HMMGene | Tool name | HMMGene |
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| URL | http://www.cbs.dtu.dk/services/HMMgene/ |
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| Important features | HMMgene is a program for prediction of genes in anonymous DNA. It can also be used to predict splice sites and start/stop codons. If some features of a sequence are known, such as hits to ESTs, proteins, or repeat elements, these regions can be locked as coding or non-coding, and then the program will find the best gene structure under these constraints. |
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| Citations | Krogh A. Using database matches with for HMMGene for automated gene detection in Drosophila. Genome Res. 2000 Apr;10(4):523-8. PubMed PMID: 10779492; PubMed
Central PMCID: PMC310864.
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| Year of publication | 2000 |
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| Rank by usage frequency | 100 |
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| Comments | 1) Score (0 or 1), strand and Frame information is also given. 2) Predicted donor and acceptor site with position of base before and after splice site is given. |
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| Function | Exon detail, Exon detail: number, Exon detail: start/end, Exon detail direct information, Splice site details, CDS details, Species, Finds alternative splicing in human, Finds alternative splicing in other species |
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| Input file format | Sequence in FASTA format |
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| Output file format | Tabular form |
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| Limitation | |
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