Distribution of genes and pseudogenes on chromosomes 21 and 22 into GO functional categories. For each table within the figure, the total is split up into the number for chromosome 21 plus number for chromosome 22 and is sorted in decreasing order of this total. Each GO functional category is given a different color. The table at top leftlists the top five GO functional categories for genes. The table at topright lists the top five GO categories for pseudogenes (processed and nonprocessed combined). This is split up into processed and nonprocessed; processed pseudogenes are further divided into ancient and modern sets, as described in the text. The number of immunoglobulin pseudogenic fragments is lumped in with the nonprocessed population. The GO functional categories in the figure are as follows (with GO numbers): (1) “Transcription factor,” GO:0003700. For processed and nonprocessed pseudogenes these all arise from zinc finger C2H2 type. (2) “Other DNA-binding,” all DNA-binding (GO:0003677) except “Transcription factor.” The proteins found for processed pseudogenes in this class are as follows: (IPR000910) HMG1/2 (high mobility group) box; (IPR000210) BTB/POZ domain; (IPR000637) HMG-I and HMG-Y DNA-binding domain (A + T-hook); (IPR002119) Histone H2A; (IPR000079) High mobility group proteins HMG14 and HMG17; (IPR001514) RNA polymerases D/30 to 40 Kd subunits; and (IPR001005) Myb DNA binding domain. (3) “Nucleotide-binding,” GO:0000166. (4) “Nucleic-acid binding,” GO:0003676 (this class arises from motifs or domains that cannot be classified specifically as “DNA-binding” or “RNA-binding”). (5) “Kinase,” GO:0016301. (6) “Ribosomal protein,” GO:0003735. (7) “Receptor,” GO:0004930. (8) “Transferase,” GO:0016740. (9) “RNA binding,” GO:0003723. The proteins found for processed pseudogenes in this class are as follows: (IPR001014) Ribosomal L23 protein (also classed as ribosomal protein); (IPR001410) DEAD/DEAH box helicase; (IPR002942) S4 domain; (IPR001892) Ribosomal protein S13 (twice, also classed as ribosomal protein). The protein found for nonprocessed pseudogenes in this class is: (IPR001965) PHD finger. (10) “Oxidoreductase,” GO:0016491. (11) “Cell cycle regulator,” GO:0003750.
