GO:1901135 carbohydrate derivative metabolic process 5.0 if i have understood correctly u said the number in the bracket in pie chart tells how many GO annotations are there for a certain activity. Number 5 tells there are five GO do this activity. BUt i ahve only one. Where are the other four. .......?.....could u reply ....
sazedul islam Not sure I understand the question. if you click on the export as text and import into excel then can look at the raw data i.e. GO term and number of sequences with that go term. I may not have explained something very well which will have to update.
bioinf resources Hi, yes I figured that out. ok I have problem even understanding the meaning of the word GO. Does GO correspond to one single gene? Can a GO be assigned to many genes? Like if my GO:1901135 is this, and I want to know the gene sequence for that GO in a specific plant, say Banana Musaca. How can I do that? I need to know all these. Pls reply. "GO term and number of sequences with that go term" this Number refers to out of the total seq I loaded, right? Like if I have 15 protein seq and 6 of them fucnction in heat response. There is a GO for heat response....so system gives me a GO ID+function+6 . Is that it? How can one protein have many GO? Say I have a protein X, and I load it in balst2go. Blas finds 32 GO for that X. What does that tellme? THere are 32 gene product among plant [if i go plant slim] that also have this proten x? Pls reply....I need to know this
if u dont have time to answer all my questions at least pls answer tis if my GO:1901135 is this, and I want to know the gene sequence for that GO in a specific plant, say Banana Musaca. How can I do that? I need to know all these. Pls reply.
sazedul islam not sure how you would do it if a public database of your organism is not annotated and searchable. but if you have the protein sequences, then I would take all the proteins from the species and load into blast2go and perform blast and interproscan on the proteome then just use the select feature "select sequences" in blast2go to select proteins that have that go term.
GO:1901135 carbohydrate derivative metabolic process 5.0
if i have understood correctly u said the number in the bracket in pie chart tells how many GO annotations are there for a certain activity. Number 5 tells there are five GO do this activity. BUt i ahve only one. Where are the other four. .......?.....could u reply ....
sazedul islam Not sure I understand the question. if you click on the export as text and import into excel then can look at the raw data i.e. GO term and number of sequences with that go term. I may not have explained something very well which will have to update.
bioinf resources Hi, yes I figured that out. ok I have problem even understanding the meaning of the word GO. Does GO correspond to one single gene? Can a GO be assigned to many genes? Like if my GO:1901135 is this, and I want to know the gene sequence for that GO in a specific plant, say Banana Musaca. How can I do that? I need to know all these. Pls reply.
"GO term and number of sequences with that go term" this Number refers to out of the total seq I loaded, right? Like if I have 15 protein seq and 6 of them fucnction in heat response. There is a GO for heat response....so system gives me a GO ID+function+6 . Is that it?
How can one protein have many GO? Say I have a protein X, and I load it in balst2go. Blas finds 32 GO for that X. What does that tellme? THere are 32 gene product among plant [if i go plant slim] that also have this proten x? Pls reply....I need to know this
if u dont have time to answer all my questions at least pls answer tis
if my GO:1901135 is this, and I want to know the gene sequence for that GO in a specific plant, say Banana Musaca. How can I do that? I need to know all these. Pls reply.
sazedul islam not sure how you would do it if a public database of your organism is not annotated and searchable. but if you have the protein sequences, then I would take all the proteins from the species and load into blast2go and perform blast and interproscan on the proteome then just use the select feature "select sequences" in blast2go to select proteins that have that go term.
bioinf resources biostars is a good website for bioinformatics troubleshooting www.biostars.org