Page Comparison

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1. GENE NAMES AND SYMBOLS

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Genotypes Due to technical constraints, genotypes at ZFIN are shown in an order that is determined based on priority depending on feature type. For example, a point mutation has higher priority than a deletion, which has a higher priority than a transgenic insertion, etc. Features with the same priority are then ordered alphabetically alphabetical order by gene, and then by allele designation.   See below for display of complex genotypes involving transgenic or chromosomal rearrangements.

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Df indicates deficiency. The term xxx should describe the salient features of the deficiency, as determined by the investigator. In cases where the deficiency removes sequences from named genes, the name should contain the standard symbols for those genes. The deleted genes should be listed in order, when known, separated by commas. The line designation should follow standard nomenclature conventions (institution designation followed by line number).

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The term xxx should describe some salient feature of the translocation, as determined by the investigator. In cases where the translocation moves a named gene primarily studied by the investigator, xxx would usually be the standard symbol for that gene. Alternatively, xxx could just be an experimental series number.

The line designation should follow standard nomenclature conventions (institution designation followed by line number). After the line designation comes a comma, and then a phrase that indicates the new order of the chromosomes, starting from the top of the chromosome as displayed by convention. The first number (##) is the Chr number, followed by upper case U to indicate the upper arm of a chromosome or by upper case L to indicate the lower arm of a chromosome. The location of the centromere is indicated by a period. No spaces. Translocations are written as an allele of a gene when the gene is disrupted at one of the breakpoints of the translocation. There can be as many as four alleles of a translocation.

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     Original allele generated at Caltech: ct1; new lines derived from ct1 and generated at Caltech: ct2, ct3 OR ct1a, ct1b; new lines generated from ct1, but generated at University of Oregon: b###

Genotypes at ZFIN are shown in an alphabetical order that is determined based on priority depending on feature type. The components are ordered alphabetically if they have the same priority based on feature type.  See the following excel spreadsheet that represents the priority of each feature type:  genotype_component_significance.xlsx.

     Example with Transgenic Allele (ZDB-GENO-070309-2):

       hmgcrb^s617/s617; ne2067Tg 

     Example Showing Priority Resolution (ZDB-GENO-071219-10):

       slc24a5^b1/+; gin2^zf57/zf57; slc45a2^zf67/+

The above example has an ordering that takes into account the feature types of each component. The first component (slc24a5^b1/+) is a point mutation that has priority of 1. The next two components are both of type "sequence variant" with a priority of 6. Since they have the same priority, they are ordered alphabetically.with transgenic lines that are not alleles of genes first, then other alleles.

     Example:

      Tg(-0.7her5:EGFP)ne2067;hmgcrb ^s617/s617

5. PRIORITY IN NAMES

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For questions and advice about appropriate nomenclature, contact us at  nomenclature@zfin.org .