Gene
ptprfa
- ID
- ZDB-GENE-020107-2
- Name
- protein tyrosine phosphatase receptor type Fa
- Symbol
- ptprfa Nomenclature History
- Previous Names
- Type
- protein_coding_gene
- Location
- Chr: 6 Mapping Details/Browsers
- Description
- Predicted to enable protein tyrosine phosphatase activity. Acts upstream of or within sensory neuron axon guidance. Predicted to be located in membrane. Is expressed in nervous system; pectoral fin; pharyngeal arch; and somite. Human ortholog(s) of this gene implicated in hyperinsulinism. Orthologous to human PTPRF (protein tyrosine phosphatase receptor type F).
- Genome Resources
- Note
- None
- Comparative Information
-
- All Expression Data
- 3 figures from 2 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 |
|---|---|---|---|---|---|
| a316 | Allele with multiple variants | Unknown | Unknown | CRISPR | |
| la025484Tg | Transgenic insertion | Unknown | Unknown | DNA | |
| la025487Tg | Transgenic insertion | Unknown | Unknown | DNA | |
| sa10718 | Allele with one point mutation | Unknown | Premature Stop | ENU | |
| sa10963 | Allele with one point mutation | Unknown | Premature Stop | ENU | |
| sa18650 | Allele with one point mutation | Unknown | Splice Site | ENU | |
| sa20608 | Allele with one point mutation | Unknown | Premature Stop | ENU | |
| sa20609 | Allele with one point mutation | Unknown | Splice Site | ENU | |
| uab406 | Allele with one deletion | Unknown | Unknown | CRISPR |
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| Targeting Reagent | Created Alleles | Citations |
|---|---|---|
| CRISPR1-ptprfa | Thyme et al., 2019 | |
| CRISPR2-ptprfa | Thyme et al., 2019 | |
| CRISPR3-ptprfa | Thyme et al., 2019 | |
| CRISPR4-ptprfa | Thyme et al., 2019 | |
| CRISPR5-ptprfa | Thyme et al., 2019 | |
| MO1-ptprfa | N/A | (2) |
| MO2-ptprfa | N/A | Wang et al., 2012 |
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Human Disease
| Disease Ontology Term | Multi-Species Data | OMIM Term | OMIM Phenotype ID |
|---|---|---|---|
| ?Breasts and/or nipples, aplasia or hypoplasia of, 2 | 616001 |
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Domain, Family, and Site Summary
| Type | InterPro ID | Name |
|---|---|---|
| Active_site | IPR016130 | Protein-tyrosine phosphatase, active site |
| Domain | IPR000242 | Tyrosine-specific protein phosphatase, PTPase domain |
| Domain | IPR000387 | Tyrosine-specific protein phosphatases domain |
| Domain | IPR003595 | Protein-tyrosine phosphatase, catalytic |
| Domain | IPR003598 | Immunoglobulin subtype 2 |
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Domain Details Per Protein
| Protein | Additional Resources | Length | Fibronectin type III | Fibronectin type III superfamily | Immunoglobulin domain subtype | Immunoglobulin I-set | Immunoglobulin-like domain | Immunoglobulin-like domain superfamily | Immunoglobulin-like fold | Immunoglobulin subtype 2 | Protein-tyrosine phosphatase, active site | Protein-tyrosine phosphatase, catalytic | Protein-tyrosine phosphatase-like | Receptor-type Tyrosine-protein Phosphatases/Ushers | Tyrosine-specific protein phosphatase, PTPase domain | Tyrosine-specific protein phosphatases domain |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| UniProtKB:A0A8M9PLU1 | InterPro | 1903 | ||||||||||||||
| UniProtKB:A0A8M9PZG0 | InterPro | 1802 | ||||||||||||||
| UniProtKB:A0A8M9QF59 | InterPro | 1908 | ||||||||||||||
| UniProtKB:A0A8M9PZF5 | InterPro | 1816 | ||||||||||||||
| UniProtKB:A0A8M9QA39 | InterPro | 1918 |
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| Type | Name | Annotation Method | Has Havana Data | Length (nt) | Analysis |
|---|---|---|---|---|---|
| mRNA |
ptprfa-202
(1)
|
Ensembl | 4,041 nt | ||
| mRNA |
ptprfa-203
(1)
|
Ensembl | 8,712 nt | ||
| mRNA |
ptprfa-204
(1)
|
Ensembl | 5,988 nt | ||
| mRNA |
ptprfa-205
(1)
|
Ensembl | 5,682 nt | ||
| mRNA |
ptprfa-206
(1)
|
Ensembl | 8,750 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 | CH211-215F22 | ZFIN Curated Data | |
| Contained in | BAC | CH211-236E24 | ZFIN Curated Data |
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| Type | Accession # | Sequence | Length (nt/aa) | Analysis |
|---|---|---|---|---|
| RNA | RefSeq:NM_001311348 (1) | 5992 nt | ||
| Genomic | GenBank:BX119315 (2) | 210930 nt | ||
| Polypeptide | UniProtKB:A0A8M9QA39 (1) | 1918 aa |
- Thyme, S.B., Pieper, L.M., Li, E.H., Pandey, S., Wang, Y., Morris, N.S., Sha, C., Choi, J.W., Herrera, K.J., Soucy, E.R., Zimmerman, S., Randlett, O., Greenwood, J., McCarroll, S.A., Schier, A.F. (2019) Phenotypic Landscape of Schizophrenia-Associated Genes Defines Candidates and Their Shared Functions. Cell. 177(2):478-491.e20
- Bayés, À., Collins, M.O., Reig-Viader, R., Gou, G., Goulding, D., Izquierdo, A., Choudhary, J.S., Emes, R.D., Grant, S.G. (2017) Evolution of complexity in the zebrafish synapse proteome. Nature communications. 8:14613
- Tu, H., Peng, T., Liu, J., Chen, X., Fan, C., Huang, Z., Zhang, Y., Zou, F., Meng, X. (2017) Role of neurexin2a in lead-induced locomotor defect in developing zebrafish. Aquatic toxicology (Amsterdam, Netherlands). 194:167-175
- Wu, W., Hale, A.J., Lemeer, S., den Hertog, J. (2017) Differential oxidation of protein-tyrosine phosphatases during zebrafish caudal fin regeneration. Scientific Reports. 7:8460
- Petit, D., Teppa, E., Mir, A., Vicogne, D., Thisse, C., Thisse, B., Filloux, C., Harduin-Lepers, A. (2015) Integrative view of α2,3-sialyltransferases (ST3Gal) molecular and functional evolution in deuterostomes: significance of lineage specific losses. Mol. Biol. Evol.. 32(4):906-27
- Marchesi, S., Montani, F., Deflorian, G., D'Antuono, R., Cuomo, A., Bologna, S., Mazzoccoli, C., Bonaldi, T., Di Fiore, P.P., Nicassio, F. (2014) DEPDC1B Coordinates De-adhesion Events and Cell-Cycle Progression at Mitosis. Developmental Cell. 31:420-433
- Overman, J.P., and den Hertog, J. (2014) Zebrafish as a model to study PTPs during development. Methods (San Diego, Calif.). 65(2):247-53
- 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
- Wang, F., Wolfson, S.N., Gharib, A., and Sagasti, A. (2012) LAR Receptor Tyrosine Phosphatases and HSPGs Guide Peripheral Sensory Axons to the Skin. Current biology : CB. 22(5):373-382
- Hufton, A.L., Mathia, S., Braun, H., Georgi, U., Lehrach, H., Vingron, M., Poustka, A.J., and Panopoulou, G. (2009) Deeply conserved chordate non-coding sequences preserve genome synteny but do not drive gene duplicate retention. Genome research. 19(11):2036-2051
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