I have got a project on unknown dna sequence analysis. I have been given the sequence and the organism from which it is extracted. Can anyone tell me how to identify genes in unknown sequence? The exons and introns in it?
Try BLAST, BLAT and any gene discovery tool such as (IIRC) GenScan. Also, possible homework question alert.
If you have genome sequence, predict genes/proteins using available tools like augustus (best for fungus), prodigal (bacteria), genscan, GeneMark and many more. once you predict genes/proteins blast against NCBI nr/np database or uniprot data. If you have transcripts sequence, either you directly go with the blast or you predict potential ORFs (ORF-Predictor, ORF finder etc) and do the blast. This pretty much same as suggested by RamRS
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In genemark, select specie portion doesn't include my specie which is Branchiostoma floridae. How to work on it then?
genome for this species is already available, you can use their gene model for your work or else select nearest chordata species for gene prediction