Table 2.
List of genes in the identified putative selection signatures among Egyptian breeds.
| Chr | Position window (Mb) | Gene | Gene name | Chr | Position window (Mb) | Gene | Gene name |
|---|---|---|---|---|---|---|---|
| 1 | 1421469–1841513 | EXOC4 | Exocyst complex component 4 | 1 | 43288463–43293178 | DUSP6 | Dual specificity phosphatase 6 |
| 1 | 2290782–2647135 | PLXNA4 | Plexin A4 | 1 | 45665323–45666646 | SNRPF | Small nuclear ribonucleoprotein polypeptide F |
| 1 | 2002502–2187494 | CHCHD3 | Coiled-coil-helix-coiled-coil-helix domain containing 3 | 1 | 46695788–46706502 | SLC25A3 | Solute carrier family 25 member 3 |
| 1 | 2713344–2713453 | MIR6621 | microRNA 6621 | 1 | 46669629–46691852 | TMPO | Thymopoietin |
| 1 | 1848706–1850489 | LOC101752016 | G2/M phase-specific E3 ubiquitin-protein ligase-like | 1 | 46033709–46057314 | NEDD1 | Neural precursor cell expressed, developmentally down-regulated 1 |
| 1 | 2048592–2050795 | LOC107054335 | PHD finger protein 7-like | 1 | 45703687–45718329 | LTA4H | Leukotriene A4 hydrolase |
| 1 | 2058419–2061475 | LOC107054228 | Pre-mRNA-splicing factor CWC22 homolog | 1 | 45535393–45550179 | METAP2 | Methionyl aminopeptidase 2 |
| 1 | 1916410–1918088 | LOC107053764 | Serine/arginine repetitive matrix protein 2-like | 1 | 44903727–44979578 | CRADD | CASP2 and RIPK1 domain containing adaptor with death domain |
| 1 | 43966142–43979647 | KERA | Keratocan | 1 | 43326701–43370334 | POC1B | POC1 centriolar protein B |
| 1 | 44020264–44058900 | DCN | Decorin | 1 | 45241553–45243426 | SNAPC3 | Small nuclear RNA activating complex polypeptide 3 |
| 1 | 43987396–43999595 | LUM | Lumican | 1 | 46756364–47168914 | ANKS1B | Ankyrin repeat and sterile alpha motif domain containing 1B |
| 1 | 43925158–43947733 | EPYC | Epiphycan | 1 | 46718009–46745676 | APAF1 | Apoptotic peptidase activating factor 1 |
| 1 | 45323970–45368412 | NR2C1 | Nuclear receptor subfamily 2, group C, member 1 | 1 | 44597766–44618159 | PLEKHG7 | Pleckstrin homology and RhoGEF domain containing G7 |
| 1 | 44841388–44860420 | UBE2N | Ubiquitin conjugating enzyme E2 N | 1 | 44892703–44894378 | SOCS2 | Suppressor of cytokine signaling 2 |
| 1 | 45669067–45679558 | AMDHD1 | Amidohydrolase domain containing 1 | 1 | 46334585–46334684 | MIR135A2 | MicroRNA 135a-2 |
| 1 | 45597984–45634269 | NTN4 | Netrin 4 | 1 | 46258844–46258934 | MIR1691 | MicroRNA 1691 |
| 1 | 45552791–45570147 | USP44 | Ubiquitin specific peptidase 44 | 1 | 44585149–44588135 | C12orf74 | Chromosome 12 open reading frame 74 |
| 1 | 45439097–45489126 | VEZT | Vezatin, adherens junctions transmembrane protein | 1 | 46516656–46518848 | LOC101747799 | E3 ubiquitin-protein ligase ICP0-like |
| 1 | 45371070–45438999 | FGD6 | FYVE, RhoGEF and PH domain containing 6 | 1 | 45694932–45698789 | LOC107052957 | Leukotriene A-4 hydrolase-like |
| 1 | 45308442–45315920 | NDUFA12 | NADH:ubiquinone oxidoreductase subunit A12 | 1 | 44901482–44905021 | LOC107052933 | Translation initiation factor IF-2-like |
| 1 | 45161626–45287027 | TMCC3 | Transmembrane and coiled-coil domain family 3 | 1 | 43397796–43455131 | ATP2B1 | ATPase plasma membrane Ca2+ transporting 1 |
| 1 | 45133308–45152944 | CEP83 | Centrosomal protein 83 | 1 | 44618268–44689672 | EEA1 | Early endosome antigen 1 |
| 1 | 45063882–45133354 | PLXNC1 | Plexin C1 | 1 | 44816343–44840242 | NUDT4 | Nudix hydrolase 4 |
| 1 | 44398412–44400942 | BTG1 | BTG anti-proliferation factor 1 | 1 | 46708852–46717870 | IKBIP | IKBKB interacting protein |
| 1 | 44870317–44877531 | MRPL42 | Mitochondrial ribosomal protein L42 | 5 | 28954792–28959688 | LOC423277 | Galectin-related protein-like |
| 1 | 45679230–45694836 | HAL | Histidine ammonia-lyase | 5 | 29050393–29057204 | FAM71D | Family with sequence similarity 71, member D |
| 1 | 45796319–45887288 | CDK17 | Cyclin dependent kinase 17 | 5 | 28817094–28868644 | PLEKHH1 | Pleckstrin homology, MyTH4 and FERM domain containing H1 |
| 1 | 45759159–45793337 | ELK3 | ELK3, ETS transcription factor | 5 | 28894687–28902644 | VTI1B | Vesicle transport through interaction with t-SNAREs 1B |
| 1 | 45920347–46028422 | CFAP54 | Cilia and flagella associated protein 54 | 5 | 29066540–29333342 | GPHN | Gephyrin |
| 2 | 38923901–38967870 | CMC1 | C-X 9-C motif containing 1 | 5 | 28869790–28876697 | PIGH | Phosphatidylinositol glycan anchor biosynthesis class H |
| 2 | 38739416–38744143 | EOMES | Eomesodermin | 5 | 102733739–102742985 | TDRD15 | Tudor domain containing 15 |
| 3 | 102659050–102693303 | APOB | Apolipoprotein B | 5 | 28877624–28894686 | ARG2 | Arginase 2 |
| 3 | 102386988–102495414 | LDAH | Lipid droplet associated hydrolase | 5 | 28983479–28991363 | ATP6V1D | ATPase H+ transporting V1 subunit D |
| 5 | 28973589–28983409 | EIF2S1 | Eukaryotic translation initiation factor 2 subunit alpha | 28960146–28968627 | PLEK2 | Pleckstrin 2 | |
| 5 | 28992145–29040405 | MPP5 | Membrane palmitoylated protein 5 | 5 | 28761838–28794172 | TMEM229B | Transmembrane protein 229B |
| 5 | 28910734–28954526 | ZFYVE26 | Zinc finger FYVE-type containing 26 | 5 | 28405397–28748814 | RAD51B | RAD51 paralog B |
| 5 | 28902870–28910030 | RDH12 | Retinol dehydrogenase 12 (all-trans/9-cis/11-cis) | 11 | 20154497–20159550 | TMEM231 | Transmembrane protein 231 |
| 11 | 19157119–19158772 | CHTF8 | Chromosome transmission fidelity factor 8 | 11 | 20160472–20168822 | CHST6 | Carbohydrate sulfotransferase 6 |
| 11 | 19174900–19176268 | NIP7 | NIP7, nucleolar pre-rRNA processing protein | 11 | 20146831–20154681 | GABARAPL2 | GABA type A receptor associated protein like 2 |
| 11 | 19004528–19008784 | CDK10 | Cyclin dependent kinase 10 | 11 | 19173208–19174878 | COG8 | Component of oligomeric golgi complex 8 |
| 11 | 20121004–20145653 | ADAT1 | Adenosine deaminase, tRNA specific 1 | 11 | 19163629-19168951 | SNTB2 | Syntrophin beta 2 |
| 11 | 20108842–20121014 | KARS | Lysyl-tRNA synthetase | 11 | 19158792–19163525 | UTP4 | UTP4, small subunit processome component |
| 11 | 19994665–20039204 | AP1G1 | Adaptor related protein complex 1 gamma 1 subunit | 11 | 19089879–19093651 | DEF8 | Differentially expressed in FDCP 8 homolog |
| 11 | 19961317–19964798 | DHODH | Dihydroorotate dehydrogenase (quinone) | 11 | 20088785–20104757 | CHST4 | Carbohydrate (N-acetylglucosamine 6-O) sulfotransferase 4 |
| 11 | 19949492–19960006 | DHX38 | DEAH-box helicase 38 | 11 | 19986527–19994083 | ATXN1L | Ataxin 1 like |
| 11 | 19316519–19321831 | PSMD7 | Proteasome 26S subunit, non-ATPase 7 | 11 | 18805694–18846630 | ACSF3 | Acyl-CoA synthetase family member 3 |
| 11 | 19283664–19316100 | WWP2 | WW domain containing E3 ubiquitin protein ligase 2 | 11 | 19169788–19172777 | VPS4A | Vacuolar protein sorting 4 homolog A |
| 11 | 19192249–19206013 | CYB5B | Cytochrome b5 type B | 11 | 19064480–19082896 | TCF25 | Transcription factor 25 |
| 11 | 18946166–18976689 | SPG7 | SPG7, paraplegin matrix AAA peptidase subunit | 11 | 20039684–20070358 | PHLPP2 | PH domain and leucine rich repeat protein phosphatase 2 |
| 11 | 19123969–19151197 | TMCO7 | Transmembrane and coiled-coil domains 7 | 11 | 19972783–19984346 | ZNF821 | Zinc finger protein 821 |
| 11 | 19281166–19283712 | NOB1 | NIN1/PSMD8 binding protein 1 homolog | 11 | 18926659–18926760 | MIR1785 | MicroRNA 1785 |
| 11 | 19105097–19107786 | URAH | 5-hydroxyisourate hydrolase | 11 | 18874320–18874423 | MIR1560 | MicroRNA 1560 |
| 11 | 19093976–19096929 | DBNDD1 | Dysbindin (dystrobrevin binding protein 1) domain containing 1 | 11 | 19730962–19731058 | MIR1699 | MicroRNA 1699 |
| 11 | 19057744–19063946 | SPIRE2 | Spire-type actin nucleation factor 2 | 11 | 19009229–19010941 | SPATA2L | Spermatogenesis associated 2 like |
| 11 | 19022586–19055008 | FANCA | Fanconi anemia complementation group A | 11 | 18848471–18853003 | CDH15 | Cadherin 15 |
| 11 | 19015485–19022670 | ZNF276 | Zinc finger protein 276 | 11 | 19944361–19949539 | PMFBP1 | Polyamine modulated factor 1 binding protein 1 |
| 11 | 18990705–18993412 | SULT2B1L1 | Sulfotransferase family cytosolic 2B member 1-like 1 | 11 | 20069985–20076137 | MRVLDC3 | MARVEL domain-containing protein 3 |
| 11 | 18983791–18989285 | CPNE7 | Copine VII | 11 | 19086099–19087230 | LOC107054334 | Translation initiation factor IF-2-like |
| 11 | 18857696–18939049 | ANKRD11 | Ankyrin repeat domain 11 | 11 | 19255421–19262314 | LOC101750188 | Envelope glycoprotein gp95-like |
| 11 | 18993512–18997373 | DPEP1 | Dipeptidase 1 (renal) | 11 | 19940111–19944311 | LOC415872 | Inner nuclear membrane protein Man1-like |
| 11 | 18999512–19003217 | CHMP1A | Charged multivesicular body protein 1A | 11 | 18853081–18856750 | SLC22A31 | Solute carrier family 22 member 31 |
| 11 | 19010926–19015340 | VPS9D1 | VPS9 domain containing 1 | 11 | 19965154–19972318 | IST1 | IST1, ESCRT-III associated factor |
| 11 | 19007943–19008052 | MIR6667 | MicroRNA 6667 | 11 | |||
| 11 | 19114383–19123146 | CDH1 | Cadherin 1 | 11 | 19084582–19085526 | MC1R | Melanocortin 1 receptor |
| 11 | 19107862–19113818 | CDH3 | Cadherin 3 | 11 | 20106176–20109169 | TERF2IP | TERF2 interacting protein |
| 11 | 19310301–19310395 | MIR140 | MicroRNA 140 | 19176609–19179130 | TMED6 | Transmembrane p24 trafficking protein 6 | |
| 11 | 19321916–19834198 | ZFHX3 | Zinc finger homeobox 3 | 11 | 19152159–19155850 | HAS3 | Hyaluronan synthase 3 |
| 11 | 19278734–19280589 | NQO1 | NAD(P)H quinone dehydrogenase 1 | 11 | 19180205–19188036 | TERF2 | Telomeric repeat binding factor 2 |
| 11 | 20079229–20088689 | TAT | Tyrosine aminotransferase | 11 | 19212134–19277188 | NFAT5 | Nuclear factor of activated T-cells 5 |
| 11 | 18978071–18982325 | RPL13 | Ribosomal protein L13 | 11 | 19097379–19105093 | GAS8 | Growth arrest specific 8 |