Results
The main objective of this project was to determine all selenoproteins and machinery genes present in Spermophilus dauricus genome. In order to determine these proteins, Ictidomys tridecemlineatus genome was used to identify homology regions.
The following table shows our results.
| Species |
Protein name |
Scaffold |
Gene location | Alignment | tblastn | T-coffee | Genewise | SECIS Info | SECIS Photo | Seblastian | |||||||||
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Glutathione peroxidase (GPx) Family |
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Homo sapiens |
GPx1 | KZ294477.1_70 | 614365-614721 | Sec-Sec |  |
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Homo sapiens |
GPx2 | KZ294336.1_60 | 151842-154618 | Sec-Sec | |
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Homo sapiens |
GPx3 | KZ294786.1_80 | 372292-379624 | Sec - Sec | |
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Homo sapiens |
GPx4 | KZ294008.1_10 | 645122-645926 | Sec - Sec | |
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Homo sapiens |
GPx5 | KZ293976.1_20 | 5830798-5831351 | Cys | |
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Homo sapiens |
GPx6 | KZ294329.1_30 | 628787-636337 | Sec-Sec | |
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Homo sapiens |
GPx7 | KZ295233.1_70 | 534503-535999 | Cys | |
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Homo sapiens |
GPx8 | KZ295007.1_40 | 618180 622158 | Cys | |
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Iodothyronine deiodinase (DIO) |
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Ictidomys tridecemlineatus |
DIO1 | KZ294227.1_10 | 1851665-1867968 | Sec-Sec | |
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Ictidomys tridecemlineatus |
DIO2 | KZ294000.1_00 | 1873698-1883227 | Sec-Sec | |
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Homo sapiens |
DIO3 | KZ295204.1_20 | 550733-551560 | Sec-Sec | |
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| Selenoproteins | |||||||||||||||||||
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Ictidomys tridecemlineatus |
Sel15 | KZ294443.1_00 | 468805-505519 | Sec - Sec | |
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Ictidomys tridecemlineatus |
SelH | KZ294934.1_0 | 271770-272359 | Sec - Sec | |
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Ictidomys tridecemlineatus |
SelI | KZ294027.1_10 | 718582-741130 | Sec-Sec | |
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Ictidomys tridecemlineatus |
SelK | KZ294358.1_20 | 1200776-1201045 | Sec-Sec | |
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Ictidomys tridecemlineatus |
SelM | KZ294659.1_00 | 293540-294225 | Sec - | |
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Ictidomys tridecemlineatus |
SelN | KZ295449.1_20 | 382473-400236 | Sec-Sec | |
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Ictidomys tridecemlineatus |
SelO | KZ298603.1_80 | 3490-5253 | Sec - | |
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Homo sapiens |
SelP | KZ296009.1_00 | 172909-179353 | Sec-Sec | |
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Homo sapiens |
MSRB1 | KZ294128.1_00 | 13578-15526 | Sec-Sec | |
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Homo sapiens |
MSRB2 | KZ294141.1_10 | 1990101-2004859 | Cys | |
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Ictidomys tridecemlineatus |
MSRB3 | KZ293973.1_00 | 6387376-6529375 | Cys | |
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Homo sapiens |
SelS | KZ294061.1_00 | 2892087-2902440 | Sec-G | |
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Homo sapiens |
SelT | KZ297625.1_40 | 9854-10441 | Sec-Sec | |
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Homo sapiens |
SelU1 | KZ294366.1_10 | 1799807-1800493 | Cys | |
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Homo sapiens |
SelU2 | KZ295368.1_10 | 446447-456819 | Cys | |
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Homo sapiens |
SelU3 | KZ294003.1_00 | 425600-428102 | Cys | |
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Ictidomys tridecemlineatus |
SelW1 | KZ294644.1_00 | 241482-244726 | Sec - | |
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Homo sapiens |
SelW2 | KZ294603.1_00 | 1269595-1270573 | Cys-Cys | |
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Homo sapiens |
MrsA | KZ294035.1_00 | 2650453-2904058 | - | |
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| Thioredoxin reductase | |||||||||||||||||||
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Homo sapiens |
TR1 | KZ294002.1_20 | 1350912-1396315 | Sec-Sec | |
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Homo sapiens |
TR2 | KZ294150.1_40 | 2289215-2341172 | Sec-Sec | |
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Ictidomys tridecemlineatus |
TR3 | KZ294541.1_70 | 1391156-1391843 | Sec-Sec | |
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| Machinery | |||||||||||||||||||
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Ictidomys tridecemlineatus |
SECp43 | KZ293977.1_00 | 4491504-4511025 | - | |
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Homo sapiens |
SBP2 | KZ294738.1_00 | 184822-220129 | - | |
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Ictidomys tridecemlineatus |
PSTK | KZ295823.1_10 | 46000-48983 | - | |
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Homo sapiens |
SecS | KZ295478.1_50 | 357009-365712 | - | |
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Ictidomys tridecemlineatus |
SPS1 | KZ295478.1_50 | 132124-147757 | - | |
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Homo sapiens |
SPS2 | KZ293967.1_20 | 272935-274275 | Sec-Sec | |
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Ictidomys tridecemlineatus |
eEFSec | KZ294859.1_30 | 518883-519422 | - | |
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| Legend | |
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Good alignment |
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Bad alignment |
| Cys | Cysteine-containing homologue |