Gene
hoxd3a
- ID
- ZDB-GENE-990415-120
- Name
- homeobox D3a
- Symbol
- hoxd3a Nomenclature History
- Previous Names
-
- hoxd3
- im:7144208 (1)
- Z-56
- Type
- protein_coding_gene
- Location
- Chr: 9 Mapping Details/Browsers
- Description
- Predicted to enable DNA-binding transcription factor activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Predicted to be involved in anterior/posterior pattern specification; embryonic skeletal system morphogenesis; and regulation of transcription by RNA polymerase II. Predicted to act upstream of or within regulation of DNA-templated transcription. Predicted to be active in nucleus. Is expressed in several structures, including hindbrain; hindbrain neural keel; neural tube; pectoral fin bud; and spinal cord. Orthologous to human HOXD3 (homeobox D3).
- Genome Resources
- Note
- None
- Comparative Information
-
- All Expression Data
- 14 figures from 8 publications
- Cross-Species Comparison
- High Throughput Data
- Thisse Expression Data
-
- IMAGE:7144208 (6 images)
Wild Type Expression Summary
- All Phenotype Data
- No data available
- Cross-Species Comparison
- Alliance
Phenotype Summary
Mutations
Allele | Type | Localization | Consequence | Mutagen | Supplier |
---|---|---|---|---|---|
la026776Tg | Transgenic insertion | Unknown | Unknown | DNA | |
la026777Tg | Transgenic insertion | Unknown | Unknown | DNA | |
la026778Tg | Transgenic insertion | Unknown | Unknown | DNA | |
la029548Tg | Transgenic insertion | Unknown | Unknown | DNA | |
la029549Tg | Transgenic insertion | Unknown | Unknown | DNA | |
sa21417 | Allele with one point mutation | Unknown | Splice Site | ENU | |
sa38720 | Allele with one point mutation | Unknown | Premature Stop | ENU |
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Targeting Reagent | Created Alleles | Citations |
---|---|---|
CRISPR1-hoxd3a | (3) | |
MO1-hoxd3a | N/A | Wan et al., 2011 |
MO2-hoxd3a | N/A | Ma et al., 2014 |
MO3-hoxd3a | N/A | Sundaramoorthi et al., 2023 |
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Human Disease
Domain, Family, and Site Summary
Domain Details Per Protein
Protein | Additional Resources | Length | Domain of unknown function DUF4074 | Homedomain-like superfamily | Homeobox, conserved site | Homeobox protein, antennapedia type, conserved site | Homeodomain | Homeodomain, metazoa |
---|---|---|---|---|---|---|---|---|
UniProtKB:O42370 | InterPro | 396 | ||||||
UniProtKB:A0A8M9PRW4 | InterPro | 396 |
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Type | Name | Annotation Method | Has Havana Data | Length (nt) | Analysis |
---|---|---|---|---|---|
mRNA |
hoxd3a-201
(1)
|
Ensembl | 2,567 nt | ||
mRNA |
hoxd3a-203
(1)
|
Ensembl | 1,970 nt | ||
mRNA |
hoxd3a-204
(1)
|
Ensembl | 1,919 nt | ||
ncRNA |
hoxd3a-002
(1)
|
Ensembl | 480 nt |
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Interactions and Pathways
No data available
Plasmids
No data available
Relationship | Marker Type | Marker | Accession Numbers | Citations |
---|---|---|---|---|
Contained in | BAC | RP71-78H1 | ZFIN Curated Data | |
Encodes | EST | IMAGE:7144208 | Thisse et al., 2004 |
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Type | Accession # | Sequence | Length (nt/aa) | Analysis |
---|---|---|---|---|
RNA | RefSeq:NM_131125 (1) | 1825 nt | ||
Genomic | GenBank:BX322661 (1) | 146527 nt | ||
Polypeptide | UniProtKB:A0A8M9PRW4 (1) | 396 aa |
- Ishizaka, M., Maeno, A., Nakazawa, H., Fujii, R., Oikawa, S., Tani, T., Kanno, H., Koita, R., Kawamura, A. (2024) The functional roles of zebrafish HoxA- and HoxD-related clusters in the pectoral fin development. Scientific Reports. 14:2360223602
- Tuttle, A.M., Miller, L.N., Royer, L.J., Wen, H., Kelly, J.J., Calistri, N.L., Heiser, L.M., Nechiporuk, A.V. (2024) Single-cell analysis of Rohon-Beard neurons implicates Fgf signaling in axon maintenance and cell survival. The Journal of neuroscience : the official journal of the Society for Neuroscience. 44(16):
- Sundaramoorthi, H., Fallatah, W., Mary, J., Jagadeeswaran, P. (2023) Discovery of seven hox genes in zebrafish thrombopoiesis. Blood cells, molecules & diseases. 104:102796102796
- Yamada, K., Maeno, A., Araki, S., Kikuchi, M., Suzuki, M., Ishizaka, M., Satoh, K., Akama, K., Kawabe, Y., Suzuki, K., Kobayashi, D., Hamano, N., Kawamura, A. (2021) An atlas of seven zebrafish hox cluster mutants provides insights into sub/neofunctionalization of vertebrate Hox clusters. Development (Cambridge, England). 148(11):
- den Broeder, M.J., Ballangby, J., Kamminga, L.M., Aleström, P., Legler, J., Lindeman, L.C., Kamstra, J.H. (2020) Inhibition of methyltransferase activity of enhancer of zeste 2 leads to enhanced lipid accumulation and altered chromatin status in zebrafish. Epigenetics & chromatin. 13:5
- Malmstrøm, M., Britz, R., Matschiner, M., Tørresen, O.K., Hadiaty, R.K., Yaakob, N., Tan, H.H., Jakobsen, K.S., Salzburger, W., Rüber, L. (2018) The Most Developmentally Truncated Fishes Show Extensive Hox Gene Loss and Miniaturized Genomes. Genome biology and evolution. 10:1088-1103
- Madakashira, B., Corbett, L., Zhang, C., Paoli, P., Casement, J.W., Mann, J., Sadler, K.C., Mann, D.A. (2017) Variant Histone H2afv Reprograms DNA Methylation During Early Zebrafish Development. Epigenetics. 12(9):811-824
- Payumo, A.Y., McQuade, L.E., Walker, W.J., Yamazoe, S., Chen, J.K. (2016) Tbx16 regulates hox gene activation in mesodermal progenitor cells. Nature Chemical Biology. 12(9):694-701
- 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
- Zhang, H., Wang, X., Lv, K., Gao, S., Wang, G., Fan, C., Zhang, X.A., Yan, J. (2015) Time Point-based Integrative Analyses of Deep-transcriptome Identify Four Signal Pathways in Blastemal Regeneration of Zebrafish Lower Jaw. Stem cells (Dayton, Ohio). 33(3):806-18
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