Table 1.
Newly assigned genes in Haloarcula marismortui
| ORF | Length (aa) | Best homolog | Function | Seq id. (%) | Other homologs |
|---|---|---|---|---|---|
| rrnAC0103_A | 75 | NP3662A | rib_prot S28.eR | 86 | OE2664F, HQ2884A |
| rrnAC0208_A | 60 | NP0350A | CHY | 48 | – |
| rrnAC0216_A | 126 | OE2874F | CHY | 42 | HQ1719A |
| rrnAC0301_A | 80 | HQ2541A | Small ZnF | 45 | – |
| rrnAC0669_A | 150 | NP0856A | CHY | 66 | HQ1219A, OE1540R |
| rrnAC0678_A | 53 | NP0788A | Small ZnF | 73 | HQ1109A, OE1789R, HQ2748A, OE7210R |
| rrnAC0696_A | 99 | NP0816A | Small ZnF | 47 | OE1556F |
| rrnAC0797_A | 57 | HQ2892A | rib_prot L37.eR | 92 | OE3141R, NP4310A |
| rrnAC0991_A | 48 | NP2998A | CHY | 79 | OE3047F |
| rrnAC1044_A | 86 | HQ1848A | moaD family protein | 33 | NP2500A, NP5020A, NP3946A, OE3595R |
| rrnAC1515_A | 66 | NP1736A | Small ZnF | 58 | HQ3220A, OE3365R |
| rrnAC1588_A | 146 | OE5063R | IS200-type transposase | 72 | NP4630A, OE1439F, rrAC0815, OE4728F |
| rrnAC1597_A | 61 | NP4882A | rib_prot S14 | 72 | OE3408F, HQ2828A, NP1768A |
| rrnAC1603_A | 94 | NP4870A | RNAseP comp. 1 | 52 | OE3398F, HQ2834A |
| rrnAC1676_A | 44 | NP4282A | CHY | 77 | NP2940A |
| rrnAC1676_B | 122 | HQ1297A | CHY | 60 | – |
| rrnAC1678_A | 100 | HQ1827A | CHY | 59 | – |
| rrnAC1706_A | 141 | NP1764A | CHY | 52 | – |
| rrnAC1831_A | 63 | NP1510A | CHY | 63 | HQ1704A, OE1775R |
| rrnAC1867_A | 52 | HQ1176A | Small ZnF | 69 | OE1435R, NP5316A |
| rrnAC1929_A | 212 | OE3249F | Cob cluster protein | 54 | NP5310A, HQ1412A, NP1896A |
| rrnAC1936_A | 89 | NP3612A | CHY | 48 | – |
| rrnAC1983_A | 231 | NP1896A | CHY | 43 | – |
| rrnAC2105_A | 134 | NP0772A | CHY | 54 | HQ1375A, OE4661R |
| rrnAC2167_A | 96 | NP4084A | CHY | 35 | HQ2323A |
| rrnAC2212_A | 142 | HQ1071A | CHY | 38 | OE2090R |
| rrnAC2268_A | 116 | NP2558A | Transcription regulator | 74 | OE2591R, NP3596A, rrnAC3399, HQ1949A |
| rrnAC2270_A | 59 | HQ1365A | Small ZnF | 68 | NP0928A, OE4676F |
| rrnAC2286_A | 84 | NP5336A | CHY | 43 | – |
| rrnAC2448_A | 54 | NP5086A | CHY | 51 | – |
| rrnAC2530_A | 130 | HQ2261A | CHY | 52 | – |
| rrnAC2569_A | 49 | HQ3677A | Small ZnF | 74 | NP0778A, OE4167C1R, HQ2748A, OE7210R |
| rrnAC2574_A | 52 | NP0788A | Small ZnF | 92 | OE1789R, HQ1109A, HQ2748A |
| rrnAC2592_A | 98 | HQ1034A | CHY | 79 | NP1820A |
| rrnAC2764_A | 111 | NP5102A | CHY | 59 | HQ3659A, OE4054F |
| rrnAC2791_A | 115 | NP0196A | CHY | 70 | HQ3647A, OE3914R |
| rrnAC2834_A | 129 | OE4148F | CHY | 31 | HQ3411A |
| rrnAC2897_A | 73 | OE4475R | Small ZnF | 58 | HQ3437A, NP0708A |
| rrnAC2982_A | 137 | HQ2813A | CHY | 42 | HQ1789A, HQ2547A, pNG7092, NP1808A |
| rrnAC3115_A | 57 | NP0186A | rib_prot HL32 | 75 | HQ3421A |
| rrnB0024_A | 139 | OE6004F | Small ZnF | 64 | NP6252A, HQ1149A |
| rrnB0146_A | 118 | OE1549F | CHY | 54 | NP1698A, HQ1429A, OE3894R |
| rrnB0177_A | 89 | HQ2065A | CHY | 50 | – |
| pNG3034_A | 47 | NP4282A | CHY | 80 | NP2940A |
| pNG6117_A | 85 | OE6052R | CHY | 59 | – |
| pNG6164_A | 115 | OE6242R | CHY | 79 | – |
| pNG6170_A | 53 | NP0788A | CHY | 75 | OE1789R, HQ1109A, HQ2748A, OE7210R |
Using tblastN, previously unannotated genes were detected and realized by the manual curation options within HaloLex. For each newly assigned gene, its code, length, the best homolog (with a brief function indication and percentage of sequence identity) and other homologous genes are given. Codes are systematically assigned using the number of the upstream ORF and a letter attached with an intervening underscore (commonly _A). Function assignment abbreviations: CHY conserved hypothetical protein, rib_prot ribosomal protein, small ZnF small CPxCG-related zinc finger protein (Tarasov et al. 2008)