Gene
nid1a
- ID
- ZDB-GENE-050302-58
- Name
- nidogen 1a
- Symbol
- nid1a Nomenclature History
- Previous Names
-
- nid1
- im:7055206
- im:7142300
- mg:bb01h02
- Type
- protein_coding_gene
- Location
- Chr: 13 Mapping Details/Browsers
- Description
- Predicted to enable calcium ion binding activity. Predicted to act upstream of or within cell-matrix adhesion. Predicted to be located in basement membrane and extracellular region. Is expressed in several structures, including digestive system; myoseptum; nervous system; optic fissure; and swim bladder. Orthologous to human NID1 (nidogen 1).
- Genome Resources
- Note
- None
- Comparative Information
-
- All Expression Data
- 8 figures from 4 publications
- Cross-Species Comparison
- High Throughput Data
- Thisse Expression Data
- No data available
Wild Type Expression Summary
Phenotype Summary
Mutations
| Allele | Type | Localization | Consequence | Mutagen | Supplier |
|---|---|---|---|---|---|
| la018705Tg | Transgenic insertion | Unknown | Unknown | DNA | |
| la018706Tg | Transgenic insertion | Unknown | Unknown | DNA | |
| sa8991 | Allele with one point mutation | Unknown | Splice Site | ENU | |
| sa15334 | Allele with one point mutation | Unknown | Splice Site | ENU | |
| sa35599 | Allele with one point mutation | Unknown | Premature Stop | ENU | |
| sa45501 | Allele with one point mutation | Unknown | Premature Stop | ENU | |
| zju115 | Allele with one deletion | Unknown | Frameshift, Premature Stop | CRISPR | |
| zju125 | Allele with one deletion | Exon 1 | Start Loss | CRISPR |
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| Targeting Reagent | Created Alleles | Citations |
|---|---|---|
| CRISPR1-nid1a | Zhu et al., 2017 | |
| CRISPR2-nid1a | Ma et al., 2019 | |
| CRISPR3-nid1a | Bryan et al., 2020 | |
| MO1-nid1a | N/A | Zhu et al., 2017 |
| MO2-nid1a | N/A | (3) |
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Human Disease
Domain, Family, and Site Summary
Domain Details Per Protein
| Protein | Length | Complement Clr-like EGF domain | Cueball/EGF/LRP/Nidogen | EGF domain | EGF-like calcium-binding, conserved site | EGF-like calcium-binding domain | EGF-like domain | EGF-type aspartate/asparagine hydroxylation site | G2 nidogen/fibulin G2F | Green fluorescent protein | LDLR class B repeat | NIDO domain | NOTCH1 EGF-like calcium-binding domain | Six-bladed beta-propeller, TolB-like | Thyroglobulin type-1 | Thyroglobulin type-1 superfamily |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
UniProtKB:A0A8M9PN19
|
257 | |||||||||||||||
|
UniProtKB:F1RAG3
|
1175 |
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Interactions and Pathways
No data available
Plasmids
No data available
| Construct | Regulatory Region | Coding Sequence | Species | Tg Lines | Citations |
|---|---|---|---|---|---|
| Tg1(Cca.Actb:mCherry-nid1a-capn3a) |
| 1 | Ma et al., 2019 | ||
| Tg2(Cca.Actb:mCherry-nid1a-capn3a) |
| 1 | Ma et al., 2019 | ||
| Tg3(Cca.Actb:mCherry-nid1a-capn3a) |
| 1 | Ma et al., 2019 | ||
| Tg4(Cca.Actb:mCherry-nid1a-capn3a) |
| 1 | Ma et al., 2019 | ||
| Tg5(Cca.Actb:mCherry-nid1a-capn3a) |
| 1 | Ma et al., 2019 | ||
| Tg6(Cca.Actb:mCherry-nid1a-capn3a) |
| 1 | Ma et al., 2019 | ||
| Tg(hsp70l:LY-mCherry-2A-dnnid1a) |
| 1 | Bryan et al., 2020 | ||
| Tg(hsp70l:LY-mCherry-2A-nid1a) |
| 1 | Bryan et al., 2020 |
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| Relationship | Marker Type | Marker | Accession Numbers | Citations |
|---|---|---|---|---|
| Contained in | BAC | CH73-344P5 | ZFIN Curated Data | |
| Contained in | BAC | CH211-30I2 | ZFIN Curated Data | |
| Encodes | EST | bb01h02 | ||
| Encodes | EST | IMAGE:7055206 | ||
| Encodes | EST | IMAGE:7142300 | Thisse et al., 2004 |
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| Type | Accession # | Sequence | Length (nt/aa) | Analysis |
|---|---|---|---|---|
| RNA | RefSeq:XM_686064 (1) | 3936 nt | ||
| Genomic | GenBank:AL928828 (2) | 169046 nt | ||
| Polypeptide | UniProtKB:F1RAG3 (1) | 1175 aa |
- Kolb, J., Tsata, V., John, N., Kim, K., Möckel, C., Rosso, G., Kurbel, V., Parmar, A., Sharma, G., Karandasheva, K., Abuhattum, S., Lyraki, O., Beck, T., Müller, P., Schlüßler, R., Frischknecht, R., Wehner, A., Krombholz, N., Steigenberger, B., Beis, D., Takeoka, A., Blümcke, I., Möllmert, S., Singh, K., Guck, J., Kobow, K., Wehner, D. (2023) Small leucine-rich proteoglycans inhibit CNS regeneration by modifying the structural and mechanical properties of the lesion environment. Nature communications. 14:68146814
- Soans, K.G., Ramos, A.P., Sidhaye, J., Krishna, A., Solomatina, A., Hoffmann, K.B., Schlüßler, R., Guck, J., Sbalzarini, I.F., Modes, C.D., Norden, C. (2022) Collective cell migration during optic cup formation features changing cell-matrix interactions linked to matrix topology. Current biology : CB. 32(22):4817-4831.e9
- Bryan, C.D., Casey, M.A., Pfeiffer, R.L., Jones, B.W., Kwan, K.M. (2020) Optic cup morphogenesis requires neural crest-mediated basement membrane assembly. Development (Cambridge, England). 147(4):
- Mukherjee, D., Wagh, G., Mokalled, M.H., Kontarakis, Z., Dickson, A.L., Rayrikar, A., Günther, S., Poss, K.D., Stainier, D.Y.R., Patra, C. (2020) Ccn2a/Ctgfa is an injury-induced matricellular factor that promotes cardiac regeneration in zebrafish. Development (Cambridge, England). 148(2):
- Giffen, K.P., Liu, H., Kramer, K.L., He, D.Z. (2019) Expression of Protein-Coding Gene Orthologs in Zebrafish and Mouse Inner Ear Non-sensory Supporting Cells. Frontiers in neuroscience. 13:1117
- Ma, Z., Zhu, P., Shi, H., Guo, L., Zhang, Q., Chen, Y., Chen, S., Zhang, Z., Peng, J., Chen, J. (2019) PTC-bearing mRNA elicits a genetic compensation response via Upf3a and COMPASS components. Nature. 568(7751):259-263
- Nicholas, C., Weaver, M., Piedade, W.P., Vocking, O., Famulski, J.K. (2019) Temporal characterization of optic fissure basement membrane composition suggests nidogen may be an initial target of remodeling. Developmental Biology. 452(1):43-54
- Tai, Z., Guan, P., Wang, Z., Li, L., Zhang, T., Li, G., Liu, J.X. (2019) Common responses of fish embryos to metals: an integrated analysis of transcriptomes and methylomes in zebrafish embryos under the stress of copper ions or silver nanoparticles. Metallomics : integrated biometal science. 11(9):1452-1464
- Xue, Y., Liu, D., Cui, G., Ding, Y., Ai, D., Gao, S., Zhang, Y., Suo, S., Wang, X., Lv, P., Zhou, C., Li, Y., Chen, X., Peng, G., Jing, N., Han, J.J., Liu, F. (2019) A 3D Atlas of Hematopoietic Stem and Progenitor Cell Expansion by Multi-dimensional RNA-Seq Analysis. Cell Reports. 27:1567-1578.e5
- Zhu, P., Ma, Z., Guo, L., Zhang, W., Zhang, Q., Zhao, T., Jiang, K., Peng, J., Chen, J. (2017) Short body length phenotype is compensated by the upregulation of nidogen family members in a deleterious nid1a mutation of zebrafish. Journal of genetics and genomics = Yi chuan xue bao. 44(11):553-556
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