Gene
pdcd11
- ID
- ZDB-GENE-030131-4076
- Name
- programmed cell death 11
- Symbol
- pdcd11 Nomenclature History
- Previous Names
-
- cb680 (1)
- im:7148359
- sb:cb680
- wu:fc68c10
- Type
- protein_coding_gene
- Location
- Chr: 1 Mapping Details/Browsers
- Description
- Predicted to enable RNA binding activity. Predicted to be part of small-subunit processome. Predicted to be active in nucleolus. Is expressed in several structures, including alar plate midbrain region; head; midbrain; musculature system; and segmental plate. Orthologous to human PDCD11 (programmed cell death 11).
- Genome Resources
- Note
- None
- Comparative Information
-
- All Expression Data
- 15 figures from 3 publications
- Cross-Species Comparison
- High Throughput Data
- Thisse Expression Data
-
- cb680 (18 images)
- IMAGE:7148359 (11 images)
Wild Type Expression Summary
- All Phenotype Data
- 4 figures from Yang et al., 2020
- Cross-Species Comparison
- Alliance
Phenotype Summary
Mutations
Allele | Type | Localization | Consequence | Mutagen | Supplier |
---|---|---|---|---|---|
la013704Tg | Transgenic insertion | Unknown | Unknown | DNA | |
la028176Tg | Transgenic insertion | Unknown | Unknown | DNA | |
sa8601 | Allele with one point mutation | Unknown | Splice Site | ENU | |
sa9850 | Allele with one point mutation | Unknown | Splice Site | ENU | |
sa10691 | Allele with one point mutation | Unknown | Premature Stop | ENU | |
sa18706 | Allele with one point mutation | Unknown | Splice Site | ENU | |
zf3478 | Allele with one deletion | Exon 4 | Unknown | CRISPR |
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Human Disease
Domain, Family, and Site Summary
Domain Details Per Protein
Protein | Additional Resources | Length | HAT (Half-A-TPR) repeat | Nucleic acid-binding, OB-fold | Pentatricopeptide repeat | rRNA biogenesis protein Rrp5 | rRNA biogenesis protein RRP5, S1 domain, eleventh repeat | rRNA biogenesis protein RRP5, S1 domain, first repeat | S1 domain | Suppressor of forked | Tetratricopeptide-like helical domain superfamily |
---|---|---|---|---|---|---|---|---|---|---|---|
UniProtKB:A0A8M1NCQ8 | InterPro | 1816 | |||||||||
UniProtKB:A0A8M2B6U9 | InterPro | 1815 | |||||||||
UniProtKB:Q502F4 | InterPro | 409 | |||||||||
UniProtKB:Q1ED11 | InterPro | 1431 | |||||||||
UniProtKB:A0AB32TUD9 | InterPro | 1816 |
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Type | Name | Annotation Method | Has Havana Data | Length (nt) | Analysis |
---|---|---|---|---|---|
mRNA |
pdcd11-202
(1)
|
Ensembl | 5,793 nt | ||
ncRNA |
pdcd11-002
(1)
|
Ensembl | 851 nt |
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Interactions and Pathways
No data available
Name | Type | Antigen Genes | Isotype | Host Organism | Assay | Source | Citations |
---|---|---|---|---|---|---|---|
Ab1-pdcd11 | polyclonal | Rabbit |
|
Millipore
|
2 |
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Plasmids
No data available
No data available
Relationship | Marker Type | Marker | Accession Numbers | Citations |
---|---|---|---|---|
Contained in | BAC | DKEYP-80C12 | ZFIN Curated Data | |
Encodes | EST | cb680 | Thisse et al., 2001 | |
Encodes | EST | fc68c10 | ||
Encodes | EST | IMAGE:7148359 | Thisse et al., 2004 | |
Encodes | EST | wz2288 | ||
Encodes | cDNA | MGC:162501 | ZFIN Curated Data |
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Type | Accession # | Sequence | Length (nt/aa) | Analysis |
---|---|---|---|---|
RNA | RefSeq:NM_001089368 (1) | 5796 nt | ||
Genomic | GenBank:CR812943 (1) | 225846 nt | ||
Polypeptide | UniProtKB:A0A8M1NCQ8 (1) | 1816 aa |
Species | Symbol | Chromosome | Accession # | Evidence |
---|---|---|---|---|
Human | PDCD11 | 10 | Nucleotide sequence comparison (1) |
- Yang, R., Zhan, M., Guo, M., Yuan, H., Wang, Y., Zhang, Y., Zhang, W., Chen, S., de The, H., Chen, Z., Zhou, J., Zhu, J. (2020) Yolk sac-derived Pdcd11-positive cells modulate zebrafish microglia differentiation through the NF-κB-Tgfβ1 pathway. Cell death and differentiation. 28(1):170-183
- Huang, C.X., Chen, N., Wu, X.J., He, Y., Huang, C.H., Liu, H., Wang, W.M., Wang, H.L. (2017) Zebrafish let-7b acts downstream of hypoxia-inducible factor-1α to assist in hypoxia-mediated cell proliferation and cell cycle regulation. Life sciences. 171:21-29
- 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
- Recher, G., Jouralet, J., Brombin, A., Heuzé, A., Mugniery, E., Hermel, J.M., Desnoulez, S., Savy, T., Herbomel, P., Bourrat, F., Peyriéras, N., Jamen, F., and Joly, J.S. (2013) Zebrafish midbrain slow-amplifying progenitors exhibit high levels of transcripts for nucleotide and ribosome biogenesis. Development (Cambridge, England). 140(24):4860-9
- 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
- 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
- Woods, I.G., Wilson, C., Friedlander, B., Chang, P., Reyes, D.K., Nix, R., Kelly, P.D., Chu, F., Postlethwait, J.H., and Talbot, W.S. (2005) The zebrafish gene map defines ancestral vertebrate chromosomes. Genome research. 15(9):1307-1314
- Strausberg,R.L., Feingold,E.A., Grouse,L.H., Derge,J.G., Klausner,R.D., Collins,F.S., Wagner,L., Shenmen,C.M., Schuler,G.D., Altschul,S.F., Zeeberg,B., Buetow,K.H., Schaefer,C.F., Bhat,N.K., Hopkins,R.F., Jordan,H., Moore,T., Max,S.I., Wang,J., Hsieh,F., Diatchenko,L., Marusina,K., Farmer,A.A., Rubin,G.M., Hong,L., Stapleton,M., Soares,M.B., Bonaldo,M.F., Casavant,T.L., Scheetz,T.E., Brownstein,M.J., Usdin,T.B., Toshiyuki,S., Carninci,P., Prange,C., Raha,S.S., Loquellano,N.A., Peters,G.J., Abramson,R.D., Mullahy,S.J., Bosak,S.A., McEwan,P.J., McKernan,K.J., Malek,J.A., Gunaratne,P.H., Richards,S., Worley,K.C., Hale,S., Garcia,A.M., Gay,L.J., Hulyk,S.W., Villalon,D.K., Muzny,D.M., Sodergren,E.J., Lu,X., Gibbs,R.A., Fahey,J., Helton,E., Ketteman,M., Madan,A., Rodrigues,S., Sanchez,A., Whiting,M., Madan,A., Young,A.C., Shevchenko,Y., Bouffard,G.G., Blakesley,R.W., Touchman,J.W., Green,E.D., Dickson,M.C., Rodriguez,A.C., Grimwood,J., Schmutz,J., Myers,R.M., Butterfield,Y.S., Krzywinski,M.I., Skalska,U., Smailus,D.E., Schnerch,A., Schein,J.E., Jones,S.J., and Marra,M.A. (2002) Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Proceedings of the National Academy of Sciences of the United States of America. 99(26):16899-903
- Geisler, R., Rauch, G.J., Baier, H., van Bebber, F., Brobeta, L., Dekens, M.P., Finger, K., Fricke, C., Gates, M.A., Geiger, H., Geiger-Rudolph, S., Gilmour, D., Glaser, S., Gnugge, L., Habeck, H., Hingst, K., Holley, S., Keenan, J., Kirn, A., Knaut, H., Lashkari, D., Maderspacher, F., Martyn, U., Neuhauss, S., Neumann, C., Nicolson, T., Pelegri, F., Ray, R., Rick, J.M., Roehl, H., Roeser, T., Schauerte, H.E., Schier, A.F., Schönberger, U., Schönthaler, H.-B., Schulte-Merker, S., Seydler, C., Talbot, W.S., Weiler, C., Nüsslein-Volhard, C., and Haffter, P. (1999) A radiation hybrid map of the zebrafish genome. Nature Genetics. 23(1):86-89
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