Description

The Matched Annotation from NCBI and EMBL-EBI (MANE) project aims to produce a matched set of high-confidence transcripts that are identically annotated between RefSeq (NCBI) and Ensembl/GENCODE (led by EMBL-EBI). Transcripts for MANE are chosen by a combination of automated and manual methods based on conservation, expression levels, clinical significance, and other factors. Transcripts are matched between the NCBI RefSeq and Ensembl/GENCODE annotations based on the GRCh38 genome assembly, with precise 5’ and 3’ ends defined by high-throughput sequencing or other available data.

Note that MANE v0.6 (July 2019) is a beta release and only covers 57% of protein coding genes. RefSeq and Ensembl will continue to develop this single transcript gene set and provide comprehensive sets of alternate transcripts in the RefSeq-All and the GENCODE tracks.

Data Access

The raw data can be explored interactively with the Table Browser, or the Data Integrator. For computational analysis, genome annotations are stored in a bigGenePred file that can be downloaded from the download server. Regional or genome-wide annotations can be converted from binary data to human readable text using our command line utility bigBedToBed which can be compiled from source code or downloaded as a precompiled binary for your system. Files and instructions can be found in the utilities directory. The utility can be used to obtain features within a given range, for example:

Please refer to our Data Access FAQ for more information or our mailing list for archived user questions.

Credits

Thank you to the RefSeq project at NCBI and the Ensembl/GENCODE project at EMBL-EBI. You can contact the authors directly at MANE-help@ncbi.nlm.nih.gov or mane-help@ebi.ac.uk.

References