Genome Annotation Flashcards
FLYBASE
transcription unit
mature mRNA
coding sequence
Transcriptome
- transcripts expressed
- only eukaryotes
- splicing needed
Splicing
- remove intronic mRNA
Types of Splicing
1) Alternative poly A site
2) Alternative promoter
3) Exon included
4) Alternative 5’ splice site
5) Alternative 3’ splice site
6) Retained intron
7) Mutually exclusive inclusion
Single Cell RNA Sequencing (scRNA)
define cell type by genes expressed in cell
- barcoded primer bead
- paired-end reads
- group results by cell (same barcode)
Proteome
- proteins expressed
- unique vs shared
- function
Orthologs vs Paralogs
Orthologs
- homologous genes in diff species (common ancestor)
- share same function
Paralogs
- homologous genes in same species (duplication of gene)
Interactome
- protein interactions
Yeast Two Hybrid Screen
β-galactosidase ACTIVE
- DNA binding domain ATTACH to activation domain
- prey + bait interaction = blue
β-galactosidase INACTIVE
- DNA binding domain SEPARATE to activation domain
- prey + bait NO interaction = white
Affinity Purification + Mass Spec
AP tag to detect proteins
Bacteria Complexity
more genes = larger genome size
1 gene/1000bp
Eukaryote Complexity
genome size NOT associated with complexity
Non-Coding DNA
more non-coding DNA = larger genome size
