I am using the tables of https://genome.ucsc.edu/cgi-bin/hgTables , with the next characteristics:
}group ~Genes and Gene Predictions
}region ~defined regions<h5>In this part, I uploaded a bed format file, in the first column of the bed format file is the chromosome, in the second column the beginning of the sequence, in the third column is the ending of the sequence and in the last column is the number of times that the sequence is in my file, for that reason, the fourth column is very important to me.</h5>
}Output format ~selected fields from primary and related tables ~~~>get output.
~name ~chrom ~geneSymbol ~refseq ~description ~kgXref ~refSeqSummary ~~~>get output.
At the ending of the process the genome.ucsc.edu give me the chromosomes and the genes that correspond to the coordinates of the bed format file, but it doesn´t appear the fourth column next to the resulting genes. Some coordinates are not characterized in the genome browser, for that reason some coordinates are erased in the genome browser and I do not know what genes correspond to the specific number of the fourth column.
I would like to know if there is a way of getting the resulting genes with the numbers of the fourth column of my bed format file.
I would appreciate if someone can help me. ####