Difference between revisions of "Os05g0145000"
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===Expression=== | ===Expression=== | ||
| − | + | The natural variation in expression of ''PTB1'' which is affected by the promoter haplotype and the environmental temperature, correlates with the rice panicle seed setting rate. The GUS gene test in rice showed that ''PTB1'' was differentially expressed in various rice tissues: the expression of PTB1 was relatively weak in the root, shoot and leaf, and the expression was strong in the stigma of the pistil and the spikelet hulls of the pre-emergence panicle. But , in rice pollen grains,the expression was undetectable. The results of Q-PCR was further confirmed this temporal and spatial expression patterns by showing that PBT1 was expressed prior in the reproductive organs such as the pistil, young panicle,pre-emergence panicle and post-emergence panicle. This pattern corresponded well to the role ''PBT1'' played in the pollen tube growth. | |
===Evolution=== | ===Evolution=== | ||
Revision as of 09:46, 27 May 2014
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Contents
Annotated Information
Function
The domestication-related POLLEN TUBE BLOCKD 1(PTB1), a RING-type E3 ubiquitin ligase, positively regulates the rice panicle seed setting rate by promoting pollen tube growth. The PTB1 positively regulates rice PSSR through controlling pollen tube growth. Shuangcheng et al(2013) support the hypothesis that PTB1 is an important maternal sporophytic factor of pollen tube growth and a key modulator of the rice panicle seed setting rate. And the finding of this research has implications for the improvement of rice yield.
Expression
The natural variation in expression of PTB1 which is affected by the promoter haplotype and the environmental temperature, correlates with the rice panicle seed setting rate. The GUS gene test in rice showed that PTB1 was differentially expressed in various rice tissues: the expression of PTB1 was relatively weak in the root, shoot and leaf, and the expression was strong in the stigma of the pistil and the spikelet hulls of the pre-emergence panicle. But , in rice pollen grains,the expression was undetectable. The results of Q-PCR was further confirmed this temporal and spatial expression patterns by showing that PBT1 was expressed prior in the reproductive organs such as the pistil, young panicle,pre-emergence panicle and post-emergence panicle. This pattern corresponded well to the role PBT1 played in the pollen tube growth.
Evolution
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Labs working on this gene
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References
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Structured Information
| Gene Name |
Os05g0145000 |
|---|---|
| Description |
Similar to Ring finger protein (Fragment) |
| Version |
NM_001061164.1 GI:115462058 GeneID:4337790 |
| Length |
5616 bp |
| Definition |
Oryza sativa Japonica Group Os05g0145000, complete gene. |
| Source |
Oryza sativa Japonica Group ORGANISM Oryza sativa Japonica Group
Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta;
Spermatophyta; Magnoliophyta; Liliopsida; Poales; Poaceae; BEP
clade; Ehrhartoideae; Oryzeae; Oryza.
|
| Chromosome | |
| Location |
Chromosome 5:2576595..2582210 |
| Sequence Coding Region |
2576763..2577185,2577792..2577905,2578448..2578564,2578770..2578835,2579376..2579468 |
| Expression | |
| Genome Context |
<gbrowseImage1> name=NC_008398:2576595..2582210 source=RiceChromosome05 preset=GeneLocation </gbrowseImage1> |
| Gene Structure |
<gbrowseImage2> name=NC_008398:2576595..2582210 source=RiceChromosome05 preset=GeneLocation </gbrowseImage2> |
| Coding Sequence |
<cdnaseq>atggcgatgcggggggtcgatttcaagtggtacgatggattcttcctctccatgctcgccaccagcctaatcattgtctccatcaactggaagaggtatcgtctctgcgcccacccgttgcacatatggatcgtggttgactacaccaccgtcttcatcttccgccttctcatgttcgtcgataatggccttgccgccggcatgggattggatcttggatggcaacagagatatgctcgtttttgtgggagaattgttgtcttgtcggttcttgtgcttcttctctatccctttctttgggtttggactgtgataggaacattgtggtttagcactgcaagaggctgtttacccgaggaaggacaaaaatggggcttccttatatggctgcttttcagctactgtggtctcgcctgtattgcgtgtgtggctgttggaaagtggctaagccgaaggcatgctctccagcagagggcacaacagggaataccagtctctgaatatggggttttggttgacatgatccgtgtgcctgattgggcatttgaggccgttggcttggaaatgagaggaatgggccaagatactgcatatcatcctggtctttatttaacagctgcccaaagagaggcagttgaggcactgattcaagaactcccgaagttcagactgaaagctgttcctacagactgcagtgagtgtccaatctgcctggaggaattccatgttggcaacgaggtccgtgggctcccgtgcgcgcacaatttccatgtggagtgcatcgaccagtggctccggctgaatgtcaagtgcccccgttgccggtgctccgtcttccccaacctcgacctgagcgcgctcaacaacctccggccatcctccgagccggaccggccgtcggccagcgaggtgacagcggcgacgatggcgcggtacgtgaggtcgtcgcagccggctgggcagagctacctgctgcggctgcaggggctgctgctgcggcaggtggtggttcggcacggcggcggcgacgacatggcgagcgccgagaacggcgcttctcatgtggccgccgcggtgaccgcgccggcgaccaccggcggcgtggagagcgagctgcctagcatagtggttgacggtgggcatcagctgccggatcgctga</cdnaseq> |
| Protein Sequence |
<aaseq>MAMRGVDFKWYDGFFLSMLATSLIIVSINWKRYRLCAHPLHIWI VVDYTTVFIFRLLMFVDNGLAAGMGLDLGWQQRYARFCGRIVVLSVLVLLLYPFLWVW TVIGTLWFSTARGCLPEEGQKWGFLIWLLFSYCGLACIACVAVGKWLSRRHALQQRAQ QGIPVSEYGVLVDMIRVPDWAFEAVGLEMRGMGQDTAYHPGLYLTAAQREAVEALIQE LPKFRLKAVPTDCSECPICLEEFHVGNEVRGLPCAHNFHVECIDQWLRLNVKCPRCRC SVFPNLDLSALNNLRPSSEPDRPSASEVTAATMARYVRSSQPAGQSYLLRLQGLLLRQ VVVRHGGGDDMASAENGASHVAAAVTAPATTGGVESELPSIVVDGGHQLPDR</aaseq> |
| Gene Sequence |
<dnaseqindica>5026..5448#4306..4419#3647..3763#3376..3441#2743..2835#2521..2659#1061..1134#920..986#427..465#303..331#gaaaagcttcttcgcttcgccgcctcctccccctctctccggcgcgttcgccgctcgcgatcctcccggcgccgccgccgccgccgcgcgggggccctactcgcgtcgacgccgggagggggacgccgtactccctcctcctcgcgtcgccccgccccgccgccgagtgcgacgccgctctctctctctctctcctcgcgagaaaccctagctggagttgaagtgaggggctcactgaagtgagcggagtgcgggggcgtggatgctgccgcgctcctccggccagatctagctagcaggccatggcgatgcggggggtcgatttcaagtggtactaagtttattctctactccccccttccccgctatggctgtaatatgctttgaagaatctattcatctgttgctttgcttgattggtttcaggtacgatggattcttcctctccatgctcgccaccagcctgtatcctttcatcatttcctcaccatgctttcagttttaattattagaatttcgctcgccgcgcgttcagtttttgttagagtcgattacgttttgcaccagttagattaacctacatttcaatttgcaccggactaggtgcaatgggttgggcgggtgttatgtgaatgcaaagtgaaagtttagactaaacctggtggattttttcttcttttttgacataagaaggtagagccagctaccttattaacttatagccatttcattgacaaaaatagatggttacaaagttacaggaagaaggtacatgaaaaagaggaaggtaaaaaggggaggaaaaaagggggagaatgtacaaaacatggtggaaaaatgaaacaatttacccagtgcaatgtgcattttactgatacattttcatcgattgctattgttcctcctcaactttgtccagaatcattgtctccatcaactggaagaggtatcgtctctgcgcccacccgttgcacatatggatcgtggtcagttcctcaatccaacatctatctcaaatcaaaccgctattcctctatctcactctctcatcttttcccaggttgactacaccaccgtcttcatcttccgccttctcatgttcgtcgataatggccttgccgccggcatgggattgtaagtttataactactatctccttctatttcaacctcatctctcctgtcacaatatacctatggtagacctacaaatggattgtaggggtaaagacagtggttgtcattttcctctgctttgggtgggctgttctgttctgctagacagaacaaatctgtaccattttgaccccaaacttaccactgggtttagttctttttaattatggactagtatgaaatttgcatacatgaaattttgatgtcacccctaaatcgagaaaagcagcctagcaaaaaaggaagaacaacaattgacaatgacatttgtaccctttcgggagaaaaggaaattcctgtaataggcaacctgaccaatttttgtcttgactatcttgattgcaacctcagcctccgctctttttaaacgagcaaattataattaaaatacgtttatgaagggacataaggctaaacagcctctttgcatggttattacctgagcagatgagatataaccttttaaccgtctgctaattttggatgagttcatggcgcaaaacaatatagtttgtagtgcaaaacaatatagtttgtagtttcaacatttcagaagatagaagtctcaatttatttttatttagccattactgtattatttttcttctgtgcaacttactgtcttattttgaagatttgccgtaatatgccattgaaatatttcatatttagatttttgtagtattaccattttaacgtgtaacttcaaagttcaaacagaatatgctcttagaatattttctaagactagctgtatgcccacatgtttgatacagataaaaatgaatagaataagtctgtttgcattttcggaacatatatatgtgattgttgcattgaacctgtaaaccttttccttttctgttacaagagcacttgacaatgtctacacatgtctatttgtaaaatttggtcatcttcgacatttccatgtaaaattgcgaatttagaaagccaaatacaaaaaaaagggaaaaaaataaacaacatttggaaggtagaagtgtcattttcaggaatttaagggagcaattagtaagaaatttagtggaggtgttggtagcagattccctgccaccacactaccttctttctaaaggagtacatataacaaatttgtcattctgtgataaagaaacagcatgcaagaggtgtttctatcattaaagcaacactgtgcaataggacagcacataagtatttcctcttacagttgtaagaggcttgagtatcgcctacaaaatagagttgctaacttgccaatgtccacctttgtatgttggtccttaccttctaaacttttccaaagtatgacgtttgtcctttttgtggctggtaattgtagggatcttggatggcaacagagatatgctcgtttttgtgggagaattgttgtcttgtcggttcttgtgcttcttctctatccctttctttgggtttggactgtgataggaacattgtggtttagcactgcaagaggctgtgtaagttttcttattgttatggtattatgctcatcaccaaatatttagaagttttacttaacatacactcactctatatgtagttacccgaggaaggacaaaaatggggcttccttatatggctgcttttcagctactgtggtctcgcctgtattgcgtgtgtggctgttggaaaggtactgctataagatatgtcggtacaaactgcaatcttgcattggatccgcatattatcgttcatcgatttatccatgattactgtgcaaagattcagtcttcttgagtgtcataccatcagtcatacatactatatctagatgtcatttagattgaagatgttaaggttttagttatagagaattgttatttggcattgatgtattcataatttcatatcttctttgcatcatctagaaatcgtatccatttatttttttcttcttttaaaagcatgaagggtagtgtacgtcttccttcatattgactattagtgcagaagccatactgatagcagaaccctaatcctcatggttgtactggctttagatctttttttagtcagaacttttggtagatttcttgtaattttattttgccttcttattttaataaagcaactgtgggggctttccctacagcgcttttttgttaaaaaaaatgtatatttaaattcacagagggcatatcgccatgttttacttttaattttgttgcagtggctaagccgaaggcatgctctccagcagagggcacaacagggaataccagtctctgaatatggggtaagattttttgttcgttttcgctgctgattttgtccagtgaactgtcaatggtagacgtttgaaaaatatgaaactacagcattgcacgccctttttccatgcttgcctgttcaattcagtttgtgcagcttacttgtctcaactactagctttatatttaagtagggaggatttcaattttttttattgtcatcatctataggttttggttgacatgatccgtgtgcctgattgggcatttgaggccgttggcttggaaatgagaggaatgggccaagatactgcatatcatcctggtctttatttaacagctgcccaagtaagttgctttgcgcaatttgatgaatcgcctttcgacatatcgctagtgtgtgtgttgattgattctgttatttgcttatatttaggcatttagctgtacattcgattcaaggggtcgtactgtctgctagctgttggtataatctagctagacaaaatttccatgtatttatttgctagcgatctcagagatgcaaagaagtctctgaagacttctggatttgtattaaggagcaaaggtcagtacaaaacagagagtatgaggaatagaactcaatagaggcagtagaaaaggacaggaaagaaactaatactaattagcaaccacaatatttttgccccagcttgttgccaagcactggcagatctttttgtgataatctaactgagggtgatgtttcctgatcaaaggcatttagatacctttctttccaatgtttgcccaaatgcatgcatttgggaccattgttgaacactgcagtaacactgaaatccagtgtcattgagcagaatgattttaaattggtcctccttctgcagagagaggcagttgaggcactgattcaagaactcccgaagttcagactgaaagctgttcctacagactgcagtgagtgtccaatctgcctggaggaattccatgttggcaacgaggtaaattacagacaccaagtagagaacttgattgaactgcaattctactagtatttgcacatggtgcttcttcatgtgtttgtatgtggcatgaatccatcaggaaaaaagtccatttaacttattttgccagcaatcaactccctgaactatttcttttacccatttgatcccctaaactacatataaaaacagctcatcttgtttctttgtaacacatctcttttccgtctttatacaaggcatacttaagctaaaatttgtacaaccattgatgacaaaataaactactttacaaaatacttctatcatgaaattctgtatgcagtgttgaatctctatatttaaatttttatcttaggtgtgtctaacctatgcaaatagtgaacaaaaattcaaaaaaagaaaaaagagtaataatgtgtacatgccacaatttcaacgaagaatataacttgtataaagaataaaaaagcatggttagaagtaaagtggagcatttttgttagttcgagggtaaaacaagactagagatggtttatgaagttacgttctccagcatttttaaggactgacaaagacttcttttcccaatccattatgcaggtccgtgggctcccgtgcgcgcacaatttccatgtggagtgcatcgaccagtggctccggctgaatgtcaagtgcccccgttgccggtgctccgtcttccccaacctcgacctgagcgcgctcaacaacctccggccatcctccgagccggaccggccgtcggccagcgaggtgacagcggcgacgatggcgcggtacgtgaggtcgtcgcagccggctgggcagagctacctgctgcggctgcaggggctgctgctgcggcaggtggtggttcggcacggcggcggcgacgacatggcgagcgccgagaacggcgcttctcatgtggccgccgcggtgaccgcgccggcgaccaccggcggcgtggagagcgagctgcctagcatagtggttgacggtgggcatcagctgccggatcgctgaagcgcccggtggacggcgtgatgtagactgatagttatatgtgtggggaaggggaggatcgaagctatgcagcagcatgttttttttttctttgatcttatctcctgtgtgcagagtgtataaatattatgtaaaggagatcattattgcaagcttttgtttcccttt</dnaseqindica> 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