Table 1.
ALVEs of 11 chicken breeds detected by the obsERVer pipeline
| Breed | Name | Location | Hexamer | Overlapped genes |
|---|---|---|---|---|
| BY | ALVE_CAU001 | 3:32,243,447 | CTCAAT | NO |
| ALVE_CAU002 | 3:89,260,091 | GCTAGT | CSMD1(intron1) | |
| ALVE_ros273 | 20:3,074,677 | GCCCAC | PTPRT (intron7) | |
| ALVE_ros276 | 23:5,645,068 | CTGCTC | NT5C1A(3’UTR) | |
| CS | ALVE-TYR | 1:189,153,674 | ACACTG | TYR(intron4) |
| DX | ALVE-B5 | 1:10,787,714 | GGTGGT | LOC112532986(intron3) |
| ALVE_CAU003 | 2:71,978,681 | GAGGAG | NO | |
| ALVE_ros127 | 2:147,349,291 | GGAGGC | TSNARE1(intron2) | |
| ALVE_CAU004 | 4:54,377,551 | GGGGAC | LOC112532303(intron5) | |
| ALVE_CAU005 | 6:7,270,339 | GGCAGT | PCDH15(intron27) | |
| LX | ALVE_ros100 | 2:54,009,821 | GTAGGC | CNTNAP2(intron14) |
| ALVE_CAU006 | 2:104,963,623 | GATGCT | NO | |
| ALVE_CAU007 | 2:113,949,658 | GCAAAG | NO | |
| ALVE_CAU008 | 3:11,026,451 | CTCACT | NO | |
| ALVE_CAU009 | 3:43,153,318 | TTCTCT | PDE10A(intron1) | |
| ALVE_CAU010 | 3:76,499,348 | CAAGTC | NO | |
| ALVE_ros276 | 23:5,645,068 | CTGCTC | NT5C1A(3’UTR) | |
| RIR | ALVE-B5 | 1:10,787,714 | GGTGGT | LOC112532986(intron3) |
| ALVE_ros001 | 1:102,980,011 | GTTGTG | NO | |
| ALVE_ros004 | 2:123,787,338 | CTTGAC | NO | |
| SG | ALVE_CAU011 | 1:39,162,579 | TTCAGC | LOC101749434(intron2) |
| ALVE_CAU012 | 1:65,996,184 | CAGCGC | SOX5(intron3) | |
| ALVE_CAU013 | 1:182,903,121 | ACTAAA | NO | |
| ALVE_CAU014 | 3:950,253 | ACACAC | FANCL(intron7) | |
| ALVE_CAU015 | 8:10,388,286 | CCCCAC | NO | |
| SK | ALVE_CAU016 | 1:102,187,653 | ATCTAC | NCAM2(intron1) |
| ALVE_CAU017 | 1:143,035,486 | AGTATT | NO | |
| ALVE-TYR | 1:189,153,674 | ACACTG | TYR(intron4) | |
| ALVE_CAU018 | 3:110,009,243 | GTCTGC | CD2AP(intron2) | |
| ALVE_CAU019 | 4:42,984,321 | GAAATC | GALNTL6(intron4) | |
| ALVE_CAU020 | Z:304,564 | ATGAAT | NO | |
| TB | ALVE_CAU021 | 1:129,602,884 | GACCTA | NO |
| ALVE_ros240 | 9:12,295,680 | TGTAAA | LOC112533006(intron4) | |
| ALVE_ros276 | 23:5,645,068 | CTGCTC | NT5C1A(3’UTR) | |
| WC | ALVE_NSAC5 | 3:73,083,966 | GGCTGA | NO |
| ALVE_CAU022 | 9:12,011,455 | AGCCTA | NO | |
| ALVE21 | Z:10,681,604 | GGGTAG | NO | |
| WL | ALVE1 | 1:65,940,132 | ACGGTT | SOX5(intron2) |
| ALVE21 | Z:10,681,604 | GGGTAG | NO | |
| WR | ALVE-B5 | 1:10,787,714 | GGTGGT | LOC112532986(intron3) |
| ALVE-TYR | 1:189,153,674 | ACACTG | TYR(intron4) | |
| ALVE_CAU023 | 5:21,052,270 | CCGAGT | LRRC4C(intron1) | |
| ALVE-B1 | 5:23,474,345 | GTTATT | C5H11orf49(intron3) | |
| ALVE_ros220 | 7:14,856,972 | AGTTAT | ZNF385B(intron2) | |
| ALVE_CAU022 | 9:12,011,455 | AGCCTA | NO |