Table 1.
Mnemiopsis homeobox genes.
| Name | Domain | Signature | Intron codons | Accession |
|---|---|---|---|---|
| TALE | ||||
| MlPbx | Pbx | insert(NLA) 23 | 2,47/48 | HM444125 |
| MlMeis | MeisA, MeisD | insert(HLT) 23 | 25/26, 51 | HM444091 |
| MlPknox | Pbx | insert(HLG) 23 | 25/26, 51 | HM444122 |
| POU | ||||
| MlPou1 | Pou | HM444110 | ||
| MlPOU26a | Pou | HM444092 | ||
| MlPOU26b | HM444093 | |||
| MlPOU26c | HM444094 | |||
| LIM | ||||
| MlIsl | Lim | 39 | HM444123 | |
| MlLhx1.5 | Lim | 55/56 | HM444088 | |
| MlLhx3.4 | Lim | 27 | HM444089 | |
| MlLmx | Lim | 11,55/56 | HM444090 | |
| SIX | ||||
| MlSIX13a | Six | HM444111 | ||
| MlSIX13b | Six | HM444112 | ||
| MlSIX13c | Six | HM444113 | ||
| MlSIX13d | Six | 12,58 | HM444114 | |
| MlSIX13e | Six | HM444115 | ||
| MlSIX13f | Six | HM444130 | ||
| MlSIX27 | Six | 17 | HM444128 | |
| MlSIX28 | Six | HM444129 | ||
| MlSIX32a | HM444116 | |||
| MlSIX32b | Six | HM444144 | ||
| MlSIX32c | Six | 30 | HM444117 | |
| MlSIX36 | Six | NKL | 45 | HM444118 |
| MlSIX41 | Six | 9,45 | HM444127 | |
| MlSIX59a | Six | 57* | HM444131 | |
| MlSIX59b | Six | 57* | HM444119 | |
| MlSIX59c | Six | 57* | HM444120 | |
| MlSIX59d | Six | 57* | HM444121 | |
| MlSIX59e | Six | 57* | HM444126 | |
| ANTP | ||||
| MlANTP03a | HOXL2 | HM444145 | ||
| MlANTP03b | HOXL2 | HM444132 | ||
| MlANTP03c | HM444134 | |||
| MlANTP03d | HM444072 | |||
| MlANTP19 | NKL | 21/22 | HM444073 | |
| MlANTP21 | 10,52 | HM444074 | ||
| MlANTP22 | 13/14 | HM444075 | ||
| MlANTP23 | 18 | HM444140 | ||
| MlANTP25 | HM444076 | |||
| MlANTP35 | 44/45 | HM444077 | ||
| MlANTP37 | NKL, HOXL | 44-45 | HM444078 | |
| MlANTP47 | 46-47 | HM444079 | ||
| MlANTP48 | NKL, HOXL2 | 21-22 | HM444080 | |
| MlANTP51 | 36 | HM444136 | ||
| MlANTP63 | 12/13 | HM444137 | ||
| MlANTP65 | 12/13,45 | HM444081* | ||
| MlANTP66 | 46/47 | HM444082* | ||
| MlANTP67 | 17/18,47 | HM444083* | ||
| MlANTP68 | NKL | 14/15,44/45 | HM444084* | |
| MlANTP71 | NKL | 9,53 | HM444085 | |
| MlANTP72 | NKL | 44/45 | HM444086 | |
| MlANTP78 | 39 | HM444087 | ||
| PRD | ||||
| MlPRD10a | PRD | 37 | HM444097 | |
| MlPRD10b | PRD | 24,46/47 | HM444098* | |
| MlPRD16 | Octapeptide | PRD | 46/47 | HM444102* |
| MlPRD43 | Octapeptide | 46/47 | HM444104 | |
| MlPRD44 | PRD, HOXL2 | 46/47 | HM444105* | |
| MlPRD50 | Octapeptide | 14/15,46/47 | HM444141 | |
| MlPRD61 | Octapeptide | PRD | 12/13,46/47 | HM444147 |
| Unclassified | ||||
| MlHD01 | HM444143 | |||
| MlHD05 | HM444146 | |||
| MlHD07a | HM444139 | |||
| MlHD07b | HM444095 | |||
| MlHD07c | HM444096 | |||
| MlHD11a | HM444133 | |||
| MlHD11b | HM444099 | |||
| MlHD14 | HM444100 | |||
| MlHD15 | HM444101 | |||
| MlHD31 | HM444103 | |||
| MlHD60 | insert(LP) 33 | HM444135 | ||
| MlHD70 | HM444106 | |||
| MlHD76a | HM444107 | |||
| MlHD76b | HM444142 | |||
| MlHD77a | HM444108 | |||
| MlHD77b | HM444138 | |||
| MlHD79 | insert(N) 22 | HM444109 | ||
| MlHD86 | HM444124 |
The first column (Name) contains the names given to each gene. The second column (Domain) indicates any additional domains detected either in the predicted gene sequence or in close genomic proximity to the homeobox in the same orientation. If NKL, HOXL, HOXL2 or PRD sequence signatures or are present in the translated homeodomain (as defined in [40]), this is noted in the third column. The third column (Signature) also includes the amino acid sequences of atypical insertions if they are present. The format for insertions is the word 'insert' followed by the amino acids that make up the insertion in parentheses and the first codon of the homeobox occupied by the insertion. For those homeoboxes that are interrupted by one or more introns, the fourth column (Intron Codons) lists either the codon that is interrupted (noted by a single number) or the two codons that are separated by an intron (noted by two numbers separated by a forward slash). Commas separate codon positions for genes with multiple introns. The five MlSIX59 homeoboxes are truncated at the 57th codon and occur at the end of their corresponding GENSCAN gene prediction. The last column indicates the GenBank accession of the corresponding nucleotide sequences. An asterisk next to an accession indicates a previously described version of this homeodomain exists. The previously described homeodomains are as follows: MlANTP65 - ACD85820 (Tlx-like), MlANTP66 - ACD85819 (Dlx/NK-like), MlANTP67 - ACD85818 (BarH/BarX-like), MlANTP68 - ACD85817 (Bsh), MlPRD10b - ACD85823 (Prd3), MlPRD16 - ACD85821 (Prd1), MlPRD44 - ACD85822 (Prd2).