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Data Brief
2016 Sep 01;8:87-92. doi: 10.1016/j.dib.2016.05.021.
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Data on the evolutionary history of the V(D)J recombination-activating protein 1 - RAG1 coupled with sequence and variant analyses.
Kumar A
,
Bhandari A
,
Sarde SJ
,
Muppavarapu S
,
Tandon R
.
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RAG1 protein is one of the key component of RAG complex regulating the V(D)J recombination. There are only few studies for RAG1 concerning evolutionary history, detailed sequence and mutational hotspots. Herein, we present out datasets used for the recent comprehensive study of RAG1 based on sequence, phylogenetic and genetic variant analyses (Kumar et al., 2015) [1]. Protein sequence alignment helped in characterizing the conserved domains and regions of RAG1. It also aided in unraveling ancestral RAG1 in the sea urchin. Human genetic variant analyses revealed 751 mutational hotspots, located both in the coding and the non-coding regions. For further analysis and discussion, see (Kumar et al., 2015) [1].
Abecasis,
An integrated map of genetic variation from 1,092 human genomes.
2012, Pubmed
Abecasis,
An integrated map of genetic variation from 1,092 human genomes.
2012,
Pubmed
Adzhubei,
A method and server for predicting damaging missense mutations.
2010,
Pubmed
Altschul,
Basic local alignment search tool.
1990,
Pubmed
Edgar,
MUSCLE: multiple sequence alignment with high accuracy and high throughput.
2004,
Pubmed
Flicek,
Ensembl's 10th year.
2010,
Pubmed
Flicek,
Ensembl 2013.
2013,
Pubmed
Guo,
rSNPBase: a database for curated regulatory SNPs.
2014,
Pubmed
Hubbard,
Ensembl 2009.
2009,
Pubmed
Jones,
The rapid generation of mutation data matrices from protein sequences.
1992,
Pubmed
Kumar,
Ancestry and evolution of a secretory pathway serpin.
2008,
Pubmed
,
Echinobase
Kumar,
Sequence, phylogenetic and variant analyses of antithrombin III.
2013,
Pubmed
Kumar,
Surveying genetic variants and molecular phylogeny of cerebral cavernous malformation gene, CCM3/PDCD10.
2014,
Pubmed
,
Echinobase
Kumar,
Genetic variants and evolutionary analyses of heparin cofactor II.
2014,
Pubmed
Kumar,
Revising angiotensinogen from phylogenetic and genetic variants perspectives.
2014,
Pubmed
Kumar,
Understanding V(D)J recombination initiator RAG1 gene using molecular phylogenetic and genetic variant analyses and upgrading missense and non-coding variants of clinical importance.
2015,
Pubmed
,
Echinobase
Ng,
SIFT: Predicting amino acid changes that affect protein function.
2003,
Pubmed
Stanke,
AUGUSTUS: a web server for gene prediction in eukaryotes that allows user-defined constraints.
2005,
Pubmed
Tamura,
MEGA6: Molecular Evolutionary Genetics Analysis version 6.0.
2013,
Pubmed
Wolfsberg,
Using the NCBI Map Viewer to browse genomic sequence data.
2007,
Pubmed