Os11g0235200

SP1 encodes a putative transporter that belongs to the peptide transporter (PTR) family,and regulates panicle development and seed size in rice.

Annotated Information

Function

SP1 encodes a putative transporter that belongs to the peptide transporter (PTR) family. SP1 is preferentially expressed in young panicle，especially in the phloem of the branches of young panicle.SP1 regulates panicle development and seed size in rice.

Expression

Figure1. Phenotype of the sp1-2 mutant. (from reference)

sp1-2 is one TOS17 insertion mutant.
(1) Phenotypic comparison between wild-type and sp1-2 plants after heading.
The sp1-2 mutant plant showed a slight reduction in plant height, owing to the shorted panicle (Figure 1a).
(2) Comparison of panicle sizes between the wild-type and sp1-2 plants at the grain filling stage.
In comparison with the wild type, the mature panicle length of sp1-2 was strikingly reduced (Figure 1b).
(3) Comparison of mature grains size between the wild type and sp1-2.
The seed size of the sp1-2 mutant was smaller than the wild type (Figure 1c).
(4) Comparison of mature grains weight between the wild type and sp1-2.
In consisted with the smaller seeds, the weight of 1000 seeds was lower of the sp1-2 mutant compared to the wild type (Figure 1d).
These results indicated that the SP1 affects not only the panicle size, but also the grain size.

Cloning of the SP1 gene

250pxFigure 2. Map-based cloning and confirmation of the SP1 gene. (from reference)

Map-based approach was used to clone the SP1 gene. Primary gene mapping showed that the SP1locus is located between the molecular markers S21074 and RM3701 on chromosome 11 (Figure 2a), and then fine mapping narrowed the locus to an 8-kb region between markers M7 and M8 (Figure 2b). Annotation of the 8-kb sequence identified an open reading frame (ORF), LOC_Os11g12740, which is composed of five exons and four introns (Figure 2c). DNA sequence comparison revealed a 31-bp deletion in the third exon in sp1-2. The identity of SP1 is further confirmed by genetic complementation. The plasmid pSPC containing the entire LOC_Os11g12740 ORF and pSPCT containing the partial coding region of the ORF were introduced into the sp1-2 mutant (Figure 2d). All the 10 transgenic lines of pSPC showed a complementation of the sp1-2 phenotype, whereas all of the eight lines of pSPCT failed to rescue the sp1-2 phenotype (Figure 2e,f). RT-PCR analysis showed that the transcription level of the SP1 gene is dramatically decreased in young panicles of sp1-2 (Figure 2g). These results presented above showed that the rice SP1 gene and its mutation is responsible for the altered phenotype of sp1.

Evolution

Phylogenetic analysis showed that the SP1 gene is classified into a distinct clade for nitrate transporters, and is closest to AtNRT1:2, an Arabidopsis nitrate transporter

Labs working on this gene

• State Key Laboratory of Plant Genomics and National Center for Plant Gene Research, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Beijing 100101, China,
• State Key Laboratory of Rice Biology, China National Rice Research Institute, Chinese Academy of Agricultural Sciences,Hangzhou 310006, China,
• Graduate School of Agricultural and Life Sciences, University of Tokyo, Yayoi, Bunkyo, Tokyo 113-8652, Japan,
• Research Institute for Bioresources, Okayama University, 2-20-1, Chuo, Kurashiki, Okayama 710-0046, Japan

References

Please input cited references here.

Structured Information

Gene Name	Os11g0235200
Description	TGF-beta receptor, type I/II extracellular region family protein
Version	NM_001074096.1 GI:115484840 GeneID:4350145
Length	5257 bp
Definition	Oryza sativa Japonica Group Os11g0235200, 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	Chromosome 11
Location	Chromosome 11:7176158..7181414
Sequence Coding Region	7176608..7177532,7177841..7177965,7179701..7180180,7180759..7180976,7181105..7181243
Expression	GEO Profiles:Os11g0235200
Genome Context	<gbrowseImage1> name=NC_008404:7176158..7181414 source=RiceChromosome11 preset=GeneLocation </gbrowseImage1>
Gene Structure	<gbrowseImage2> name=NC_008404:7176158..7181414 source=RiceChromosome11 preset=GeneLocation </gbrowseImage2>
Coding Sequence	<cdnaseq>gctaatatggatgttgagtcaaggcaaggccccaagggtggtgacaccatggctgcctccgaggtctccgtggactggaggggcaggccttgcggctctcgcaagcatggcggcatgaaagcggccgtctttgtgctagggatccaggcgttcgagatgatggcgatcgcggcggtggggaacaacctgatcacctacgtcttcaacgagatgcactacccgctgtcaaagtcggccaacatcgtgaccaacttcattggcaccgtcttcctcctctccctcctcggtggcttcctctccgactcctacctcggaagcttctggaccatgctcatcttcggcttcgtcgagctctccgggttcatactgctggccgtgcaggcgcacctgccgcagctgcggccgccggcgtgcgacatgatggcggcggcggcggcggaggggggatgcgaggaggcgagcggggtgaaggcggggatcttcttcgcggcgctgtacctggtggcgctggggagcgggtgcctcaagcccaacatcatcgcgcacggcgccgaccagttccggcgcggcggcggcggcggcggcgacggcgatggcgacgatggcggcgacgggaagcggctgtcgagctacttcaacgcggcctacttcagcttctgcgtgggggagctggtggcgctgacggtgctggtgtgggtgcagacgaggtcggggatggacgtggggttcggggtgtcggcggccgccatggccgtggggctggtcagcctcgtcgccggcgtcttcttctaccggaacaagccgccgcagggcagcatcttcatgcccatcgccaaggttttcgtcgcggcggtaaccaagaggaaacaagtgtgcccatcatcatcgtcgacgacagccgcctcgcatgctgtgatccccgccaccggtgccgcccctgtccaccgcatcaacaaattcaggttcttggacaaggcgtgcgtgaaggttcaggacggccatggcggcggcggcgacggggggaaggagagcgtgtggccgccgtgcacgccggcggaggtggagcaggtgaaggtgctactgtgcgtggtgcccatcttcgcgtgcaccatcgtcttcaacaccatcctggcgcagctgcagacgttctccgtgcagcagggctccgccatggacacccgcatcggcggcggcggcggcggcgccgccttccacatcccgccggcgtcgctgcaggccatcccctacctcgtcctcatcgcgctggtgccggcgtacgaggcgtgcttcgtgccggccatgcgccgcgccacgggcgtggacaccggcatcaccccgctccagcggatcggggtcggcctcttcgccgtcaccttctccatggtcgccgccgcgctcgtcgaggcacaccgccgccgccacgccggcgacgggctcctctccatcttctggatcgcgccgcagttcctggtgttcggcgtgtccgagatgttcaccgccgtggggctcatcgagttcttctacaagcagtcgctctccggcatgcaggccttcctcacctcaatgacctactgctcctactccttcggcttctacctcagctccctcctcgtctcgctcgtcaacaaggtcacctcgggcgacggcgccggcgccggcggcggcggctggctcagcgacaacgacctcaacaaggacaggctcgacctcttctactggctcctcgccgggctcagcctcctcaacttcttcaactacctcttctggtcgaggtggtactccaagagtgtggagacgaccgtgcaggtcgccggagttggaggagaaggcggcggcggcgagcagcaggaggagaagggtgttgacgaggtcaacatgggtcactga</cdnaseq>
Protein Sequence	<aaseq>ANMDVESRQGPKGGDTMAASEVSVDWRGRPCGSRKHGGMKAAVF VLGIQAFEMMAIAAVGNNLITYVFNEMHYPLSKSANIVTNFIGTVFLLSLLGGFLSDS YLGSFWTMLIFGFVELSGFILLAVQAHLPQLRPPACDMMAAAAAEGGCEEASGVKAGI FFAALYLVALGSGCLKPNIIAHGADQFRRGGGGGGDGDGDDGGDGKRLSSYFNAAYFS FCVGELVALTVLVWVQTRSGMDVGFGVSAAAMAVGLVSLVAGVFFYRNKPPQGSIFMP IAKVFVAAVTKRKQVCPSSSSTTAASHAVIPATGAAPVHRINKFRFLDKACVKVQDGH GGGGDGGKESVWPPCTPAEVEQVKVLLCVVPIFACTIVFNTILAQLQTFSVQQGSAMD TRIGGGGGGAAFHIPPASLQAIPYLVLIALVPAYEACFVPAMRRATGVDTGITPLQRI GVGLFAVTFSMVAAALVEAHRRRHAGDGLLSIFWIAPQFLVFGVSEMFTAVGLIEFFY KQSLSGMQAFLTSMTYCSYSFGFYLSSLLVSLVNKVTSGDGAGAGGGGWLSDNDLNKD RLDLFYWLLAGLSLLNFFNYLFWSRWYSKSVETTVQVAGVGGEGGGGEQQEEKGVDEV NMGH</aaseq>
Gene Sequence	<dnaseqindica>3883..4807#3450..3574#1235..1714#439..656#172..310#gcctgaccacacaagcacaaagcaagcactatcaccaaaaggatcagagaagaaactgatatcactatctgatcagtgtagcattgcagcctctcttcttggtaggagtgagctagcacagtgaagagctaattaagccatttgtgtgagcttgcgttgagtgagctctgagctaatatggatgttgagtcaaggcaaggccccaagggtggtgacaccatggctgcctccgaggtctccgtggactggaggggcaggccttgcggctctcgcaagcatggcggcatgaaagcggccgtctttgtgctaggttcgtttaattagttagttactctcttaatccattatttcttgggtagaaatatgttgcttgatctgatttgttcttgtttgtgtttgtgttttgttggatatcgtttgcattgatgatgattgcagggatccaggcgttcgagatgatggcgatcgcggcggtggggaacaacctgatcacctacgtcttcaacgagatgcactacccgctgtcaaagtcggccaacatcgtgaccaacttcattggcaccgtcttcctcctctccctcctcggtggcttcctctccgactcctacctcggaagcttctggaccatgctcatcttcggcttcgtcgagctctccgtaagaaattgattcatccatccttcatcgtcgatctcttctctttgatatcgcactacgataaaattgacattctttacacctagatgcaactttttgggtccttttttagactgcatttcttggctccttgcaagcaagaacagctgaacaggatcggatcttgtttgtttgtttgtttaatcatgtagggatgttgtttctaggtaggattatatataaaattaaccagataagacacgcgaaagattcagcgactgttcatcgtgccgcgaaaatgatgaggttttgaggaggaggcagcaagttcagcgtaaaggtgagagagagagtggaagaaaatcatggctgcctccatccaatgcggccatgctagctagtgcgccgcccaaaacgccactcgactccacaatatcatttcttggcttttgattttaattttcgagcaggttcattgcatcccatcccatgaccatatccatggcgataattaaccattactgattaatgcgccgccaactttagttagtttagctaataatttttgttgtttttttatttctaatttttcttggcaggggttcatactgctggccgtgcaggcgcacctgccgcagctgcggccgccggcgtgcgacatgatggcggcggcggcggcggaggggggatgcgaggaggcgagcggggtgaaggcggggatcttcttcgcggcgctgtacctggtggcgctggggagcgggtgcctcaagcccaacatcatcgcgcacggcgccgaccagttccggcgcggcggcggcggcggcggcgacggcgatggcgacgatggcggcgacgggaagcggctgtcgagctacttcaacgcggcctacttcagcttctgcgtgggggagctggtggcgctgacggtgctggtgtgggtgcagacgaggtcggggatggacgtggggttcggggtgtcggcggccgccatggccgtggggctggtcagcctcgtcgccggcgtcttcttctaccggaacaagccgccgcagggcagcatcttcatgcccatcgccaaggtacgtacgttatgccgtacaatacaatcgtcgtacgtgtacggttcgtcatgtacttttatacgctttcttcttttttttttttagagaaaaatatttcttacccggcctctacatccaatcagatatatgcagactttttaaattagaaacttaactctcaaacaatctaatctgaaacttgctactacgattaaactctagatctttaggatacgcttaggacattgcaaccacaattgcatcttcttttcttttctagttggcacattgaaatatcttttgatataattttgacagccatcttttttttaaatgaactctctgtttctaaaatataataacatagtattccattccatgtaacctagtactacgaatctatgtttaattgaactatgaatttagtagatttatagtactgtgttggtgtctattctagtactacgaatttatctcattctgttttagcatcttatattttaggagaggtaggattatttttaatcggacggagtatacaagttggaaacaaatactacatcattgtgttgcatttgcaaaagcagagccaaccaactctgtttttgtgccagctactatattcccctaaaaatattgttgcattcataaatattggaggtcaattttaagctaggtctatgttctctgttcctgcatatggtagttacttgaaaaatcctgaaaatatgataacgtgcattatggtgccatctgtcgctacacaaatatatagtaatatataagtataaaggttagagaaaacatggccgtgggccctagcaatgcgtttctgcactagctaaatagaatatatataatatgtgacaagactaattaatattaagaagcaccataggtagatcaaatttaaaaatgtaaggatgaaaaggcatgtgtatgtacaacaaattaaacaacagaaagtttgaccatacgtatcatcctgattccttgtttggaaagtactactccagatacgctgcttttatatactagtataaaagcaaaaccgcctattttcgttaaatataatgcataatctttatttgatccaaaaaagctacatgatcaaacaggagtttggtacagggactattttatcctcatagtcacctcgtgcactaccacataaaaagcacacgagatcatgggtttacaaccgtttctacattaaacaaaatgaaatgctacctagtttattgccaaatgaagtatttagtcaataaaggaaaagaaagcatatatatgatttactgaatgagataataatgtatatgtatgttgggataaaaaaaataaaactgatgattttaagttacacactggctggcctcctctgccttttctttcttctttctgggacaagttgacaagggctagtggctcagctttatttctctcttttgtgtgggtcaagaattaccactgtctgctgggaggtacctttgattattgatcacagaaatggaggcccattctgttatgcttgtgatacatcaatcatgtttgcatgtgtggggagagacatgtaacatgactgacaatgatctcaggacagcatatatatctttccagcttaattttgtttttagttcttgacttagatcggtataaaccccctaaaactcaattgcacgtgaaaataacaaactctcactcgatcgctgacattttgagctgatggtcggtacatgtgactcaatatgtataggttttcgtcgcggcggtaaccaagaggaaacaagtgtgcccatcatcatcgtcgacgacagccgcctcgcatgctgtgatccccgccaccggtgccgcccctgtccaccgcatcaacaaattcaggtaggtaaaaaaatatttgtaagtggcactgtaatatactacttatttttaaaaaatatatggcaccgttaacttttcgcataatgtttgaccattcgtcttattcaaaaatttaatattaattcataaaaatataagttaagattatattttatttgataataaaacaagtcacaacaagataaaaataaaatttatataatttttttaataagattaatagataaatattatgccaaaagtcaaatggcgtgatatatttcgaaggagtataatagtttactcatttcatgtatgcatgcttacaggttcttggacaaggcgtgcgtgaaggttcaggacggccatggcggcggcggcgacggggggaaggagagcgtgtggccgccgtgcacgccggcggaggtggagcaggtgaaggtgctactgtgcgtggtgcccatcttcgcgtgcaccatcgtcttcaacaccatcctggcgcagctgcagacgttctccgtgcagcagggctccgccatggacacccgcatcggcggcggcggcggcggcgccgccttccacatcccgccggcgtcgctgcaggccatcccctacctcgtcctcatcgcgctggtgccggcgtacgaggcgtgcttcgtgccggccatgcgccgcgccacgggcgtggacaccggcatcaccccgctccagcggatcggggtcggcctcttcgccgtcaccttctccatggtcgccgccgcgctcgtcgaggcacaccgccgccgccacgccggcgacgggctcctctccatcttctggatcgcgccgcagttcctggtgttcggcgtgtccgagatgttcaccgccgtggggctcatcgagttcttctacaagcagtcgctctccggcatgcaggccttcctcacctcaatgacctactgctcctactccttcggcttctacctcagctccctcctcgtctcgctcgtcaacaaggtcacctcgggcgacggcgccggcgccggcggcggcggctggctcagcgacaacgacctcaacaaggacaggctcgacctcttctactggctcctcgccgggctcagcctcctcaacttcttcaactacctcttctggtcgaggtggtactccaagagtgtggagacgaccgtgcaggtcgccggagttggaggagaaggcggcggcggcgagcagcaggaggagaagggtgttgacgaggtcaacatgggtcactgacatgtgggttcgaaccgcacgtctagtatattaggtggattattaatcatttaacctagtcttaaccttttttttatggtttttccttgtatggaaaaatattagtaagggtggatgtatatgagtccccacctaattaaggagagtgtgtgtgatgtataaattaattaatcaaaagggattaggtgattattacttagtaatgatccctgattaggtcaagtcaaaaggtagtagttctgagtttgactctgcaaggatgcaagagtagtggtatttgggtagggatcaagtgatcaagtacgtatctagtccttttctttaatgataaggagctagtatatatctatgtactttatatatgtagctatcatgtaaatgacaaaaggatttgccataaaagcaaagtactgataatagttggtgcaaaaaatactttcactgttgatc</dnaseqindica>
External Link(s)	NCBI Gene:Os11g0235200, RefSeq:Os11g0235200