Table 2.
LCR16a-associated gene-containing segmental duplications
| Lineage identified | HSA Location | Size (kbp) | Duplicon | Genes* | RefSeq gene |
|---|---|---|---|---|---|
| Primates | chr16:14711689-14726338 | 9 | LCR16a | NPIP | Nuclear pore complex interacting protein |
| Marmoset/Orangutan | chr16:11527314-11548048 | 20.7 | LCR16a-001 | LITAF | Lipopolysaccharide induced TNF factor |
| Marmoset/Orangutan | 24.0 | LCR16a-001a | RMI2 | RecQ mediated genome instability 2 | |
| Marmoset/Orangutan | chr16:11320235-11452411 | 132.8 | LCR16a-002 | CTD-3088G3 | Pseudogene--predicted transcript |
| Primates | chr4:155451842-155466390 | 14.5 | LCR16a-003 | MTRNR2L | Pseudogene-predicted transcript |
| Primates | chr9:33565330-33577380 | 12 | LCR16a-004 | ANKRD18B | Ankyrin repeat domain 18B |
| REXO1 | RNA exonuclease 1 homolog | ||||
| Marmoset | chr11:134239610-134264044 | 24.5 | LCR16a-005 | VPS26B | Retromer complex component B |
| THYN1 | Thymocyte nuclear protein 1 | ||||
| ACAD8 | Acyl-CoA dehydrogenase family member 8 | ||||
| Marmoset | chr11:93073398-93231243 | 157.8 | LCR16a-007 | SLC36A4 | Solute carrier family 36 member 4 |
| Primates | chr16:14965442-15044835 | 79.3 | LCR16a-009 | PDXDC1 | Pyridoxal dependent decarboxylase domain containing 1 |
| Primates | chr16:15387600-15416537 | 28.9 | LCR16a-010 | MPV17L | Mitochondrial inner membrane protein like |
| Marmoset/Gorilla | chr16:14681632-14616125 | 65.5 | LCR16a-011 | PARN | Poly(A)-specific ribonuclease |
| PLA2G10 | Phospholipase A2 | ||||
| BFAR | Bifunctional apoptosis regulator | ||||
| Primates | chr1:148979684-149033477 | 36.9 | LCR16a-012 | PDE4DIP | Phosphodiesterase 4D interacting protein |
| Marmoset | chr20:19864676-20010962 | 146.3 | LCR16a-015 | RIN2 | Regulation of Rab5-mediated early endocytosis |
| Marmoset | chr20:20016850-20035552 | 18.7 | LCR16a-016 | NAA20 | N (alpha)-acetyltransferase 20 |
| CRNKL1 | Crooked neck pre-mRNA splicing factor 1 | ||||
| Marmoset | chr16:10666581-10697471 | 30.9 | LCR16a-017 | TEKT5 | Tektin 5 |
| Marmoset | chr3:150318404-150342624 | 24.2 | LCR16a-018 | LINC01214 | Long intergenic non-protein-coding RNA 1214 |
| Marmoset | chr2:132835355-132908086 | 72.7 | LCR16a-019 | NCKAP5 | NCK associated protein 5 |
| Marmoset | chr11:924494-962797 | 38.3 | LCR16a-26 | AP2A2 | Adaptor related protein complex 2 subunit alpha 2 |
| Marmoset | chr8:50623663-50639745 | 16.1 | LCR16a-27 | SNTG1 | Syntrophin gamma 1 |
| Primates | chr16:15062396-15097775 | 35.4 | LCR16a-20 | RRN3 | RNA polymerase I transcription factor |
| African Ape/Prosimian | chr16:20411068-20501378 | 90.3 | LCR16a-25 | ACSM2A, ACSM5 | Acyl-CoA synthetase medium-chain family member |
*Most duplicate genes are incomplete, and annotation is based on RefSeq annotation of human reference genome (GRCh38)