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Commit d72f6a79 authored by Gesa Helmsorig's avatar Gesa Helmsorig
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Update 2 files

- /assays/biparental_mapping/protocols/target_gene_identification.md
- /assays/biparental_mapping/dataset/target_genes_results.md
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**related to the circadian clock:** ## Results: target gene identification for *eam7*
**Candidates related to the circadian clock:**
| MorexV3 gene ID | pident | evalue | Araport11 gene ID | Gene name | SNP positions | Changes in aa sequence | | MorexV3 gene ID | pident | evalue | Araport11 gene ID | Gene name | SNP positions | Changes in aa sequence |
| ------ | ------ | ------ | ------ | ------ | ------ | ------ | | ------ | ------ | ------ | ------ | ------ | ------ | ------ |
...@@ -15,11 +17,16 @@ ...@@ -15,11 +17,16 @@
**associated with early flowering:** **Candidates associated with early flowering:**
| gene name | MoresV3 gene ID | | gene name | MoresV3 gene ID |
| - | - | | - | - |
| PSEUDO RESPONSE REGULATOR 1 (PRR1) | HORVU.MOREX.r3.6HG0595250 | | PSEUDO RESPONSE REGULATOR 1 (PRR1) | HORVU.MOREX.r3.6HG0595250 |
| CRYPTOCHROME 1a (CRY1a) | HORVU.MOREX.r3.6HG0587680) | | CRYPTOCHROME 1a (CRY1a) | HORVU.MOREX.r3.6HG0587680) |
| GLYCIN-RICH RNA-BINDING-PROTEIN 1 (GR-RBP1) | HORVU.MOREX.r3.6HG0592840) | | GLYCIN-RICH RNA-BINDING-PROTEIN 1 (GR-RBP1) | HORVU.MOREX.r3.6HG0592840) |
| LIGHT-REGULATED WD 1 (LWD1) | HORVU.MOREX.r3.6HG0583670 | | LIGHT-REGULATED WD 1 (LWD1) | HORVU.MOREX.r3.6HG0583670 |
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**Candidates with consistent mutations across *eam7* / *EAM* genotypes:**
LIGHT-REGULATED WD 1 (LWD1) (HORVU.MOREX.r3.6HG0583670)
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## *eam7* target gene identification
- based on the CAPS marker results, the introgression area could be reduced to 2.98 cM/286 Mbp (Morex V3, Mascher et al. 2021) - based on the CAPS marker results, the introgression area could be reduced to 2.98 cM/286 Mbp (Morex V3, Mascher et al. 2021)
flanking markers: Flanking markers:
| marker | position in MorexV3 (bp) | | marker | position in MorexV3 (bp) |
| - | - | | - | - |
...@@ -13,4 +14,4 @@ flanking markers: ...@@ -13,4 +14,4 @@ flanking markers:
- Arabidopsis (Araport11, Cheng et al. 2017) homologs were indentified via BLASTP - Arabidopsis (Araport11, Cheng et al. 2017) homologs were indentified via BLASTP
- 10 of the genes genes were homologous to Arabidopsis genes with functions in the circadian clock -> target_genes - 10 of the genes genes were homologous to Arabidopsis genes with functions in the circadian clock -> target_genes
- 4 of these genes were associated with early flowering in barley or Arabidopsis -> target genes - 4 of these genes were associated with early flowering in barley or Arabidopsis -> target genes
- 1 had a consistent mutation in eam7 vs EAM7 plants - 1 had a consistent mutations in *eam7* vs *EAM7* plants
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