Gene
atrx
- ID
- ZDB-GENE-030912-11
- Name
- ATRX chromatin remodeler
- Symbol
- atrx Nomenclature History
- Previous Names
-
- wu:fb26e12
- wu:fb52h08
- wu:fb72g09
- Type
- protein_coding_gene
- Location
- Chr: 14 Mapping Details/Browsers
- Description
- Predicted to enable chromatin DNA binding activity. Predicted to be involved in chromatin remodeling and replication fork processing. Predicted to act upstream of or within DNA repair. Predicted to be located in chromosome, telomeric region and nuclear body. Predicted to be active in nucleus and pericentric heterochromatin. Used to study alpha thalassemia-X-linked intellectual disability syndrome. Human ortholog(s) of this gene implicated in X-linked mental retardation-hypotonic facies syndrome-1; alpha thalassemia-X-linked intellectual disability syndrome; alpha-thalassemia myelodysplasia syndrome; high grade glioma; and lung small cell carcinoma. Orthologous to human ATRX (ATRX chromatin remodeler).
- Genome Resources
- Note
- None
- Comparative Information
-
- All Expression Data
- 1 figure from Thisse et al., 2004
- Cross-Species Comparison
- High Throughput Data
- Thisse Expression Data
-
- MGC:66223 (1 image)
Wild Type Expression Summary
- All Phenotype Data
- 2 figures from Oppel et al., 2019
- Cross-Species Comparison
- Alliance
Phenotype Summary
Mutations
| Allele | Type | Localization | Consequence | Mutagen | Supplier |
|---|---|---|---|---|---|
| la027489Tg | Transgenic insertion | Unknown | Unknown | DNA | |
| sa10556 | Allele with one point mutation | Unknown | Splice Site, Premature Stop | ENU | |
| sa13757 | Allele with one point mutation | Unknown | Premature Stop | ENU | |
| sa15167 | Allele with one point mutation | Unknown | Premature Stop | ENU | |
| sa17647 | Allele with one point mutation | Unknown | Splice Site | ENU | |
| sa35643 | Allele with one point mutation | Unknown | Premature Stop | ENU | |
| sa35644 | Allele with one point mutation | Unknown | Splice Site | ENU | |
| sa35645 | Allele with one point mutation | Unknown | Splice Site | ENU | |
| sa42353 | Allele with one point mutation | Unknown | Splice Site | ENU | |
| sa42354 | Allele with one point mutation | Unknown | Premature Stop | ENU |
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| Targeting Reagent | Created Alleles | Citations |
|---|---|---|
| CRISPR1-atrx | Oppel et al., 2019 | |
| MO1-atrx | N/A | Huang et al., 2013 |
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Human Disease
| Disease Ontology Term | Multi-Species Data | OMIM Term | OMIM Phenotype ID |
|---|---|---|---|
| alpha thalassemia-X-linked intellectual disability syndrome | Alliance | Alpha-thalassemia/impaired intellectual development syndrome | 301040 |
| alpha-thalassemia myelodysplasia syndrome | Alliance | Alpha-thalassemia myelodysplasia syndrome, somatic | 300448 |
| Intellectual disability-hypotonic facies syndrome, X-linked | 309580 |
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| Human Disease | Fish | Conditions | Citations |
|---|---|---|---|
| alpha thalassemia-X-linked intellectual disability syndrome | atrxzdf36/zdf36 (AB) | standard conditions | Oppel et al., 2019 |
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Domain, Family, and Site Summary
Domain Details Per Protein
| Protein | Additional Resources | Length | ADD domain | ATRX, ADD domain | ATRX domain-containing protein | Helicase, C-terminal domain-like | Helicase superfamily 1/2, ATP-binding domain | P-loop containing nucleoside triphosphate hydrolase | SNF2-like, N-terminal domain superfamily | SNF2, N-terminal | SNF2/RAD5-like, C-terminal helicase domain | Zinc finger, FYVE/PHD-type | Zinc finger, RING/FYVE/PHD-type |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| UniProtKB:A0A8M9QKH6 | InterPro | 2053 | |||||||||||
| UniProtKB:E7F4M2 | InterPro | 2013 |
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Interactions and Pathways
No data available
Plasmids
No data available
No data available
| Relationship | Marker Type | Marker | Accession Numbers | Citations |
|---|---|---|---|---|
| Contained in | BAC | DKEY-65A17 | ZFIN Curated Data | |
| Contained in | BAC | DKEY-92I17 | ZFIN Curated Data | |
| Encodes | EST | faa09a05 | ||
| Encodes | EST | fb26e12 | ||
| Encodes | EST | fb52h08 | ||
| Encodes | EST | fb72g09 | ||
| Encodes | EST | fb94e07 | ||
| Encodes | cDNA | MGC:66223 | ZFIN Curated Data |
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| Type | Accession # | Sequence | Length (nt/aa) | Analysis |
|---|---|---|---|---|
| RNA | RefSeq:NM_200653 (1) | 7483 nt | ||
| Genomic | GenBank:BX005453 (1) | 185541 nt | ||
| Polypeptide | UniProtKB:A0A8M9QKH6 (1) | 2053 aa |
- Oppel, F., Tao, T., Shi, H., Ross, K.N., Zimmerman, M.W., He, S., Tong, G., Aster, J.C., Look, A.T. (2019) Loss of atrx cooperates with p53-deficiency to promote the development of sarcomas and other malignancies. PLoS Genetics. 15:e1008039
- Huang, H.T., Kathrein, K.L., Barton, A., Gitlin, Z., Huang, Y.H., Ward, T.P., Hofmann, O., Dibiase, A., Song, A., Tyekucheva, S., Hide, W., Zhou, Y., and Zon, L.I. (2013) A network of epigenetic regulators guides developmental haematopoiesis in vivo. Nature cell biology. 15(12):1516-1525
- Varshney, G.K., Lu, J., Gildea, D., Huang, H., Pei, W., Yang, Z., Huang, S.C., Schoenfeld, D.S., Pho, N., Casero, D., Hirase, T., Mosbrook-Davis, D.M., Zhang, S., Jao, L.E., Zhang, B., Woods, I.G., Zimmerman, S., Schier, A.F., Wolfsberg, T., Pellegrini, M., Burgess, S.M., and Lin, S. (2013) A large-scale zebrafish gene knockout resource for the genome-wide study of gene function. Genome research. 23(4):727-735
- Rissone, A., Sangiorgio, L., Monopoli, M., Beltrame, M., Zucchi, I., Bussolino, F., Arese, M., and Cotelli, F. (2010) Characterization of the neuroligin gene family expression and evolution in zebrafish. Developmental Dynamics : an official publication of the American Association of Anatomists. 239(2):688-702
- Wang, D., Jao, L.E., Zheng, N., Dolan, K., Ivey, J., Zonies, S., Wu, X., Wu, K., Yang, H., Meng, Q., Zhu, Z., Zhang, B., Lin, S., and Burgess, S.M. (2007) Efficient genome-wide mutagenesis of zebrafish genes by retroviral insertions. Proceedings of the National Academy of Sciences of the United States of America. 104(30):12428-12433
- Harden, M.V., Newton, L.A., Lloyd, R.C., Whitlock, K.E. (2006) Olfactory imprinting is correlated with changes in gene expression in the olfactory epithelia of the zebrafish. Journal of neurobiology. 66(13):1452-1466
- Woods, I.G., Wilson, C., Friedlander, B., Chang, P., Reyes, D.K., Nix, R., Kelly, P.D., Chu, F., Postlethwait, J.H., and Talbot, W.S. (2005) The zebrafish gene map defines ancestral vertebrate chromosomes. Genome research. 15(9):1307-1314
- Strausberg,R.L., Feingold,E.A., Grouse,L.H., Derge,J.G., Klausner,R.D., Collins,F.S., Wagner,L., Shenmen,C.M., Schuler,G.D., Altschul,S.F., Zeeberg,B., Buetow,K.H., Schaefer,C.F., Bhat,N.K., Hopkins,R.F., Jordan,H., Moore,T., Max,S.I., Wang,J., Hsieh,F., Diatchenko,L., Marusina,K., Farmer,A.A., Rubin,G.M., Hong,L., Stapleton,M., Soares,M.B., Bonaldo,M.F., Casavant,T.L., Scheetz,T.E., Brownstein,M.J., Usdin,T.B., Toshiyuki,S., Carninci,P., Prange,C., Raha,S.S., Loquellano,N.A., Peters,G.J., Abramson,R.D., Mullahy,S.J., Bosak,S.A., McEwan,P.J., McKernan,K.J., Malek,J.A., Gunaratne,P.H., Richards,S., Worley,K.C., Hale,S., Garcia,A.M., Gay,L.J., Hulyk,S.W., Villalon,D.K., Muzny,D.M., Sodergren,E.J., Lu,X., Gibbs,R.A., Fahey,J., Helton,E., Ketteman,M., Madan,A., Rodrigues,S., Sanchez,A., Whiting,M., Madan,A., Young,A.C., Shevchenko,Y., Bouffard,G.G., Blakesley,R.W., Touchman,J.W., Green,E.D., Dickson,M.C., Rodriguez,A.C., Grimwood,J., Schmutz,J., Myers,R.M., Butterfield,Y.S., Krzywinski,M.I., Skalska,U., Smailus,D.E., Schnerch,A., Schein,J.E., Jones,S.J., and Marra,M.A. (2002) Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Proceedings of the National Academy of Sciences of the United States of America. 99(26):16899-903
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