Hello, I'm new here, I read the posting guide carefully, I'll try my best following it in my first post!
I am trying to obtain a list with the names, the chromosome and the transcription start point and end point of all the immunoglobulin genes from mouse genome (mm10 assembly) using the Table Browser tool at the UCSC Gemome Browser, and I need some guidance.
So far, I'm searching according to the gene name: I am using the following settings (the ones not mentioned, are as assigned by default):
# **Select dataset**
--CladeL Mammal
--Genome: Mouse
--Assembly: Dec. 2011 (GRCm38/mm10)
--Group: Genes and Gene predictions
--Track: NCBI RefSeq
--Table: RefSeq All (ncbiRefSeq)
# **Define region of interest**
--Region: Genome
# **Optional: Subset, combine, compare with another track**
--Filter/name2: *IG* as value
# **Retrieve and display data**
--Output format: Selected fields from primary and related tables
--Output field separator: csv
# **Get output button**
--Select Fields from mm10.ncbiRefSeq: name/chrom/txStart/txEnd/name2
Then I press "get input". But other genes are in my output, that are not encoding for immunoglobulins, and only contain "IG" as part of their name, thus immunoglobulin genes are not the only ones obtained.
Is there a way of obtaining only the immunoglobulin genes, by name or even better by gene family, using another type of settings/filters etc, or another tool in ucsc?
Thank you in advance for your time.
Cross-posted at: https://stackoverflow.com/questions/78715497/how-to-obtain-the-names-transcription-start-and-end-of-immunoglobulin-genes-fro
While cross-posting is OK please include a reference of the cross-posting.