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.
The current release (MANE v1.0) includes coverage of 99% of human protein-coding genes and 99.8% of
genes of clinical relevance, including genes in the
College of Medical Genetics and Genomics (ACMG) Secondary Findings list (SF) v3.0. This release
includes both MANE Select (19062) and MANE Plus Clinical (58) transcripts. MANE
Plus Clinical items are colored red.
For more information on the different gene tracks, including MANE vs GENCODE or RefSeq,
see our Genes FAQ.
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
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
The utility can be used to obtain features within a given range, for example:
bigBedToBed -chrom=chr6 -start=0 -end=1000000 http://hgdownload.soe.ucsc.edu/gbdb/hg38/mane/mane.1.0.bb stdout
Download links for MANE Select v1.0:
Please refer to our Data Access FAQ
for more information or our mailing list for archived user questions.
Thank you to the RefSeq project at NCBI and the Ensembl/GENCODE project at EMBL-EBI.
You can contact the authors directly at
Morales J, Pujar S, Loveland JE, Astashyn A, Bennett R, Berry A, Cox E, Davidson C, Ermolaeva O,
Farrell CM et al.
A joint NCBI and EMBL-EBI transcript set for clinical genomics and research.
Nature. 2022 Apr;604(7905):310-315.
PMID: 35388217; PMC: PMC9007741