Table 2.
Information of Known Homeodomain Contained Genes from RTCs
| Symbl | % | D/E (%) | E/D (%) | A | C | RTCs | UniGene | Gene Name | MmChr | HsChr | Ref |
| Crx | 98.7 | 99.9 | 0.1 | 74 | 1 | BU503524 | Mm.8008 | cone-rod homeobox containing gene | chr7 | chr19 | y |
| Dlx1 | 50 | 0 | 100 | 1 | 2 | BG808909 | Mm.4543 | distal-less homeobox 1 | chr2 | chr2 | y |
| Dlx2 | 100 | 0 | 100 | 1 | 0 | BG805973 | Mm.3896 | distal-less homeobox 2 | chr2 | chr2 | n |
| Hhex | 5.6 | 100 | 0 | 1 | 17 | BB709075 | Mm.33896 | hematopoietically expressed homeobox | chr19 | chr10 | n |
| Hmx1 | 100 | 0 | 100 | 3 | 0 | BE949806 | Mm.10104 | H6 homeo box 1 | chr5 | chr4 | y |
| Hoxc4 | 5.9 | 100 | 0 | 1 | 16 | BB283935 | Mm.1351 | homeo box C4 | chr15 | chr12 | n |
| Hoxc8 | 20 | 100 | 0 | 1 | 4 | BB283726 | Mm.6167 | homeo box C8 | chr15 | chr12 | n |
| Irx2 | 1.4 | 0 | 100 | 2 | 139 | BG801773 | Mm.28888 | Iroquois related homeobox 2 (Drosophila) | chr13 | chr5 | n |
| Irx3 | 5.7 | 0 | 100 | 2 | 33 | BE951617 | Mm.39039 | Iroquois related homeobox 3 (Drosophila) | chr8 | chr16 | n |
| Irx5 | 6.8 | 0 | 100 | 5 | 69 | BE949849 | Mm.101153 | Iroquois related homeobox 5 (Drosophila) | chr8 | y | |
| Irx6 | 100 | 100 | 0 | 1 | 0 | BG298876 | Mm.137247 | Iroquois related homeobox 6 (Drosophila) | chr8 | chr16 | y |
| Isl1 | 20.6 | 38.5 | 61.5 | 14 | 68 | BF467775 | Mm.42242 | ISL1 transcription factor, LIM/homeodomain, (islet-1) | chr13 | chr5 | n |
| Lhx1 | 17.1 | 100 | 0 | 3 | 17 | BB283776 | Mm.4965 | LIM homeobox protein 1 | chr11 | chr17 | n |
| Lhx2 | 9.7 | 33.3 | 67.7 | 7 | 65 | BF462761 | Mm.142856 | LIM homeobox protein 2 | chr2 | chr9 | y |
| Lhx3 | 66.7 | 100 | 0 | 12 | 6 | BE986454 | Mm.15655 | LIM homeobox protein 3 | chr2 | chr9 | n |
| Lhx4 | 66.7 | 100 | 0 | 2 | 1 | BG297508 | Mm.103624 | LIM homeobox protein 4 | chr1 | chr1 | n |
| Lhx9 | 30 | 0 | 0 | 3 | 7 | BE982177 | Mm.79380 | LIM homeobox protein 9 | chr1 | chr1 | n |
| Nkx6-2 | 3.8 | 67.7 | 33.3 | 7 | 175 | BE949669 | Mm.28308 | NK6 transcription factor related, locus 2 (Drosophila) | chr7 | chr10 | n |
| Og9x | 80 | 100 | 0 | 4 | 1 | BI736847 | Mm.142724 | OG9 homeobox gene | chr11 | n | |
| Onecut1 | 33.3 | 0 | 100 | 1 | 2 | BG805378 | Mm.3512 | one cut domain, family member 1 | chr9 | chr15 | n |
| Onecut3 | 100 | 0 | 0 | 1 | 0 | BE995314 | Mm.221027 | one cut domain, family member 3 | chr10 | chr19 | n |
| Otx2 | 42.9 | 100 | 0 | 9 | 12 | BG404413 | Mm.134516 | orthodenticle homolog 2 (Drosophila) | chr14 | chr14 | y |
| Pax6 | 44.2 | 65.4 | 34.6 | 46 | 49 | BQ930162 | Mm.3608 | paired box gene 6 | chr2 | chr11 | y |
| Pknox1 | 4.5 | 0 | 0 | 1 | 21 | BM941536 | Mm.87619 | Pbx/knotted 1 homeobox | chr17 | chr21 | n |
| Pknox2 | 37.5 | 0 | 100 | 3 | 5 | BG803156 | Mm.41577 | Pbx/knotted 1 homeobox 2 | chr9 | chr11 | n |
| Prox1 | 60 | 100 | 0 | 6 | 4 | BM940687 | Mm.20429 | prospero-related homeobox 1 | chr1 | chr1 | y |
| Prrx1 | 14.3 | 100 | 0 | 2 | 12 | BB283141 | Mm.3869 | paired related homeobox 1 | chr1 | chr1 | n |
| Rax | 100 | 66.7 | 33.3 | 12 | 0 | BB642844 | Mm.3499 | retina and anterior neural fold homeobox | chr18 | chr18 | y |
| Six1 | 2.6 | 100 | 0 | 1 | 37 | BB283914 | Mm.4645 | sine oculis-related homeobox 1 homolog (Drosophila) | chr12 | chr14 | n |
| Six3 | 76.9 | 0 | 100 | 10 | 3 | BG807874 | Mm.15630 | sine oculis-related homeobox 3 homolog (Drosophila) | chr17 | chr2 | y |
| Six6 | 86.7 | 42.9 | 57.1 | 13 | 2 | BI990712 | Mm.57138 | sine oculis-related homeobox 6 homolog (Drosophila) | chr12 | chr14 | y |
| Vax2 | 50 | 0 | 100 | 1 | 1 | BI989827 | Mm.57253 | ventral anterior homeobox containing gene 2 | chr6 | chr2 | y |
| Vsx1 | 100 | 100 | 0 | 4 | 0 | BB642331 | Mm.207061 | visual system homeobox 1 homolog (zebrafish) | chr2 | y | |
| Zfh4 | 100 | 100 | 0 | 3 | 0 | BB642530 | Mm.41522 | zinc finger homeodomain 4 | chr3 | chr8 | n |
| Zfhx1a | 10.1 | 42.9 | 57.1 | 8 | 71 | BE954320 | Mm.3929 | zinc finger homeobox 1a | chr18 | chr10 | n |
| Zfhx1b | 10.7 | 100 | 0 | 3 | 25 | BI730214 | Mm.37676 | zinc finger homeobox 1b | chr2 | chr2 | n |
| Zhx1 | 75 | 100 | 0 | 3 | 1 | BG404047 | Mm.37216 | zinc fingers and homeoboxes protein 1 | chr15 | chr8 | n |
%, percentage of RTCs distributed in retina
A, RTCs; C, filtered mouse ESTs
D/E (%), percetage of RTCs in adult phase; E/D (%), percetage of RTCs in embryonic phase
MmChr, mouse chromosome; HsChr, human chromosome
Ref, genes have been study in retina (y) or not (n)