CNV | Chromosome Location | Length | Fold change of CNV cf, Red Jungle Fowl | CNV Hotspot? | Genes/ESTs | Conserved in Mammals? | Conserved in Xenopus/Zebrafish? | Comments | ||
---|---|---|---|---|---|---|---|---|---|---|
(kb) | Broiler | Layer | Turkey | |||||||
1 | chr1:86445000–86475000 | 30,000 | -5.65 | yes | no | yes | novel proteins, birds/fish/frogs, Phospholipase A2, a family of secretory and cytosolic enzymes | |||
2 | chr1:104475000–104505000 | 30,000 | -1.95 | yes | yes | yes | novel protein, birds/fish/frogs | |||
3 | chr1:140595000–140625000 | 30,000 | 2.26 | -5.52 | yes | yes | yes | yes | similar to RAN binding protein 2 | |
4 | chr1:144225000–144255000 | 30,000 | -3.54 | yes | yes | yes | novel proteins/RNAs | |||
5 | chr1:165885000–165975000 | 90,000 | -2.59 | -2.24 | yes | yes | yes | interleukin enhancer binding factor 3 | ||
6 | chr1:197715000–197745000 | 30,000 | -2.83 | yes | no | yes | novel, birds/frogs, similar to Gab2, lipid binding motifs | |||
7 | chr10:30000–150000 | 120,000 | -1.82 | yes | yes | yes | olfactory receptors | |||
8 | chr13:510000–570000 | 60,000 | -2.05 | yes | yes | yes | protocadherin cluster | |||
9 | chr13:18885000–18903772 | 18,772 | -4.73 | yes | yes | yes | novel proteins/RNAs | |||
10 | chr16:15000–426425 | 411,425 | -1.48 | -2.68 | -4.73 | yes | yes | yes | yes | MHC |
11 | chr2:25725000–25785000 | 60,000 | -1.57 | no | yes | yes | conserved non-coding region | |||
12 | chr2:49185000–49215000 | 30,000 | 2.13 | yes | no | yes | novel, birds/frogs, T cell receptor, gamma cluster | |||
13 | chr2:53925000–54225000 | 300,000 | -1.62 | yes | yes | yes | Thiamin pyrophosphokinase 1 | |||
14 | chr27:30000–930000 | 900,000 | -1.81 | yes | yes | yes | gamma filamin protein, mainly due to cluster of feather keratins | |||
15 | chr27:165000–255000 | 90,000 | -1.47 | yes | no | yes | novel proteins/RNAs birds/fish | |||
16 | chr3:113550000–113646334 | 96,334 | 2.34 | 2.30 | -2.59 | yes | yes | yes | yes | 39S ribosomal protein L19, GC-rich sequence DNA-binding factor TCF9-like, novel proteins/RNAs |
17 | chr4:88935000–89025000 | 90,000 | -2.20 | -2.42 | yes | yes | no | no | CD8alpha | |
18 | chr6:4695000–4785000 | 90,000 | -1.70 | -3.98 | yes | yes | yes | Pro-neuregulin-3 | ||
19 | chr6:11475000–11505000 | 30,000 | -9.91 | yes | no | no | novel proteins/RNAs | |||
20 | chr7:23625000–23925000 | 300,000 | 1.67 | yes | yes | yes | many genes, mainly due to TUBA-cluster | |||
21 | chrE64:22523–22523 | n/d | -1.41 | yes | yes | yes | Zinc finger cluster | |||
22 | chrZ:71535000–71745000 | 210,000 | 3.45 | 3.38 | -7.01 | yes | yes | yes | yes | male/female difference, similar to rac GTPase activating protein |
Total number of CNV loci cf. Red Jungle Fowl | 8 | 8 | 16 | 6 |