Alcw2 QTL Detail

Summary

• Symbol
  Alcw2
• Name
  alcohol withdrawal 2

• Feature Type
  QTL
• IDs
  MGI:1309537
  NCBI Gene: 112081
• Candidate Genes
  7 Genes

Location &
Maps

• Sequence Map
  Chr4:75859474-81361052 bp

  From MGI annotation of GRCm39
  

• View this region in JBrowse
  

• Genome Browsers
  Ensembl | UCSC | NCBI

• Genetic Map
  Chromosome 4, cM position of peak correlated region/marker: Syntenic
• Mapping Data
  8 experiments

Mutations,
Alleles, and
Phenotypes

• Phenotype Summary
  4 phenotypes from 2 alleles in 2 genetic backgrounds
  6 phenotype references
  

• All Mutations and Alleles
  2
• QTL
  2
• Find Mice (IMSR)
  0 strains or lines available

Sequences &
Gene Models

• NCBI Gene
  112081

References

• Summaries
  All 10

  Phenotypes 6
• Earliest
  J:36168 Crabbe J, Quantitative trait locus gene mapping: a new method for locating alcohol response genes. Addict Biol. 1996;1(3):229-35
• Latest
  J:143371 Chen G, et al., Involvement of the limbic basal ganglia in ethanol withdrawal convulsivity in mice is influenced by a chromosome 4 locus. J Neurosci. 2008 Sep 24;28(39):9840-9

Candidate Genes for Alcw2:

Gene	Genome Location (GRCm39)	Reference	QTL Note
Alad	Chr4:62427406-62438155 (-)	J:98587	Microarray analysis was used to identify genes showing alcohol-induced differential expression between inbred strains C57BL/6J and DBA/2J. These genes were then correlated to 6 previously identified alcohol-related QTLs to identify potential candidate genes. Two different Affymetrix microarrays were used in the analysis. Brain expression data from parental strains and 56 (DBA/2J x C57BL/6J)F2 intercross animals were used for analysis. On mouse Chromosome 4, the highest priority candidate genes identified for Alcw2 at 40 cM is Alad (30.6 cM). Other candidate genes with a ranking of modest priority were identified but are not listed here.
Clic4	Chr4:134941280-135000071 (-)	J:98595	Microarray analysis was used to identify genes showing alcohol-induced differential expression between inbred strains C57BL/6J and DBA/2J. These genes were then correlated to alcohol-related QTLs to identify potential candidate genes. The experiment involved identifying genes expressed differentially in alcohol-induced and non-induced animals but the following list of candidate genes are only for alcohol-induced states. On mouse Chromosome 4, several candidate genes were identified for Ap3q at 81 cM and Alcw2 at 40 cM. Candidate genes for Ap3q are Clic4, 2610510H01Rik, Park7, and Tnfrsf9 (75.5 cM). Candidate genes for Alcw2 are Mpdz (38.6 cM) and Nfib (38.6 cM).
Mpdz	Chr4:81196742-81361052 (-)	J:98595	Microarray analysis was used to identify genes showing alcohol-induced differential expression between inbred strains C57BL/6J and DBA/2J. These genes were then correlated to alcohol-related QTLs to identify potential candidate genes. The experiment involved identifying genes expressed differentially in alcohol-induced and non-induced animals but the following list of candidate genes are only for alcohol-induced states. On mouse Chromosome 4, several candidate genes were identified for Ap3q at 81 cM and Alcw2 at 40 cM. Candidate genes for Ap3q are Clic4, 2610510H01Rik, Park7, and Tnfrsf9 (75.5 cM). Candidate genes for Alcw2 are Mpdz (38.6 cM) and Nfib (38.6 cM).
Mpdz	Chr4:81196742-81361052 (-)	J:88800	Mpdz, a candidate gene for the alcohol withdrawal QTL Alcw2 on mouse Chromosome 4, was examined in this study. Short term selected lines were generated from a (C57BL/6J x DBA/2J)F2 intercross. Animals were selected for high alcohol withdrawal (HAW) or low alcohol withdrawal (LAW) phenotypes and bred for 4 generations. DBA/2J-derived alleles at Mpdz were enriched in the HAW population whereas C57BL/6J-derived alleles were enriched in the LAW population. This association is significant and exceeds that predicted from genetic drift. The same short term selection strategy was used to generate high pentobarbital withdrawal (HPW) and low pentobarbital withdrawal (LPW) lines. Similarly, DBA/2J-derived alleles at Mpdz were enriched in the HPW population whereasC57BL/6J-derived alleles were enriched in the LPW population. This association is significant and exceeds that predicted from genetic drift.
Nfib	Chr4:82208410-82424988 (-)	J:98595	Microarray analysis was used to identify genes showing alcohol-induced differential expression between inbred strains C57BL/6J and DBA/2J. These genes were then correlated to alcohol-related QTLs to identify potential candidate genes. The experiment involved identifying genes expressed differentially in alcohol-induced and non-induced animals but the following list of candidate genes are only for alcohol-induced states. On mouse Chromosome 4, several candidate genes were identified for Ap3q at 81 cM and Alcw2 at 40 cM. Candidate genes for Ap3q are Clic4, 2610510H01Rik, Park7, and Tnfrsf9 (75.5 cM). Candidate genes for Alcw2 are Mpdz (38.6 cM) and Nfib (38.6 cM).
Park7	Chr4:150981590-150994378 (-)	J:98595	Microarray analysis was used to identify genes showing alcohol-induced differential expression between inbred strains C57BL/6J and DBA/2J. These genes were then correlated to alcohol-related QTLs to identify potential candidate genes. The experiment involved identifying genes expressed differentially in alcohol-induced and non-induced animals but the following list of candidate genes are only for alcohol-induced states. On mouse Chromosome 4, several candidate genes were identified for Ap3q at 81 cM and Alcw2 at 40 cM. Candidate genes for Ap3q are Clic4, 2610510H01Rik, Park7, and Tnfrsf9 (75.5 cM). Candidate genes for Alcw2 are Mpdz (38.6 cM) and Nfib (38.6 cM).
Rcc2	Chr4:140427852-140450531 (+)	J:98595	Microarray analysis was used to identify genes showing alcohol-induced differential expression between inbred strains C57BL/6J and DBA/2J. These genes were then correlated to alcohol-related QTLs to identify potential candidate genes. The experiment involved identifying genes expressed differentially in alcohol-induced and non-induced animals but the following list of candidate genes are only for alcohol-induced states. On mouse Chromosome 4, several candidate genes were identified for Ap3q at 81 cM and Alcw2 at 40 cM. Candidate genes for Ap3q are Clic4, 2610510H01Rik, Park7, and Tnfrsf9 (75.5 cM). Candidate genes for Alcw2 are Mpdz (38.6 cM) and Nfib (38.6 cM).
Tnfrsf9	Chr4:151004612-151030561 (+)	J:98595	Microarray analysis was used to identify genes showing alcohol-induced differential expression between inbred strains C57BL/6J and DBA/2J. These genes were then correlated to alcohol-related QTLs to identify potential candidate genes. The experiment involved identifying genes expressed differentially in alcohol-induced and non-induced animals but the following list of candidate genes are only for alcohol-induced states. On mouse Chromosome 4, several candidate genes were identified for Ap3q at 81 cM and Alcw2 at 40 cM. Candidate genes for Ap3q are Clic4, 2610510H01Rik, Park7, and Tnfrsf9 (75.5 cM). Candidate genes for Alcw2 are Mpdz (38.6 cM) and Nfib (38.6 cM).