Gene
pabpc1b
- ID
- ZDB-GENE-050308-1
- Name
- poly A binding protein, cytoplasmic 1 b
- Symbol
- pabpc1b Nomenclature History
- Previous Names
- None
- Type
- protein_coding_gene
- Location
- Chr: 19 Mapping Details/Browsers
- Description
- Predicted to enable RNA binding activity. Predicted to act upstream of or within mRNA processing. Predicted to be located in cytoplasm. Is expressed in several structures, including alar plate midbrain region; nervous system; notochord; pronephric duct; and yolk syncytial layer. Orthologous to human PABPC1 (poly(A) binding protein cytoplasmic 1).
- Genome Resources
- Note
- None
- Comparative Information
-
- All Expression Data
- 8 figures from 2 publications
- Cross-Species Comparison
- High Throughput Data
- Thisse Expression Data
-
- MGC:73346 (22 images)
Wild Type Expression Summary
- All Phenotype Data
- No data available
- Cross-Species Comparison
- Alliance
Phenotype Summary
Mutations
| Allele | Type | Localization | Consequence | Mutagen | Supplier |
|---|---|---|---|---|---|
| la027993Tg | Transgenic insertion | Unknown | Unknown | DNA | |
| sa818 | Allele with one point mutation | Unknown | Premature Stop | ENU | |
| sa6549 | Allele with one point mutation | Unknown | Splice Site | ENU |
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Human Disease
Domain, Family, and Site Summary
| Type | InterPro ID | Name |
|---|---|---|
| Domain | IPR000504 | RNA recognition motif domain |
| Domain | IPR034364 | PABP, RNA recognition motif 1 |
| Domain | IPR045305 | PABP, RNA recognition motif 2 |
| Family | IPR006515 | Polyadenylate binding protein, human types 1, 2, 3, 4 |
| Homologous_superfamily | IPR012677 | Nucleotide-binding alpha-beta plait domain superfamily |
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Domain Details Per Protein
| Protein | Additional Resources | Length | Nucleotide-binding alpha-beta plait domain superfamily | PABC (PABP) domain | PABP, RNA recognition motif 1 | PABP, RNA recognition motif 2 | Polyadenylate binding protein, human types 1, 2, 3, 4 | RNA-binding domain superfamily | RNA recognition motif domain |
|---|---|---|---|---|---|---|---|---|---|
| UniProtKB:A0A8M9PRE3 | InterPro | 480 | |||||||
| UniProtKB:Q6P3L1 | InterPro | 634 |
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| Type | Name | Annotation Method | Has Havana Data | Length (nt) | Analysis |
|---|---|---|---|---|---|
| aberrant processed transcript |
pabpc1b-204
(1)
|
Ensembl | 1,062 nt | ||
| mRNA |
pabpc1b-201
(1)
|
Ensembl | 2,804 nt | ||
| mRNA |
pabpc1b-203
(1)
|
Ensembl | 742 nt | ||
| ncRNA |
pabpc1b-003
(1)
|
Ensembl | 529 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 | CH73-132A21 | ZFIN Curated Data | |
| Contained in | BAC | CH73-378F14 | ZFIN Curated Data | |
| Encodes | cDNA | MGC:73346 | ZFIN Curated Data | |
| Encodes | cDNA | MGC:77608 | ZFIN Curated Data |
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| Type | Accession # | Sequence | Length (nt/aa) | Analysis |
|---|---|---|---|---|
| RNA | RefSeq:NM_200882 (1) | 2794 nt | ||
| Genomic | GenBank:CU468824 (2) | 64040 nt | ||
| Polypeptide | UniProtKB:Q6P3L1 (1) | 634 aa |
No data available
- Heng, J., Shi, B., Zhou, J.Y., Zhang, Y., Ma, D., Yang, Y.G., Liu, F. (2023) Cpeb1b-mediated cytoplasmic polyadenylation of shha mRNA modulates zebrafish definitive hematopoiesis. Proceedings of the National Academy of Sciences of the United States of America. 120:e2212212120e2212212120
- Fouchécourt, S., Picolo, F., Elis, S., Lécureuil, C., Thélie, A., Govoroun, M., Brégeon, M., Papillier, P., Lareyre, J.J., Monget, P. (2019) An evolutionary approach to recover genes predominantly expressed in the testes of the zebrafish, chicken and mouse. BMC Evolutionary Biology. 19:137
- 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
- Hosono, Y., Niknafs, Y.S., Prensner, J.R., Iyer, M.K., Dhanasekaran, S.M., Mehra, R., Pitchiaya, S., Tien, J., Escara-Wilke, J., Poliakov, A., Chu, S.C., Saleh, S., Sankar, K., Su, F., Guo, S., Qiao, Y., Freier, S.M., Bui, H.H., Cao, X., Malik, R., Johnson, T.M., Beer, D.G., Feng, F.Y., Zhou, W., Chinnaiyan, A.M. (2017) Oncogenic Role of THOR, a Conserved Cancer/Testis Long Non-coding RNA. Cell. 171:1559-1572.e20
- Braasch, I., Gehrke, A.R., Smith, J.J., Kawasaki, K., Manousaki, T., Pasquier, J., Amores, A., Desvignes, T., Batzel, P., Catchen, J., Berlin, A.M., Campbell, M.S., Barrell, D., Martin, K.J., Mulley, J.F., Ravi, V., Lee, A.P., Nakamura, T., Chalopin, D., Fan, S., Wcisel, D., Cañestro, C., Sydes, J., Beaudry, F.E., Sun, Y., Hertel, J., Beam, M.J., Fasold, M., Ishiyama, M., Johnson, J., Kehr, S., Lara, M., Letaw, J.H., Litman, G.W., Litman, R.T., Mikami, M., Ota, T., Saha, N.R., Williams, L., Stadler, P.F., Wang, H., Taylor, J.S., Fontenot, Q., Ferrara, A., Searle, S.M., Aken, B., Yandell, M., Schneider, I., Yoder, J.A., Volff, J.N., Meyer, A., Amemiya, C.T., Venkatesh, B., Holland, P.W., Guiguen, Y., Bobe, J., Shubin, N.H., Di Palma, F., Alföldi, J., Lindblad-Toh, K., Postlethwait, J.H. (2016) The spotted gar genome illuminates vertebrate evolution and facilitates human-teleost comparisons. Nature Genetics. 48(4):427-37
- 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
- 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
- Mishima, Y., Fukao, A., Kishimoto, T., Sakamoto, H., Fujiwara, T., and Inoue, K. (2012) Translational inhibition by deadenylation-independent mechanisms is central to microRNA-mediated silencing in zebrafish. Proceedings of the National Academy of Sciences of the United States of America. 109(4):1104-1109
- Braasch, I., Brunet, F., Volff, J.N., and Schartl, M. (2009) Pigmentation pathway evolution after whole-genome duplication in fish. Genome biology and evolution. 1:479-493
- Kassahn, K.S., Dang, V.T., Wilkins, S.J., Perkins, A.C., and Ragan, M.A. (2009) Evolution of gene function and regulatory control after whole-genome duplication: Comparative analyses in vertebrates. Genome research. 19(8):1404-1418
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