Gene
col27a1b
- ID
- ZDB-GENE-100119-2
- Name
- collagen, type XXVII, alpha 1b
- Symbol
- col27a1b Nomenclature History
- Previous Names
-
- si:ch211-233f10.5
- Type
- protein_coding_gene
- Location
- Chr: 5 Mapping Details/Browsers
- Description
- Predicted to be an extracellular matrix structural constituent. Acts upstream of or within bone mineralization; notochord morphogenesis; and skeletal system development. Predicted to be located in extracellular region. Predicted to be part of collagen trimer. Predicted to be active in extracellular matrix and extracellular space. Is expressed in cranial cartilage; notochord; and notochord posterior region. Orthologous to human COL27A1 (collagen type XXVII alpha 1 chain).
- Genome Resources
- Note
- None
- Comparative Information
-
- All Expression Data
- 5 figures from 3 publications
- Cross-Species Comparison
- High Throughput Data
- Thisse Expression Data
- No data available
Wild Type Expression Summary
- All Phenotype Data
- No data available
- Cross-Species Comparison
- Alliance
Phenotype Summary
Mutations
| Allele | Type | Localization | Consequence | Mutagen | Supplier |
|---|---|---|---|---|---|
| la029149Tg | Transgenic insertion | Unknown | Unknown | DNA | |
| sa9794 | Allele with one point mutation | Unknown | Splice Site | ENU | |
| sa14233 | Allele with one point mutation | Unknown | Splice Site | ENU | |
| sa31484 | Allele with one point mutation | Unknown | Splice Site | ENU |
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| Targeting Reagent | Created Alleles | Citations |
|---|---|---|
| MO1-col27a1b | N/A | Christiansen et al., 2009 |
| MO2-col27a1b | 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 | IPR048287 | Thrombospondin-like, N-terminal domain |
| Family | IPR050149 | Collagen superfamily |
| Homologous_superfamily | IPR013320 | Concanavalin A-like lectin/glucanase domain superfamily |
| Repeat | IPR008160 | Collagen triple helix repeat |
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Domain Details Per Protein
| Protein | Length | Collagen superfamily | Collagen triple helix repeat | Concanavalin A-like lectin/glucanase domain superfamily | Fibrillar collagen, C-terminal | Thrombospondin-like, N-terminal domain |
|---|---|---|---|---|---|---|
|
UniProtKB:A0MSJ1
|
1658 | |||||
|
UniProtKB:A0A8M9Q8Q7
|
883 | |||||
|
UniProtKB:A0A8M6Z0M4
|
1258 |
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| Type | Name | Annotation Method | Has Havana Data | Length (nt) | Analysis |
|---|---|---|---|---|---|
| mRNA |
col27a1b-201
(1)
|
Ensembl | 3,993 nt | ||
| mRNA |
col27a1b-202
(1)
|
Ensembl | 3,251 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 | CH211-233F10 | ZFIN Curated Data | |
| Contained in | BAC | DKEY-236E8 | ZFIN Curated Data |
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| Type | Accession # | Sequence | Length (nt/aa) | Analysis |
|---|---|---|---|---|
| RNA | RefSeq:NM_001080575 (1) | 4977 nt | ||
| Genomic | GenBank:BX088597 (1) | 172098 nt | ||
| Polypeptide | UniProtKB:A0MSJ1 (1) | 1658 aa |
- 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
- 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
- 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
- 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
- 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
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