Table 2.
List of significant ROH islands and corresponding genes identified in each breed
| Breed | CHI | Start bp | End bp | N SNPs | Length Mb | Genes |
|---|---|---|---|---|---|---|
| MAJ | 6 | 37,746,029 | 39,150,759 | 26 | 1.40 | TRNASTOP-UCA, DCAF16*, NCAPG*, FAM184B*, LCORL* |
| 7 | 59,583,402 | 60,730,551 | 21 | 1.15 | CXXC5, UBE2D2, TMEM173, ECSCR, DNAJC18, SPATA24, PROB1, MZB1, SLC23A1, PAIP2, MATR3, SIL1, CTNNA1, LRRTM2, TRNAS-GGA, TRNAC-GCA, HSPA9, ETF1, EGR1, REEP2, KDM3B | |
| PAL | 6 | 13,342,058 | 15,228,960 | 12 | 1.02 | LARP7, ZGRF1, ALPK1*, TIFA*, AP1AR*, C6H4orf32*, NEUROG2, PITX2, ENPEP |
| 6 | 16,459,877 | 18,091,733 | 17 | 3.09 | COL25A1, ETNPPL, OSTC, LEF1, HADH, SGMS2, PAPSS1* | |
| 9 | 71,102,228 | 71,943,009 | 14 | 0.84 | ADGB, STXBP5, SASH1 | |
| 10 | 66,619,056 | 67,062,439 | 10 | 0.46 | VPS18, RHOV, SPINT1, PPP1R14D, ZFYVE19, DNAJC17, C10H15orf62, GCHFR, RMDN3, RAD51, KNL1, TRNAS-GCU, RPUSD2, C10H15orf57, CHST14, BAHD1, IVD, KNSTRN | |
| 12 | 57,770,691 | 58,452,269 | 13 | 0.68 | FRY, ZAR1L, BRCA2, N4BP2L1, N4BP2L2, PDS5B | |
| TIN | 1 | 27,667,084 | 28,183,186 | 12 | 0.51 | GBE1 |
| 10 | 66,062,165 | 67,331,443 | 24 | 1.29 | TYRO3, RPAP1, LTK, ITPKA, RTF1, TRNAW-CCA, NDUFAF1, NUSAP1, OIP5, CHP1, EXD1, INO80, CHAC1, DLL4, VPS18, RHOV, SPINT1, PPP1R14D, ZFYVE19, DNAJC17, C10H15orf62, GCHFR, RMDN3, RAD51, KNL1, TRNAS-GCU, RPUSD2, C10H15orf57, CHST14, BAHD1, IVD, KNSTRN, DISP2, C10H15orf52, INAFM2, PLCB2, ANKRD63, PAK6, BUB1B, BMF | |
| 11 | 95,578,638 | 96,126,324 | 10 | 0.52 | PPP6C, RABEPK, HSPA5, GAPVD1, MAPKAP1, PBX3 | |
| TIS | 7 | 59,583,402 | 60,848,376 | 21 | 1.27 | CXXC5, UBE2D2, TMEM173, ECSCR, DNAJC18, SPATA24, PROB1, MZB1, SLC23A1, PAIP2, MATR3, SIL1, CTNNA1, LRRTM2, TRNAS-GGA, TRNAC-GCA, HSPA9, ETF1, EGR1, REEP2, KDM3B, FAM53C, CDC25C, GFRA3 |
| 10 | 66,062,165 | 67,245,671 | 19 | 1.21 | TYRO3, RPAP1, LTK, ITPKA, RTF1, TRNAW-CCA, NDUFAF1, NUSAP1, OIP5, CHP1, EXD1, INO80, CHAC1, DLL4, VPS18, RHOV, SPINT1, PPP1R14D, ZFYVE19, DNAJC17, C10H15orf62, GCHFR, RMDN3, RAD51, KNL1, TRNAS-GCU, RPUSD2, C10H15orf57, CHST14, BAHD1, IVD, KNSTRN, DISP2, C10H15orf52, INAFM2, PLCB2, ANKRD63, PAK6, BUB1B | |
| 12 | 48,240,863 | 49,314,534 | 14 | 1.06 | TRNAS-GGA |
Chromosome (CHI), start and end position, number of SNPs (N), length of the ROH islands and relative genes are reported. All the genes detected in each significant ROH island are listed, with those that overlapped between goat breeds indicated in italics and those that overlapped between approaches (ROH and FST islands) indicated using the * symbol