Evolutionary Conservation of Genes in the MHC Class III Region
|
Name (HUGO) |
Human ESTs |
Mouse ESTs |
PIP |
FC |
Function (total average PIP = 83.1) |
|---|---|---|---|---|---|
| Similarity found only to mouse/rat or other mammals, 16 genes, average PIP = 70.7 | |||||
| NFKBIL1 | >100 | 30 | 86.4 | T | Inhibitor of Rel family transcription factors? |
| LST1 | 30 | 43 | 48.5 | U* | Unknown, Leukocyte-specific transcript 1 |
| NCR3 | 6 | 0 | — | I | Natural Killer (NK) Receptor |
| APOM | 80 | 74 | 80.5 | U | Apolipoprotein M. Unknown, Trmb domain, Lipid transport? |
| C6orf47 | 10 | 0 | 75.5 | U | Unknown, 2—3 Trmb domains |
| L Y6G5B | 9 | 2 | 58.2 | U* | Ly6 family member |
| LY6G5C | 9 | 0 | 67.3 | U* | Ly6 family member |
| G6F | 1 | 2 | 65.4 | U* | Immunoglobulin gene superfamily member |
| LY6G6E | 0 | 13 | — | U* | Ly6 family member |
| LY6G6D | 2 | 9 | 60.3 | U* | Ly6 family member |
| LY6G6C | 3 | 9 | 84.1 | U* | Ly6 family member |
| C6orf25 | 3 | 9 | 57.9 | U* | Immunoglobulin gene superfamily member |
| C6orf26 | 0 | 4 | 58.7 | U | Unknown |
| CYP21A2 | 14 | 2 | — | O | Cytochrome P450 steroid 21 hydroxylase |
| CREBL1 | >100 | >100 | 88.1 | T | cAMP response element binding protein motif, BRLZ and BZIP motif |
| C6orf9 | 35 | 39 | 88.1 | U* | Unknown, Proline rich, GoLoco motif (Gα/β motif). G protein signaling? |
| Similarity found to fugu fish, 4 genes, average PIP = 80.0 | |||||
| LTA | 6 | 5 | 72.2 | I | Cytokine; role in lymphoid organ development and germinal center formation |
| TNF | 12 | 41 | 78.8 | I | Cytokine; antitumour activity; roles in inflammation of immunomodulation |
| LTB | 38 | 42 | 79.3 | I | Cytokine; anchors LTA to cell membrane |
| BAT2 | >100 | >100 | 89.7 | U | Unknown |
| Similarity found to worm and insects 20 genes, average PIP = 85.1 | |||||
| BAT3 | >100 | >100 | 92.1 | U | Unknown. 2—3 Tmb domains, Ubiquitin motif, CAP motif |
| BAT4 | 71 | 81 | 78.5 | U | Unknown. ANK repeat, G patch motif |
| BAT5 | >100 | >100 | 96.1 | U | Unknown. Signal peptide, Trm domain, α-β hydrolase motif |
| CLIC1 | >100 | >100 | 98.3 | T | Nuclear chloride ion channel protein? Regulation of cell cycle? |
| C6orf27 | 3 | 0 | 78.7 | U | Unknown. Von Willebrand factor type A domain |
| C6orf48 | >100 | 66 | — | U | encode two snRNA genes |
| C6orf46 | 1 | 33 | 90.6 | U | 4 Zn finger, Broad Complex Tramtrack and Bric Brac (BTB) protein—protein interaction motif |
| C2 | >100 | >100 | 75.0 | I | Complement classical pathway serine protease |
| BF | >100 | >100 | 83.6 | I | Complement classical pathway serine protease |
| RDBP | >100 | >100 | 90.5 | T | Subunit of NELF (negative elongation factor). Inhibits transcription elongation |
| STK19 | 57 | 62 | 83.8 | O* | Serine threonine kinase 19 |
| C4 | >100 | >100 | 76.3 | I | Complement classical pathway thioester containing protein |
| TNXB | 75 | 71 | 69.2 | O | Extracellular matrix protein. Connective-tissue structure/function? Development blood vessels? |
| FKBPL | 47 | 52 | 73.4 | U | Unknown. FK506-binding protein like. Immunophilin like, 3 TRR repeats |
| C6orf31 | 9 | 32 | 97.4 | U | Unknown. Signal peptide, 2-3 Trmb domain, Proline rich |
| EGFL8 | 37 | 13 | 79.9 | U* | Unknown. Signal peptide, Trmb domain, 2EGF motifs |
| RNF5 | >100 | 93 | 97.8 | U | Ubiquitin Ligase E3, Ring finger. Trmb domain |
| AGER | 36 | 13 | 78.2 | T* | Receptor for advanced glycosylation end products of proteins |
| PBX2 | 71 | 69 | 97.9 | T | Homeobox domain; transcriptional regulation |
| NOTCH4 | 11 | 89 | 80.2 | T* | Cell differentiation; Cell proliferation? Regulation of cell fate determination? Morphogenesis? |
| Similarity found to yeast, fungi 11 genes, average PIP = 89.2 | |||||
| BAT1 | >100 | >100 | 99.3 | T | 56kD U2AF56 associated protein UAP56. Essential splicing factor. DEAD-box domain |
| ATP6VIG2 | 11 | 89 | 94.9 | O | Vacuolar ATPase G synthetase subunit |
| AIF1 | >100 | 43 | 88.4 | U* | Allograft inflammatory factor; macrophage activation?, EF hand, Ca2+ binding motif |
| CSNK2B | >100 | >100 | 100 | T | Casein kinase II β subunit; cell growth? |
| DDAH2 | >100 | >100 | 97.2 | O | NG-dimethylarginine dimethylamino hydrolase II |
| LSM2 | 85 | 92 | 72.5 | T | Like Sm protein 2. Binds specifically to the 3′-terminal U-track of U6 snRNA |
| NEU1 | >100 | >100 | 82.0 | O* | Sialidase enzyme |
| C6orf29 | >100 | >100 | 82.0 | U | hCTL4, Choline transporter-like 4 |
| BAT8 | >100 | >100 | 81.2 | U | Histone Methyltransferase (HMTase) ANK repeats |
| DOM3Z | 96 | >100 | 89.7 | U | Unknown. Proliferation and viability in C. eleg. (similar to DOM3Z). 5.8S rRNA processing in yeast |
| PPT2 | 94 | 65 | 93.7 | O* | Thioesterase activity |
| Similarity found to bacteria, 7 genes, average PIP = 92.6 | |||||
| MSH5 | 73 | 22 | 88.7 | T | MutS homolog 5. Chromosome pairing in meiosis. Heterooligomer with MSH4 |
| VARS2 | >100 | >100 | 91.7 | O | valyl tRNA synthetase |
| HSPA1L | >100 | >100 | 94.9 | O* | heat-shock protein, constitutive HSP70 |
| HSPA1A | >100 | >100 | 95.2 | O* | heat-shock protein, chaperone in recovery of cells from stress |
| HSPA1B | >100 | >100 | 95.0 | O* | heat-shock protein, chaperone in recovery of cells from stress |
| SKIV2L | >100 | >100 | 92.9 | T* | RNA helicase |
| AGPAT1
|
>100
|
56
|
89.9
|
O*
|
Lysophosphatidic acid acyltransferase
|
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The number in columns “human” and “mouse” show how many ESTs (dbEST_human and dbEST_mouse, version 5/18/2003 from NCBI) were found by BLASTN with scores >200 and alignments >100 bp. In “PIP” (percent identity of protein pairwise alignment) column, those numbers come from alignments of the same splicing forms between human and mouse: (—) pseudogene, so no PIP value is provided. Also, no PIP value was given for C6orf48, because it is an snRNA gene. The FC column shows four function categories: (I) known immune-related and inflammatory genes; (T) transcription/regulation/signaling related genes; (O) other known functional genes; and (U) genes of unknown function. For motifs: (UBQ) ubiquitin homolog; (ANK) ankyrin repeats; (G-patch) glycine-rich nucleic acid-binding domain; (VWF) Von Willebrand factor A domains; (BTB) Broad-Complex, Tramtrack and Bric a brac (BTB) protein—protein interaction motif, also known as POZ (poxvirus and Zinc finger) domain; (TPR) tetratricopeptide repeat; (BRLZ) basic region leucine zipper; (bZIP) basic leucine zipper.
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↵* Genes of unknown function that are thought to have a potential role in the immune/inflammatory response
