Gene
plod1a
- ID
- ZDB-GENE-030131-3165
- Name
- procollagen-lysine, 2-oxoglutarate 5-dioxygenase 1a
- Symbol
- plod1a Nomenclature History
- Previous Names
- Type
- protein_coding_gene
- Location
- Chr: 8 Mapping Details/Browsers
- Description
- Predicted to enable procollagen-lysine 5-dioxygenase activity. Acts upstream of or within fin morphogenesis. Predicted to be located in rough endoplasmic reticulum membrane. Predicted to be active in several cellular components, including Golgi apparatus; endoplasmic reticulum; and extracellular space. Is expressed in several structures, including cranium; notochord; otic vesicle; pectoral fin; and shield. Human ortholog(s) of this gene implicated in Ehlers-Danlos syndrome kyphoscoliotic type 1. Orthologous to human PLOD1 (procollagen-lysine,2-oxoglutarate 5-dioxygenase 1).
- Genome Resources
- Note
- None
- Comparative Information
-
- All Expression Data
- 6 figures from 4 publications
- Cross-Species Comparison
- High Throughput Data
- Thisse Expression Data
- No data available
Wild Type Expression Summary
- All Phenotype Data
- 1 Figure from Durán et al., 2011
- Cross-Species Comparison
- Alliance
Phenotype Summary
Mutations
| Allele | Type | Localization | Consequence | Mutagen | Supplier |
|---|---|---|---|---|---|
| la011556Tg | Transgenic insertion | Unknown | Unknown | DNA | |
| la026610Tg | Transgenic insertion | Unknown | Unknown | DNA | |
| sa13867 | Allele with one point mutation | Unknown | Splice Site | ENU | |
| sa14077 | Allele with one point mutation | Unknown | Splice Site | ENU | |
| sa21385 | Allele with one point mutation | Unknown | Splice Site | ENU | |
| sa25408 | Allele with one point mutation | Unknown | Splice Site | ENU | |
| sa31681 | Allele with one point mutation | Unknown | Premature Stop | ENU |
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Human Disease
| Disease Ontology Term | Multi-Species Data | OMIM Term | OMIM Phenotype ID |
|---|---|---|---|
| Ehlers-Danlos syndrome kyphoscoliotic type 1 | Alliance | Ehlers-Danlos syndrome, kyphoscoliotic type, 1 | 225400 |
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Domain, Family, and Site Summary
| Type | InterPro ID | Name |
|---|---|---|
| Conserved_site | IPR001006 | Procollagen-lysine 5-dioxygenase, conserved site |
| Domain | IPR005123 | Oxoglutarate/iron-dependent dioxygenase domain |
| Domain | IPR006620 | Prolyl 4-hydroxylase, alpha subunit |
| Domain | IPR044861 | Isopenicillin N synthase-like, Fe(2+) 2OG dioxygenase domain |
| Family | IPR050757 | Collagen-modifying Glycosyltransferase 25 |
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Domain Details Per Protein
| Protein | Additional Resources | Length | Collagen-modifying Glycosyltransferase 25 | Isopenicillin N synthase-like, Fe(2+) 2OG dioxygenase domain | Nucleotide-diphospho-sugar transferases | Oxoglutarate/iron-dependent dioxygenase domain | Procollagen-lysine 5-dioxygenase, conserved site | Prolyl 4-hydroxylase, alpha subunit |
|---|---|---|---|---|---|---|---|---|
| UniProtKB:A8WIN7 | InterPro | 730 |
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| Type | Name | Annotation Method | Has Havana Data | Length (nt) | Analysis |
|---|---|---|---|---|---|
| aberrant processed transcript |
plod1a-203
(1)
|
Ensembl | 664 nt | ||
| mRNA |
plod1a-201
(1)
|
Ensembl | 2,767 nt | ||
| ncRNA |
plod1a-003
(1)
|
Ensembl | 406 nt |
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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 | DKEYP-104H9 | Schneider et al., 2007 | |
| Contains | SNP | rs3728187 | ZFIN Curated Data | |
| Contains | SNP | rs3728188 | ZFIN Curated Data | |
| Contains | SNP | rs3728189 | ZFIN Curated Data | |
| Contains | SNP | rs3728190 | ZFIN Curated Data | |
| Contains | SNP | rs3728191 | ZFIN Curated Data | |
| Contains | SNP | rs3728192 | ZFIN Curated Data | |
| Contains | SNP | rs3728193 | ZFIN Curated Data | |
| Encodes | EST | fc29c10 | ||
| Encodes | EST | fc95g08 |
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| Type | Accession # | Sequence | Length (nt/aa) | Analysis |
|---|---|---|---|---|
| RNA | RefSeq:NM_001077742 (1) | 2765 nt | ||
| Genomic | GenBank:BX548250 (1) | 165603 nt | ||
| Polypeptide | UniProtKB:A8WIN7 (1) | 730 aa |
- Greenhough, A., Bagley, C., Heesom, K.J., Gurevich, D.B., Gay, D., Bond, M., Collard, T.J., Paraskeva, C., Martin, P., Sansom, O.J., Malik, K., Williams, A.C. (2018) Cancer cell adaptation to hypoxia involves a HIF-GPRC5A-YAP axis. EMBO Molecular Medicine. 10(11):
- Crippa, S., Nemir, M., Ounzain, S., Ibberson, M., Berthonneche, C., Sarre, A., Boisset, G., Maison, D., Harshman, K., Xenarios, I., Diviani, D., Schorderet, D., Pedrazzini, T. (2016) Comparative transcriptome profiling of the injured zebrafish and mouse hearts identifies miRNA-dependent repair pathways. Cardiovascular research. 110(1):73-84
- 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
- Greenald, D., Jeyakani, J., Pelster, B., Sealy, I., Mathavan, S., van Eeden, F.J. (2015) Genome-wide mapping of Hif-1α binding sites in zebrafish. BMC Genomics. 16:923
- Zancan, I., Bellesso, S., Costa, R., Salvalaio, M., Stroppiano, M., Hammond, C., Argenton, F., Filocamo, M., Moro, E. (2015) Glucocerebrosidase deficiency in zebrafish affects primary bone ossification through increased oxidative stress and reduced Wnt/β-catenin signaling. Human molecular genetics. 24(5):1280-94
- Xu, T., Zhao, J., Hu, P., Dong, Z., Li, J., Zhang, H., Yin, D., Zhao, Q. (2014) Pentachlorophenol exposure causes Warburg-like effects in zebrafish embryos at gastrulation stage. Toxicology and applied pharmacology. 277:183-91
- 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
- Petrey, A.C., Flanagan-Steet, H., Johnson, S., Fan, X., De la Rosa, M., Haskins, M.E., Nairn, A.V., Moremen, K.W., and Steet, R. (2012) Excessive activity of cathepsin K is associated with the cartilage defects in a zebrafish model for mucolipidosis II. Disease models & mechanisms. 5(2):177-190
- Shestopalov, I.A., Pitt, C.L., and Chen, J.K. (2012) Spatiotemporal resolution of the Ntla transcriptome in axial mesoderm development. Nature Chemical Biology. 8(3):270-276
- Durán, I., Marí-Beffa, M., Santamaría, J.A., Becerra, J., and Santos-Ruiz, L. (2011) Actinotrichia collagens and their role in fin formation. Developmental Biology. 354(1):160-172
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