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Table 2 Immune response (GO:0006955) genes with TE-derived HS sites

From: Transposable element derived DNaseI-hypersensitive sites in the human genome

Cluster 1 Name 2 Accn 3 Description 4 HS site 5 TE 6
2 CD97 NM_078481 leukocyte antigen; receptor involved in both cell adhesion and signalling processes early after leukocyte activation 12460_5 SINE/MIR/MIR
2 IGLC2 BC073786 Ig light-chain, partial Ke-Oz- polypeptide, C-term; immunoglobulin lambda constant region 2 13851_3 LTR/ERVL/LTR16A
2 IGLC1 BC070353 constant region of lambda light chains 13851_3 LTR/ERVL/LTR16A
2 MR1 CR602405 major histocompatibility complex, class I-related 1311_2 LINE/L2/L2
2 ADORA2A NM_000675 adenosine receptor subtype A2a; G-protein coupled receptor; reduces the activation status of inflammatory cells 13875_2 SINE/MIR/MIR3
2 CKLF NM_016951 chemokine-like factor (cytokine); essential role in the immune and inflammatory responses; potent chemoattractant for neutrophils, monocytes and lymphocytes 10591_2 SINE/Alu/AluSg
2 KLF6 NM_001008490 Kruppel-like factor 6; core promoter guanine-rich element binding protein; transcriptional activator 6794_2 SINE/MIR/MIRb
2 IL16 CR749286 interleukin 16; lymphocyte chemoattractant factor; cytokine; modulator of T cell activation; mediated by CD4 10023_2 DNA/MER1/MER117
2 ST6GAL1 NM_173216 sialyltransferase 1 (beta-galactoside alpha-2,6-sialytransferase); role in T-cell death; generation of cell-surface carbohydrate determinants and differentiation antigens 3308_3 SINE/MIR/MIR3
2 HLA-E NM_005516 HLA class I histocompatibility lymphocyte antigen, E alpha chain; immunoregulatory role for cytotoxic T-lymphocytes 4584_2 DNA/MER1/Charlie1
2 IL21R NM_181078 interleukin 21 receptor; type I cytokine receptor; transduces the growth promoting signal of IL21, and is important for the proliferation and differentiation of T cells, B cells, and natural killer (NK) cells 10408_3 SINE/MIR/MIRb
2 ITGB2 NM_000211 leukocyte cell surface adhesion glycoprotein; complement receptor C3 beta-subunit; integrin beta 2; macrophage antigen 1; facilitates inflammatory cell recruitment 13756_2 LINE/L1/LIME4a
2 FYB NM_001465 FYN-binding protein; adhesion and degranulation-promoting adaptor protein; adaptor helps form immunological synapse between T cell and antigen-presenting cell; mediates signaling from the T cell antigen receptor to integrins 3896_2 SINE/MIR/MIR3
2 IGHG1 BC024289 immunoglobulin heavy constant region gamma 1; involved in antigen binding and immune response 9667_2 LINE/L1/L1
2 PTPRC Y00062 protein tyrosine phosphatase receptor; leukocyte-common CD45 antigen; essential regulator of T- and B-cell antigen receptor signaling; regulator of cytokine receptor signaling; involved in hematopoiesis 1347_2 LINE/L1/L1ME
2 LCP2 NM_005565 lymphocyte cytosolic protein 2; adaptor or scaffold protein that promotes T cell development and activation as well as mast cell and platelet function. 4315_2 SINE/Alu/AluSx
2 CD53 NM_000560 glycoprotein leukocyte cell surface antigen; contributes to the transduction of CD2-generated signals in T cells and natural killer cells; role in T cell growth regulation 964_2 LINE/L2/L2
2 DOCK2 NM_004946 dedicator of cytokinesis 2; hematopoietic cell-specific CDM family protein essential for lymphocyte chemotaxis; mediates T cell receptor-induced activation of Rac2 and IL-2 4313_2 SINE/Alu/AluSx SINE/MIR/MIR
2 CD74 BC024272 cell surface antigen; major histocompatibility complex, class II invariant chain; involved in NF-kappaB activation and interleukin-8 production 4254_2 DNA/MER1/Charlie8
2 MX1 NM_002462 myxovirus resistance protein 1; interferon inducible; role in host defense against viruses 13686_3 DNA/MER1/MER5A
25 CD6 U66145 glycoprotein cell surface antigen; involved in lymphocyte activation and thymocyte development; role in maturation of the immunological synapse   DNA/MER1/MER113
25 PLA2G4B NM_005090 phospholipase enzyme secreted by neutrophils; produces arachidonic acid used for the biosynthesis of leukotriene in inflammatory response 9758_2 SINE/MIR/MIRb SINE/Alu/AluY
25 BCL2 NM_000633 B-cell lymphoma protein 2; blocks the apoptotic death of some cells such as lymphocytes 12021_2 LINE/L1/HAL1
25 TRA@ BC063432 T cell antigen receptor alpha locus; involved in thymocyte developement 9169_2 9171_2 9174_4 LINE/L1/L1ME2 SINE/MIR/MIR LINE/L2/L2
25 CCR9 NM_031200 chemokine (C-C motif) G protein coupled receptor; regulator of thymocytes migration and maturation in normal and inflammation conditions; functional specialization of immune responses in different segments of the gastrointestinal tract 2827_2 LINE/L1/L1ME4a
25 TCF7 NM_003202 T cell specific transcription factor; regulates T cell development and peripheral T cell differentiation 4139_4 LINE/CR1/L3
25 CCL5 NM_002985 T cell specific chemokine (C-C motif) ligand; chemoattractant for blood monocytes, memory T helper cells and eosinophils; causes release of histamine from basophils and activates eosinophils; 11206_2 LINE/L1/L1MB3
25 LAT NM_001014987 linker for activation of T cells; phosphorylated following activation of the T-cell antigen receptor signal transduction pathway; acts as a docking site and recruits multiple adaptor proteins and downstream signaling molecules into multimolecular signaling complexes 10425_2 SINE/Alu/AluJb SINE/MIR/MIR
  1. 1Gene coexpression cluster from which the gene is taken.
  2. 2Official gene name symbol from the HUGO Gene nomenclature committee
  3. 3Representative mRNA Genbank accession taken from USC genome browser knownGene table.
  4. 4Brief description of the gene function
  5. 5NHGRI DNase-I hypersensitive site identifier taken from the UCSC genome browser nhgriDnaseHs table.
  6. 6Class/family/name of the transposable element (TE) sequence colocalized with the HS site