文档介绍：序列间比对
Pairwise alignment
The process of lining up two or more sequences to achieve maximal levels of identity (and conservation, in the case of amino acid sequences) for the purpose of assessing the degree of similarity and the possibility of homology.
Definitions
Homology
Similarity attributed to descent from mon ancestor.
Definitions
Identity
The extent to which two (nucleotide or amino acid) sequences are invariant.
RBP: 26 RVKENFDKARFSGTWYAMAKKDPEGLFLQDNIVA 59
+ K++ + ++ GTW++MA + L + A
glycodelin: 23 QTKQDLELPKLAGTWHSMAMA-TNNISLMATLKA 55
Definitions
Similarity
The extent to which two (nucleotide or amino acid) sequences are similar.
How to calculate similarity?
1. To install Vector NTI Suite
2. To use Align X program.
Orthologs
Homologous sequences in different species that arose from mon ancestral gene during speciation; may or may not be responsible for a similar function.
Paralogs
Homologous sequences within a single species that arose by gene duplication.
Definitions: two types of homology
Orthologs:
members of a
gene (protein)
family in anisms.
This tree shows
RBP orthologs.
common carp
zebrafish
rainbow trout
teleost
African
clawed
frog
chicken
mouse
rat
rabbit
cow
pig
horse
human
10 changes
Paralogs:
members of a
gene (protein)
family within a
species
apolipoprotein D
retinol-binding
protein 4
ponent 8
prostaglandin
D2 synthase
neutrophil
gelatinase-
associated
lipocalin
10 changes
Lipocalin 1
Odorant-binding
protein 2A
progestagen-
associated
endometrial
protein
Alpha-1
Microglobulin
/bikunin
Pairwise sequence alignment programs