Protein-translated BLAT (protein or translated RNA queries) uses the standard vertebrate genetic code. It will be slightly less sensitive on mitochondria and species using other genetic codes. More information on standard genetic codes can be found on the NCBI website. Additional details on mitochondria codon tables can be found on the Wikiwand website.
Note: Open programmatic access was removed in 2025 due to bot abuse. If you would like +to request access, please contact us. Keep in mind that BLAT can also +be run locally, which can lead to improved performance. A license is required for commercial use of the local BLAT utility. +
-For programmatic access, BLAT supports URL queries which are returned as psl format in a JSON structure. +The following entry explains the usage of our programmatic access, although programmatic usage will not work +without special access. BLAT supports URL queries which are returned as psl format in a JSON structure. The URL requires three variables: the sequence to blat, the type of query and the database, as follows
https://genome.ucsc.edu/cgi-bin/hgBlat?userSeq=[seq]&type=[type]&db=[database]&output=json
If the sequence is longer than 8kbp, the request must be sent via HTTP POST.
Query types include DNA, protein, translated RNA and translated DNA:
https://genome.ucsc.edu/cgi-bin/hgBlat?userSeq=GACCTCGGCGTGGCCTAGCG&type=DNA&db=hg38&output=json https://genome.ucsc.edu/cgi-bin/hgBlat?userSeq=IGCLPAHLLGDMWGRFWTNLYSLTVPFGQKPNIDVTDAMVDQAWDAQRIFKEAEKFFVSVGLPNM&type=protein&db=hg38&output=json https://genome.ucsc.edu/cgi-bin/hgBlat?userSeq=UUUCCCUUCCCCACUGUAGUGGGAGAGAAGGGAGUGGCCAUACCAUAUUUUUCUCGUGGGCCGUUGUAGUCAUAAGGCCUUCCUUUGCGGAAAAUUUUCAGGGUGGGAUA&type=translated%20RNA&db=hg38&output=json https://genome.ucsc.edu/cgi-bin/hgBlat?userSeq=TTTCCCTTCCCCACTGTAGTGGGAGAGAAGGGAGTGGCCATACCATATTTTTCTCGTGGGCCGTTGTAGTCATAAGGCCTTCCTTTGCGGAAAATTTTCAGGGTGGGATA&type=translated%20DNA&db=hg38&output=json