 v2 Chr3 unknown 5' end of CDS for gene spi1 is lost in gap near B73_V2 gene model GRMZM2G025222; based on Genbank sequence accession EU910940 (Classical genes list, Schnable J & Freeeling M 2011 PLoS One 108:4069-74 ). Strand -1 Fixed in v4 (Zm00001d044069). Resolved
ASMBLY-220 RefGen_B73 v3 Chr5 unknown Fixed in v4 (Zm00001d016836). Resolved
ASMBLY-222 RefGen_B73 v3 Chr6 unknown GRMZM2G061821 and GRMZM2G048092 are most likely the N and C-terminal sections of Moco Sulfurase. These genes come from the same BAC but are on different contigs within the BAC. The conserved domains defined by these gene models are a single gene in all plants except maize. Fixed in v4 (Zm00001d036635). Resolved
ASMBLY-219 RefGen_B73 v3 Chr7 unknown 5'-end is missing. AC205396.3-Contig82 is not inserted in the correct location in the genome. Closed