Gene
vars1
- ID
- ZDB-GENE-010601-1
- Name
- valyl-tRNA synthetase 1
- Symbol
- vars1 Nomenclature History
- Previous Names
- Type
- protein_coding_gene
- Location
- Chr: 16 Mapping Details/Browsers
- Description
- Predicted to enable valine-tRNA ligase activity. Predicted to be involved in valyl-tRNA aminoacylation. Predicted to act upstream of or within tRNA aminoacylation for protein translation. Predicted to be active in cytosol. Is expressed in digestive system; immature eye; intermediate cell mass of mesoderm; nervous system; and somite. Orthologous to human VARS1 (valyl-tRNA synthetase 1).
- Genome Resources
- Note
- None
- Comparative Information
-
- All Expression Data
- 3 figures from 2 publications
- Cross-Species Comparison
- High Throughput Data
- Thisse Expression Data
-
- IMAGE:7137378 (1 image)
Wild Type Expression Summary
Phenotype Summary
Mutations
| Allele | Type | Localization | Consequence | Mutagen | Supplier |
|---|---|---|---|---|---|
| hi558Tg | Transgenic insertion | Intron 1 | Unknown | DNA | |
| la027672Tg | Transgenic insertion | Unknown | Unknown | DNA | |
| lv101 | Allele with one deletion | Unknown | Unknown | CRISPR | |
| sa22767 | Allele with one point mutation | Unknown | Splice Site | ENU | |
| sa42669 | Allele with one point mutation | Unknown | Premature Stop | ENU | |
| sa44838 | Allele with one point mutation | Unknown | Unknown | ENU |
1 - 6 of 6
Show
Human Disease
| Disease Ontology Term | Multi-Species Data | OMIM Term | OMIM Phenotype ID |
|---|---|---|---|
| Neurodevelopmental disorder with microcephaly, seizures, and cortical atrophy | 617802 |
Domain, Family, and Site Summary
| Type | InterPro ID | Name |
|---|---|---|
| Conserved_site | IPR001412 | Aminoacyl-tRNA synthetase, class I, conserved site |
| Domain | IPR002300 | Aminoacyl-tRNA synthetase, class Ia |
| Domain | IPR004046 | Glutathione S-transferase, C-terminal |
| Domain | IPR010987 | Glutathione S-transferase, C-terminal-like |
| Domain | IPR013155 | Methionyl/Valyl/Leucyl/Isoleucyl-tRNA synthetase, anticodon-binding |
| Domain | IPR033705 | Valyl tRNA synthetase, anticodon-binding domain |
| Family | IPR002303 | Valine-tRNA ligase |
| Homologous_superfamily | IPR009008 | Valyl/Leucyl/Isoleucyl-tRNA synthetase, editing domain |
| Homologous_superfamily | IPR009080 | Aminoacyl-tRNA synthetase, class Ia, anticodon-binding |
| Homologous_superfamily | IPR014729 | Rossmann-like alpha/beta/alpha sandwich fold |
| Homologous_superfamily | IPR036282 | Glutathione S-transferase, C-terminal domain superfamily |
| Homologous_superfamily | IPR037118 | Valyl-tRNA synthetase, tRNA-binding arm superfamily |
Domain Details Per Protein
| Protein | Additional Resources | Length | Aminoacyl-tRNA synthetase, class Ia | Aminoacyl-tRNA synthetase, class Ia, anticodon-binding | Aminoacyl-tRNA synthetase, class I, conserved site | Glutathione S-transferase, C-terminal | Glutathione S-transferase, C-terminal domain superfamily | Glutathione S-transferase, C-terminal-like | Methionyl/Valyl/Leucyl/Isoleucyl-tRNA synthetase, anticodon-binding | Rossmann-like alpha/beta/alpha sandwich fold | Valine-tRNA ligase | Valyl/Leucyl/Isoleucyl-tRNA synthetase, editing domain | Valyl tRNA synthetase, anticodon-binding domain | Valyl-tRNA synthetase, tRNA-binding arm superfamily |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| UniProtKB:F1Q740 | InterPro | 1271 |
Interactions and Pathways
No data available
Plasmids
No data available
No data available
| Relationship | Marker Type | Marker | Accession Numbers | Citations |
|---|---|---|---|---|
| Contained in | BAC | CH73-54F23 | ZFIN Curated Data | |
| Encodes | BAC END | zk18d13.sp6 | ||
| Encodes | EST | fb07a11 | ZFIN Curated Data | |
| Encodes | EST | fb07d10 | ZFIN Curated Data | |
| Encodes | EST | IMAGE:7137378 | Thisse et al., 2004 |
1 - 5 of 5
Show
| Type | Accession # | Sequence | Length (nt/aa) | Analysis |
|---|---|---|---|---|
| RNA | RefSeq:NM_001311346 (1) | 4042 nt | ||
| Genomic | GenBank:CR848684 (1) | 208773 nt | ||
| Polypeptide | UniProtKB:F1Q740 (1) | 1271 aa |
- Siekierska, A., Stamberger, H., Deconinck, T., Oprescu, S.N., Partoens, M., Zhang, Y., Sourbron, J., Adriaenssens, E., Mullen, P., Wiencek, P., Hardies, K., Lee, J.S., Giong, H.K., Distelmaier, F., Elpeleg, O., Helbig, K.L., Hersh, J., Isikay, S., Jordan, E., Karaca, E., Kecskes, A., Lupski, J.R., Kovacs-Nagy, R., May, P., Narayanan, V., Pendziwiat, M., Ramsey, K., Rangasamy, S., Shinde, D.N., Spiegel, R., Timmerman, V., von Spiczak, S., Helbig, I., C4RCD Research Group, AR working group of the EuroEPINOMICS RES Consortium, Weckhuysen, S., Francklyn, C., Antonellis, A., de Witte, P., De Jonghe, P. (2019) Biallelic VARS variants cause developmental encephalopathy with microcephaly that is recapitulated in vars knockout zebrafish. Nature communications. 10:708
- Bayés, À., Collins, M.O., Reig-Viader, R., Gou, G., Goulding, D., Izquierdo, A., Choudhary, J.S., Emes, R.D., Grant, S.G. (2017) Evolution of complexity in the zebrafish synapse proteome. Nature communications. 8:14613
- Waldron, A.L., Cahan, S.H., Franklyn, C.S., Ebert, A.M. (2017) A single Danio rerio hars gene encodes both cytoplasmic and mitochondrial histidyl-tRNA synthetases. PLoS One. 12:e0185317
- Song, Y., Shi, Y., Carland, T.M., Lian, S., Sasaki, T., Schork, N.J., Head, S.R., Kishi, S., Schimmel, P. (2016) p53-Dependent DNA damage response sensitive to editing-defective tRNA synthetase in zebrafish. Proceedings of the National Academy of Sciences of the United States of America. 113(30):8460-5
- Elkon, R., Milon, B., Morrison, L., Shah, M., Vijayakumar, S., Racherla, M., Leitch, C.C., Silipino, L., Hadi, S., Weiss-Gayet, M., Barras, E., Schmid, C.D., Ait-Lounis, A., Barnes, A., Song, Y., Eisenman, D.J., Eliyahu, E., Frolenkov, G.I., Strome, S.E., Durand, B., Zaghloul, N.A., Jones, S.M., Reith, W., Hertzano, R. (2015) RFX transcription factors are essential for hearing in mice. Nature communications. 6:8549
- Ren, L., Tan, X.J., Xiong, Y.F., Xu, K., Zhou, Y., Zhong, H., Liu, Y., Hong, Y., Liu, S.J. (2014) Transcriptome analysis reveals positive selection on the divergent between topmouth culter and zebrafish. Gene. 552(2):265-71
- 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
- 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
- Tallafuss, A., Hale, L.A., Yan, Y.L., Dudley, L., Eisen, J.S., and Postlethwait, J.H. (2006) Characterization of retinoid-X receptor genes rxra, rxrba, rxrbb and rxrg during zebrafish development. Gene expression patterns : GEP. 6(5):556-565
- 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
1 - 10 of 12
Show