Predicting RNA Families in Nucleotide Sequences Using StructRNAfinder

2019 ◽  
pp. 15-27
Author(s):  
Vinicius Maracaja-Coutinho ◽  
Raúl Arias-Carrasco ◽  
Helder I. Nakaya ◽  
Victor Aliaga-Tobar
Keyword(s):  
Nucleotide Sequences

NUCLEOTIDE SEQUENCES ENCODING MEMBRANE DOMAINS ARE CONSERVED AMONG IMMUNOGLOBULIN GAMMA SUBCLASS GENES

1982 ◽  
Vol 3 (1) ◽  
pp. 37-45 ◽  
Author(s):  
SUMIKO NAKAI ◽  
VERNON OI ◽  
LEONARD A. HERZENBERG ◽  
HIDEO YAMAGISHI ◽  
TASUKU HONJO
Keyword(s):  
Nucleotide Sequences ◽  
Membrane Domains ◽  
Immunoglobulin Gamma

Nucleotide sequences at the 5' termini of reovirus mRNA's.

1978 ◽  
Vol 28 (2) ◽  
pp. 490-498 ◽  
Author(s):  
K E Hastings ◽  
S Millward
Keyword(s):  
Nucleotide Sequences

Complete Nucleotide Sequences of Two Adjacent Early Vaccinia Virus Genes Located Within the Inverted Terminal Repetition

1982 ◽  
Vol 44 (2) ◽  
pp. 637-646 ◽  
Author(s):  
Sundararajan Venkatesan ◽  
Alan Gershowitz ◽  
Bernard Moss
Keyword(s):  
Vaccinia Virus ◽  
Nucleotide Sequences

Nucleotide sequences important for translation initiation of enterovirus RNA.

1991 ◽  
Vol 65 (9) ◽  
pp. 4867-4873 ◽  
Author(s):  
N Iizuka ◽  
H Yonekawa ◽  
A Nomoto
Keyword(s):  
Translation Initiation ◽  
Nucleotide Sequences

Recombination, Balancing Selection and Phylogenies in MHC and Self-Incompatibility Genes

Genetics ◽  
2001 ◽  
Vol 159 (4) ◽  
pp. 1833-1844 ◽  
Author(s):  
Mikkel H Schierup ◽  
Anders M Mikkelsen ◽  
Jotun Hein
Keyword(s):  
Major Histocompatibility Complex ◽  
Phylogenetic Tree ◽  
Balancing Selection ◽  
Nucleotide Sequences ◽  
Recombination Process ◽  
Self Incompatibility ◽  
Selection Coefficient ◽  
Histocompatibility Complex ◽  
A Site ◽  
Possible Cause

AbstractUsing a coalescent model of multiallelic balancing selection with recombination, the genealogical process as a function of recombinational distance from a site under selection is investigated. We find that the shape of the phylogenetic tree is independent of the distance to the site under selection. Only the timescale changes from the value predicted by Takahata's allelic genealogy at the site under selection, converging with increasing recombination to the timescale of the neutral coalescent. However, if nucleotide sequences are simulated over a recombining region containing a site under balancing selection, a phylogenetic tree constructed while ignoring such recombination is strongly affected. This is true even for small rates of recombination. Published studies of multiallelic balancing selection, i.e., the major histocompatibility complex (MHC) of vertebrates, gametophytic and sporophytic self-incompatibility of plants, and incompatibility of fungi, all observe allelic genealogies with unexpected shapes. We conclude that small absolute levels of recombination are compatible with these observed distortions of the shape of the allelic genealogy, suggesting a possible cause of these observations. Furthermore, we illustrate that the variance in the coalescent with recombination process makes it difficult to locate sites under selection and to estimate the selection coefficient from levels of variability.

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