Etax9 QTL Detail

Summary

• Symbol
  Etax9
• Name
  ethanol induced ataxia 9

• Feature Type
  QTL
• IDs
  MGI:3652358
  NCBI Gene: 100036366
• Candidate Genes
  3 Genes

Location &
Maps

• Sequence Map
  Chr11:55284985-72209927 bp

  From MGI annotation of GRCm39
  

• View this region in JBrowse
  

• Genome Browsers
  Ensembl | UCSC | NCBI

• Genetic Map
  Chromosome 11, cM position of peak correlated region/marker: Syntenic
• Mapping Data
  2 experiments

Mutations,
Alleles, and
Phenotypes

• Phenotype Summary
  1 phenotype reference
  

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

Sequences &
Gene Models

• NCBI Gene
  100036366

References

• Summaries
  All 3

  Phenotypes 1
• Earliest
  J:78665 Kirstein SL, et al., Quantitative trait loci affecting initial sensitivity and acute functional tolerance to ethanol-induced ataxia and brain cAMP signaling in BXD recombinant inbred mice. J Pharmacol Exp Ther. 2002 Sep;302(3):1238-45
• Latest
  J:83912 Tabakoff B, et al., Selective breeding, quantitative trait locus analysis, and gene arrays identify candidate genes for complex drug-related behaviors. J Neurosci. 2003 Jun 1;23(11):4491-8

Candidate Genes for Etax9:

Gene	Genome Location (GRCm39)	Reference	QTL Note
Efnb3	Chr11:69444918-69451031 (-)	J:83912	Candidate genes for alcohol traits were identified using gene expression analysis. Total brain RNA from 10 week old male HAFT1 and LAFT1 (and replicate HAFT2 and LAFT2) mice were hybridized to DNA microarrays to detect differentially expressed genes. HAFT1 and LAFT1 are high and low alcohol functional tolerance (AFT) selection lines, respectively, derived from HS/Ibg. HAFT1 mice display greater alcohol functional tolerance and blood ethanol concentration at time of regaining balance on the dowel test compared to LAFT1 mice. Candidate genes mapping to previously identified AFT QTL intervals are described below. Differential expression of candidate genes was also confirmed using RT-PCR analysis. Promoter sequence analysis of identified candidate genes revealed one or more transcription factor binding sites. On mouse Chromosome 1, Prdx6 at 83.6 cM was identified as a potential candidate gene for Etax2 (ethanol induced ataxia 2). This gene is expressed in HAFT1 mice at 87% of the mRNA levels in LAFT1 mice (p<0.001). Etax2 is linked to initial blood ethanol concentration (BEC) after dowel test, acute functional tolerance, and BEC after regaining balance. On mouse Chromosome 2, Grin1 at 12 cM was identified as a potential candidate gene for Etax3 (ethanol induced ataxia 3). This gene isexpressed in HAFT1 mice at 190% of the mRNA levels in LAFT1 mice (p<0.006). Etax3 is linked to acute functional tolerance. On mouse Chromosome 6, Grid2 at 29.65 cM was identified as a potential candidate gene for Etax6 (ethanol induced ataxia 6). Thisgene is expressed in HAFT1 mice at 139% of the mRNA levels in LAFT1 mice (p<0.006). Etax6 is linked to initial BEC after dowel test and BEC after regaining balance. On mouse Chromosome 11, Efnb3 at 40 cM, Zfp179 at 34.5 cM, and Skp1a (formerly Tceb1l) at 31 cM were identified as potential candidate genes for Etax9 (ethanol induced ataxia 9). Efnb3 is expressed in HAFT1 mice at 119% of the mRNA levels in LAFT1 (p<0.002). Zfp197 is expressed at in HAFT1 mice at 159% of the mRNA levels in LAFT1 mice (p<0.002), and Skp1a is expressed at in HAFT1 mice at 137% of the mRNA levels in LAFT1 mice (p<0.002). Etax9 is linked to initial BEC after dowel test and BEC after regaining balance.
Rnf112	Chr11:61339268-61344957 (-)	J:83912	Candidate genes for alcohol traits were identified using gene expression analysis. Total brain RNA from 10 week old male HAFT1 and LAFT1 (and replicate HAFT2 and LAFT2) mice were hybridized to DNA microarrays to detect differentially expressed genes. HAFT1 and LAFT1 are high and low alcohol functional tolerance (AFT) selection lines, respectively, derived from HS/Ibg. HAFT1 mice display greater alcohol functional tolerance and blood ethanol concentration at time of regaining balance on the dowel test compared to LAFT1 mice. Candidate genes mapping to previously identified AFT QTL intervals are described below. Differential expression of candidate genes was also confirmed using RT-PCR analysis. Promoter sequence analysis of identified candidate genes revealed one or more transcription factor binding sites. On mouse Chromosome 1, Prdx6 at 83.6 cM was identified as a potential candidate gene for Etax2 (ethanol induced ataxia 2). This gene is expressed in HAFT1 mice at 87% of the mRNA levels in LAFT1 mice (p<0.001). Etax2 is linked to initial blood ethanol concentration (BEC) after dowel test, acute functional tolerance, and BEC after regaining balance. On mouse Chromosome 2, Grin1 at 12 cM was identified as a potential candidate gene for Etax3 (ethanol induced ataxia 3). This gene isexpressed in HAFT1 mice at 190% of the mRNA levels in LAFT1 mice (p<0.006). Etax3 is linked to acute functional tolerance. On mouse Chromosome 6, Grid2 at 29.65 cM was identified as a potential candidate gene for Etax6 (ethanol induced ataxia 6). Thisgene is expressed in HAFT1 mice at 139% of the mRNA levels in LAFT1 mice (p<0.006). Etax6 is linked to initial BEC after dowel test and BEC after regaining balance. On mouse Chromosome 11, Efnb3 at 40 cM, Zfp179 at 34.5 cM, and Skp1a (formerly Tceb1l) at 31 cM were identified as potential candidate genes for Etax9 (ethanol induced ataxia 9). Efnb3 is expressed in HAFT1 mice at 119% of the mRNA levels in LAFT1 (p<0.002). Zfp197 is expressed at in HAFT1 mice at 159% of the mRNA levels in LAFT1 mice (p<0.002), and Skp1a is expressed at in HAFT1 mice at 137% of the mRNA levels in LAFT1 mice (p<0.002). Etax9 is linked to initial BEC after dowel test and BEC after regaining balance.
Skp1	Chr11:52122822-52137685 (+)	J:83912	Candidate genes for alcohol traits were identified using gene expression analysis. Total brain RNA from 10 week old male HAFT1 and LAFT1 (and replicate HAFT2 and LAFT2) mice were hybridized to DNA microarrays to detect differentially expressed genes. HAFT1 and LAFT1 are high and low alcohol functional tolerance (AFT) selection lines, respectively, derived from HS/Ibg. HAFT1 mice display greater alcohol functional tolerance and blood ethanol concentration at time of regaining balance on the dowel test compared to LAFT1 mice. Candidate genes mapping to previously identified AFT QTL intervals are described below. Differential expression of candidate genes was also confirmed using RT-PCR analysis. Promoter sequence analysis of identified candidate genes revealed one or more transcription factor binding sites. On mouse Chromosome 1, Prdx6 at 83.6 cM was identified as a potential candidate gene for Etax2 (ethanol induced ataxia 2). This gene is expressed in HAFT1 mice at 87% of the mRNA levels in LAFT1 mice (p<0.001). Etax2 is linked to initial blood ethanol concentration (BEC) after dowel test, acute functional tolerance, and BEC after regaining balance. On mouse Chromosome 2, Grin1 at 12 cM was identified as a potential candidate gene for Etax3 (ethanol induced ataxia 3). This gene isexpressed in HAFT1 mice at 190% of the mRNA levels in LAFT1 mice (p<0.006). Etax3 is linked to acute functional tolerance. On mouse Chromosome 6, Grid2 at 29.65 cM was identified as a potential candidate gene for Etax6 (ethanol induced ataxia 6). Thisgene is expressed in HAFT1 mice at 139% of the mRNA levels in LAFT1 mice (p<0.006). Etax6 is linked to initial BEC after dowel test and BEC after regaining balance. On mouse Chromosome 11, Efnb3 at 40 cM, Zfp179 at 34.5 cM, and Skp1a (formerly Tceb1l) at 31 cM were identified as potential candidate genes for Etax9 (ethanol induced ataxia 9). Efnb3 is expressed in HAFT1 mice at 119% of the mRNA levels in LAFT1 (p<0.002). Zfp197 is expressed at in HAFT1 mice at 159% of the mRNA levels in LAFT1 mice (p<0.002), and Skp1a is expressed at in HAFT1 mice at 137% of the mRNA levels in LAFT1 mice (p<0.002). Etax9 is linked to initial BEC after dowel test and BEC after regaining balance.