ZFIN is now using GRCz12tu for Genomic Data
Gene
col27a1a
- ID
- ZDB-GENE-100119-1
- Name
- collagen, type XXVII, alpha 1a
- Symbol
- col27a1a Nomenclature History
- Previous Names
-
- cb221 (1)
- sb:cb221
- Type
- protein_coding_gene
- Location
- Ambiguous Mapping Details/Browsers
- Genome Assembly
- GRCz12tu
- Annotation Status
- Current
- Description
- Predicted to be an extracellular matrix structural constituent conferring tensile strength. Acts upstream of or within bone mineralization; notochord morphogenesis; and skeletal system development. Predicted to be active in extracellular matrix. Is expressed in several structures, including hypochord; mesoderm; periderm; pronephric duct; and skeletal system. Orthologous to human COL27A1 (collagen type XXVII alpha 1 chain).
- Genome Resources
-
- Alliance (1)
- Gene:100004688 (1)
- Note
- None
- Comparative Information
-
- All Expression Data
- 14 figures from 7 publications
- Cross-Species Comparison
- High Throughput Data
- Thisse Expression Data
-
- cb221 (11 images)
Wild Type Expression Summary
- All Phenotype Data
- 3 figures from Christiansen et al., 2009
- Cross-Species Comparison
- Alliance
Phenotype Summary
Mutations
| Allele | Type | Localization | Consequence | Mutagen | Supplier |
|---|---|---|---|---|---|
| la019844Tg | Transgenic insertion | Unknown | Unknown | DNA | |
| la019845Tg | Transgenic insertion | Unknown | Unknown | DNA | |
| la027783Tg | Transgenic insertion | Unknown | Unknown | DNA |
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| Targeting Reagent | Created Alleles | Citations |
|---|---|---|
| MO1-col27a1a | N/A | Christiansen et al., 2009 |
| MO2-col27a1a | N/A | Christiansen et al., 2009 |
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Human Disease
| Disease Ontology Term | Multi-Species Data | OMIM Term | OMIM Phenotype ID |
|---|---|---|---|
| Steel syndrome | 615155 |
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Domain, Family, and Site Summary
| Type | InterPro ID | Name |
|---|---|---|
| Domain | IPR000885 | Fibrillar collagen, C-terminal |
| Domain | IPR001791 | Laminin G domain |
| Domain | IPR048287 | Thrombospondin-like, N-terminal domain |
| Family | IPR050938 | Collagen and Collagen-like Structural Proteins |
| Homologous_superfamily | IPR013320 | Concanavalin A-like lectin/glucanase domain superfamily |
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Domain Details Per Protein
| Protein | Additional Resources | Length | Collagen and Collagen-like Structural Proteins | Collagen triple helix repeat | Concanavalin A-like lectin/glucanase domain superfamily | Fibrillar collagen, C-terminal | Laminin G domain | Thrombospondin-like, N-terminal domain |
|---|---|---|---|---|---|---|---|---|
| UniProtKB:C7DZK3 | InterPro | 1783 |
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- Genome Browsers
Interactions and Pathways
No data available
Plasmids
No data available
No data available
| Relationship | Marker Type | Marker | Accession Numbers | Citations |
|---|---|---|---|---|
| Encodes | EST | cb221 | Mangos et al., 2010 |
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- Genome Browsers
| Type | Accession # | Genome Assembly | Length (nt/aa) | Analysis |
|---|---|---|---|---|
| RNA | RefSeq:NM_001163294 (1) | 5352 nt | ||
| Genomic | GenBank:JBMGRA010000021 (1) | |||
| Polypeptide | UniProtKB:C7DZK3 (1) | 1783 aa |
- Comparative Orthology
- Alliance
- Bretaud, S., Nauroy, P., Malbouyres, M., Ruggiero, F. (2018) FISHING FOR COLLAGEN FUNCTION: ABOUT DEVELOPMENT, REGENERATION AND DISEASE. Seminars in cell & developmental biology. 89:100-108
- Tsarouchas, T.M., Wehner, D., Cavone, L., Munir, T., Keatinge, M., Lambertus, M., Underhill, A., Barrett, T., Kassapis, E., Ogryzko, N., Feng, Y., van Ham, T.J., Becker, T., Becker, C.G. (2018) Dynamic control of proinflammatory cytokines Il-1β and Tnf-α by macrophages in zebrafish spinal cord regeneration. Nature communications. 9:4670
- Wehner, D., Tsarouchas, T.M., Michael, A., Haase, C., Weidinger, G., Reimer, M.M., Becker, T., Becker, C.G. (2017) Wnt signaling controls pro-regenerative Collagen XII in functional spinal cord regeneration in zebrafish. Nature communications. 8:126
- Xiong, S., Wu, J, Jing, J., Huang, P., Li, Z., Mei, J., Gui, J.F, (2017) Loss of stat3 function leads to spine malformation and immune disorder in zebrafish. Science Bulletin. 62:Pages 185-196
- Duran, I., Csukasi, F., Taylor, S.P., Krakow, D., Becerra, J., Bombarely, A., Marí-Beffa, M. (2015) Collagen duplicate genes of bone and cartilage participate during regeneration of zebrafish fin skeleton. Gene expression patterns : GEP. 19(1-2):60-9
- Samarut, E., Gaudin, C., Hughes, S., Gillet, B., de Bernard, S., Jouve, P.E., Buffat, L., Allot, A., Lecompte, O., Berekelya, L., Rochette-Egly, C., and Laudet, V. (2014) Retinoic acid receptor subtype-specific transcriptotypes in the early zebrafish embryo. Molecular endocrinology (Baltimore, Md.). 28(2):260-272
- Lien, H.W., Yang, C.H., Cheng, C.H., Hung, C.C., Liao, W.H., Hwang, P.P., Han, Y.S., and Huang, C.J. (2013) A Novel Zinc Finger Protein 219-like (ZNF219L) is Involved in the Regulation of Collagen Type 2 Alpha 1a (col2a1a) Gene Expression in Zebrafish Notochord. International journal of biological sciences. 9(9):872-886
- 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
- Mangos, S., Lam, P.Y., Zhao, A., Liu, Y., Mudumana, S., Vasilyev, A., Liu, A., and Drummond, I.A. (2010) The ADPKD genes pkd1a/b and pkd2 regulate extracellular matrix formation. Disease models & mechanisms. 3(5-6):354-365
- Christiansen, H.E., Lang, M.R., Pace, J.M., and Parichy, D.M. (2009) Critical early roles for col27a1a and col27a1b in zebrafish notochord morphogenesis, vertebral mineralization and post-embryonic axial growth. PLoS One. 4(12):e8481
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