d253d039a1a4157faaaae030b254bf4fcbb1fd07 jnavarr5 Thu Apr 24 14:51:40 2025 -0700 Adding a link at the top of the page to the new FAQ, refs #24243 diff --git src/hg/htdocs/FAQ/FAQgenes.html src/hg/htdocs/FAQ/FAQgenes.html index c9ba8302d5b..e43effd5f95 100755 --- src/hg/htdocs/FAQ/FAQgenes.html +++ src/hg/htdocs/FAQ/FAQgenes.html @@ -18,30 +18,31 @@
  • Why does the UCSC RefSeq track ("refGene") include duplicates, and some transcripts map to two loci?
  • Why does the Gencode/Ensembl tracks ("knownGene", "ensGene" or "wgEncodeGencodeVXX") include a few duplicates, and some transcripts map to two loci?
  • What are Ensembl and GENCODE and is there a difference?
  • What are the differences among GENCODE, Ensembl and RefSeq?
  • For the human assembly hg19/GRCh37: What is the difference between "UCSC Genes" track, the "GENCODE" track and the "Ensembl Genes" track?
  • For the human assembly hg38/GRCh38: What are the differences between the "GENCODE" and "All GENCODE" tracks?
  • What is the difference between GENCODE comprehensive and basic?
  • What is the difference between "NCBI RefSeq" and "UCSC RefSeq"?
  • What is the best gene track for mitochondrial gene annotations?
  • How shall I report a gene transcript in a manuscript?
  • What is CCDS?
  • How can I show a single transcript per gene?
  • How can I download a file with a single transcript per gene?
  • +
  • How can I filter by bioType from GENCODE/RefSeq/Ensembl?
  • This is rather complicated. Can you tell me which gene transcript track I should use?
  • Does UCSC provide GTF/GFF files for gene models?
  • What is the best way to get only coding genes (or only non-coding genes) out of GENCODE (or other gene) tables?

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    The basics

    The genome browser contains many gene annotation tracks. Our users often wonder what these contain and where the information that we present comes