Basic Info |
| Gene ID | OGI # | Score | Accession | Assembly | Annotation | Location | Links | |||||||
| OsLima_01g0003240 | OGI:01009140 | 16/16 | LIMA | Os127564RS1 | Gramene(+IsoSeq) | Chr01:2666059-2670138 | ||||||||
| Gene Symbol | - | ||||||||||
| DNA seq | ccgcatcccaaattcccagcaccagcagcgcaggcggcatcgatcctcgccgccgccgccgcgctctcctcctccgccagatccgcaccagcggctaggttcttccctccagcacgagagacgaggttttctttgttcagagggatccgggcagagccagagagggggttctcccgcgaacgccggcgatggcggagccggaggtaccggggttcgcgcgcgagcggcacgtgctgtttctggaggctatggcgtcggagctccccgcggactacgcctcgcaggaggtcaaccacctcaccctcgcctacttcgccgtcgccggcctatccctcctccgtgagctcgacctggtaaatcacactctccgcgtgatcttccctagcggttatcctctcgatccgtttcctgaattacgcgtaaattcctttttttagttatttgttgaactatggtctagatgtgcccgtgtgcaaagcttggatctttactttacctaccatgaagagtattctgaaacctcaaggatggctattggtagtatattcagagacaaattagttgatgtacccataatgggagttgcaattgatctttattgtgacaaacacagggatccaaagtttgtggatagcagaatgccaagtgtggaaggcggtcttttcaattttgttttggaattcctgtaaagaacaactactagctgcaaggtttaagcacgttagcccataagtggtcactgaccagtaaccagtctactcaaagcagttagagattattgctgttaggcaatttgtatctgtccggcacctagatcacagtatcacataactacattcgctttcgatttctagccaaactaaggggaaaggggcccatgtgatgtttctctagcaacgaattggtccaagtcccttaattcggtctaaattccagtcgtctttgtcttggccatgggcagttgccttaatgctttgcacagttaggagccgcctaattggttatgatttaagttcataacaaaaacatgatagcctcctgatatctccattctcaatttactagtaacttctaaaaaaacatatagcctcatgcaaatatttttttactagtcttatcatgaaaattgtacctgtatgtattatgtattaaaaccagtaaccatgcctggttgctagctgaaatatttattgtgggaatttaagttcactttgtgccttgactgagttgactcttcaggaagaagtaatatactgagttgactgagtagtaatttgatgagttgcttacttgtgtgcctttgattttctttaggttaacaaggatcaaatagccaaatggattttgtcttttcaagtacatcctaatacagacaatgaattagataatggtgagttttcctcagtacttatgtaataaagctctcaagatagctaattcatatttttcagatgcaatatattcattatatgacaatttttatgtttttaggacaattttatggattctgtggctctagaacaactcagtttccctcaactaacatgacggtagatgtggctaattctcaagtcaaccttttttttttcatacatctcaatttgtcgtttaatttttacattctgacagttcggaataggaattcatgcccttcctcaggacccttgccacaatggtagtcatcttgcaagcacttattctgcccttgctatcctgaagattgtaggttatgatttagcaaacattgatagcaaggttcttttgtcctcaatgagaaacctccaacagccagacggaaggtatgcattttagctttggtctccatgctaattattcttgtaattatcctccaaaaatatctatgcatttacatctgctacctgtgtttagttttaactgtatcaccagaagaatttcagccaactcacattctgccttgagatttcttaataccccatagttggcccacctccttgattatttttgtgttgattgctacctttccatttgcatatgttttctctgcatgaactaattcatgccatgtcgttcaacaaacttgatattggtaaatacctcctttctggtaaatttctgtattgctggtcagtcttcaagcttgttcaatcagaatgttaattaatgtgctgtgatcctaactgcatgcatgtgatagaggtgtttgtgcatgtgcaatgcaatcttgcttccctgtgagcatttcattgatttgagtaagatgtcttcatagttccattctgcaaacaactaaacaccatgcaccgcttaaatgcattagcttattggctaactagagaagcatctttttttagcttcatgcctactcatattggtgcggaaacagacctacgctttgtatactgtgcaggtgggttgcactatcatttacatttagtatgcttgcaattttatctttgtctgaaataacttgacacacttgtgctgtcttttcagctgcaatctgctcgatgctaaaagattggacaggaatggacaaggaaaaggccaagcaatacattcttagttgccaggttggcttacagcaattcctgatgcactgggttttgagacaccagtgtcttgcaacatgttatttaaatccttaattcttgtttctaccacatgcagtcatacgatggtggctttggcttggttcctggttcagaatctcatggtacagcttcttgtaacctttgatgtgcttcttgtcctactgagtttgtcatttcacgtggcagttttctttcagagtttcagaatgtaataattcagctaagtttttttttagtcagttatgggtactcattgtttgtctttgtgttagtgagtcaggtggagggacattctgtgctgttgcagctttgtgcctgatgggtttcattcaagctgacttggcatcaaatttacaagaaccatcatcaattgatgtatgcttgctcctggagtggtgtcttcaggttaaattctgctcaaccatatatatctgctattaccatcaaaatctgccctttgatgtgatttataggactaacatgtatttccaaaactggacagacactatatgcagtacaccaacccgttttaaatgtttctagtttagtagatatatgcatcaaccattcaattttcatttattcatgatggagaactgcagcttgctctatgacaccacaccatccagttgtttttaaaatctcccttgtgtagagtaaaaaatgtgaatcataaacggatttagttagaaatgattaataagaactaggacgactttactagtagggaatcctaactgttttcactattatcatatagagacaagcggcaGACggaggttttcaaggaagaaggaacaaatccagtgacacatgctatgcattttggtaaatacaccatacagagttatatatgctaattgcttgacaatcaaatagcaaacttgggtaatctgtcttgctgccaatcaacactctgcaggattggaggtgtcctaaagatcatcggtgcataccgcttcattgatcatggtgctttgcgaagttttttgctctcttgccaatcacctgtaatgacttcctctctgatcagcttaatttctcacattgatcatgttgcatctttactgatcatgtatgcccttgtttaccattgcaacagtatggaggttttacaaagtttttgtacgatcaattcccggatatttaccattcttactatggacttgccgctctttccttgctggaagaggaagggctggagccactctgcaccgaactggggatcctctctgctgcattgtagcttggaattggttgttcatcttctgtattcagtcaagttatggtgttctttaaagtccattcttgtaatctaatacaacatacaactgaaaagaatgcaagtaatctatacgattagttcatccgtgttgctttcagttcgtttgtttgtttgggtaggcaggtcatgcaacattgtcttggataatatgattgtgaagtagataggagcattctgtaaaggctatttcattttcagttagctgaactaactgatagtctg
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| CDS seq | atgcaccgcttaaatgcattagcttattggctaactagagaagcatctttttttagcttcatgcctactcatattggtgcggaaacagacctacgctttgtatactgtgcagctgcaatctgctcgatgctaaaagattggacaggaatggacaaggaaaaggccaagcaatacattcttagttgccagtcatacgatggtggctttggcttggttcctggttcagaatctcatggtacagcttcttgtggagggacattctgtgctgttgcagctttgtgcctgatgggtttcattcaagctgacttggcatcaaatttacaagaaccatcatcaattgatgtatgcttgctcctggagtggtgtcttcagagacaagcggcaGACggaggttttcaaggaagaaggaacaaatccagtgacacatgctatgcattttggattggaggtgtcctaaagatcatcggtgcataccgcttcattgatcatggtgctttgcgaagttttttgctctcttgccaatcaccttatggaggttttacaaagtttttgtacgatcaattcccggatatttaccattcttactatggacttgccgctctttccttgctggaagaggaagggctggagccactctgcaccgaactggggatcctctctgctgcattgtag
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| Protein seq | MHRLNALAYWLTREASFFSFMPTHIGAETDLRFVYCAAAICSMLKDWTGMDKEKAKQYILSCQSYDGGFGLVPGSESHGTASCGGTFCAVAALCLMGFIQADLASNLQEPSSIDVCLLLEWCLQRQAADGGFQGRRNKSSDTCYAFWIGGVLKIIGAYRFIDHGALRSFLLSCQSPYGGFTKFLYDQFPDIYHSYYGLAALSLLEEEGLEPLCTELGILSAAL |
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| Function | Geranylgeranyl transferase type-1 subunit beta [UniProtKB/Swiss-Prot:O80642] | ||||||||||
Transcripts
| Gene | Transcript | Chromosome | Start | End | Strand | Source | ||
| OsLima_01g0003240 | OsLima_01g0003240.03 | Chr01 | 2668336 | 2670138 | + | NAM | ||
| CDS seq | atgcaccgcttaaatgcattagcttattggctaactagagaagcatctttttttagcttcatgcctactcatattggtgcggaaacagacctacgctttgtatactgtgcagctgcaatctgctcgatgctaaaagattggacaggaatggacaaggaaaaggccaagcaatacattcttagttgccagtcatacgatggtggctttggcttggttcctggttcagaatctcatggtacagcttcttgtggagggacattctgtgctgttgcagctttgtgcctgatgggtttcattcaagctgacttggcatcaaatttacaagaaccatcatcaattgatgtatgcttgctcctggagtggtgtcttcagagacaagcggcaGACggaggttttcaaggaagaaggaacaaatccagtgacacatgctatgcattttggattggaggtgtcctaaagatcatcggtgcataccgcttcattgatcatggtgctttgcgaagttttttgctctcttgccaatcaccttatggaggttttacaaagtttttgtacgatcaattcccggatatttaccattcttactatggacttgccgctctttccttgctggaagaggaagggctggagccactctgcaccgaactggggatcctctctgctgcattgtag
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| Protein seq | MHRLNALAYWLTREASFFSFMPTHIGAETDLRFVYCAAAICSMLKDWTGMDKEKAKQYILSCQSYDGGFGLVPGSESHGTASCGGTFCAVAALCLMGFIQADLASNLQEPSSIDVCLLLEWCLQRQAADGGFQGRRNKSSDTCYAFWIGGVLKIIGAYRFIDHGALRSFLLSCQSPYGGFTKFLYDQFPDIYHSYYGLAALSLLEEEGLEPLCTELGILSAAL
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| Gene | Transcript | Chromosome | Start | End | Strand | Source | ||
| OsLima_01g0003240 | OsLima_01g0003240.02 | Chr01 | 2666106 | 2667870 | + | NAM | ||
| CDS seq | atggcggagccggaggtaccggggttcgcgcgcgagcggcacgtgctgtttctggaggctatggcgtcggagctccccgcggactacgcctcgcaggaggtcaaccacctcaccctcgcctacttcgccgtcgccggcctatccctcctccgtgagctcgacctggttaacaaggatcaaatagccaaatggattttgtcttttcaagtacatcctaatacagacaatgaattagataatggacaattttatggattctgtggctctagaacaactcagtttccctcaactaacatgacgttcggaataggaattcatgcccttcctcaggacccttgccacaatggtagtcatcttgcaagcacttattctgcccttgctatcctgaagattgtaggttatgatttagcaaacattgatagcaaggttcttttgtcctcaatgagaaacctccaacagccagacggaaggtatgcattttag
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| Protein seq | MAEPEVPGFARERHVLFLEAMASELPADYASQEVNHLTLAYFAVAGLSLLRELDLVNKDQIAKWILSFQVHPNTDNELDNGQFYGFCGSRTTQFPSTNMTFGIGIHALPQDPCHNGSHLASTYSALAILKIVGYDLANIDSKVLLSSMRNLQQPDGRYAF |
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| Gene | Transcript | Chromosome | Start | End | Strand | Source | ||
| OsLima_01g0003240 | OsLima_01g0003240.01 | Chr01 | 2666106 | 2670138 | + | NAM | ||
| CDS seq | atgctaaaagattggacaggaatggacaaggaaaaggccaagcaatacattcttagttgccagtcatacgatggtggctttggcttggttcctggttcagaatctcatggtacagcttcttgtggagggacattctgtgctgttgcagctttgtgcctgatgggtttcattcaagctgacttggcatcaaatttacaagaaccatcatcaattgatgtatgcttgctcctggagtggtgtcttcagagacaagcggcaGACggaggttttcaaggaagaaggaacaaatccagtgacacatgctatgcattttggattggaggtgtcctaaagatcatcggtgcataccgcttcattgatcatggtgctttgcgaagttttttgctctcttgccaatcaccttatggaggttttacaaagtttttgtacgatcaattcccggatatttaccattcttactatggacttgccgctctttccttgctggaagaggaagggctggagccactctgcaccgaactggggatcctctctgctgcattgtag
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| Protein seq | MLKDWTGMDKEKAKQYILSCQSYDGGFGLVPGSESHGTASCGGTFCAVAALCLMGFIQADLASNLQEPSSIDVCLLLEWCLQRQAADGGFQGRRNKSSDTCYAFWIGGVLKIIGAYRFIDHGALRSFLLSCQSPYGGFTKFLYDQFPDIYHSYYGLAALSLLEEEGLEPLCTELGILSAAL |
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| Gene | Transcript | Chromosome | Start | End | Strand | Source | ||
| OsLima_01g0003240 | OsLima_01g0003240.04 | Chr01 | 2666059 | 2669998 | + | IsoSeq | ||
| CDS seq | ccgcatcccaaattcccagcaccagcagcgcaggcggcatcgatcctcgccgccgccgccgcgctctcctcctccgccagatccgcaccagcggctaggttcttccctccagcacgagagacgaggttttctttgttcagagggatccgggcagagccagagagggggttctcccgcgaacgccggcgatggcggagccggaggtaccggggttcgcgcgcgagcggcacgtgctgtttctggaggctatggcgtcggagctccccgcggactacgcctcgcaggaggtcaaccacctcaccctcgcctacttcgccgtcgccggcctatccctcctccgtgagctcgacctggttaacaaggatc
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| Protein seq | PHPKFPAPAAQAASILAAAAALSSSARSAPAARFFPPARETRFSLFRGIRAEPERGFSRERRRWRSRRYRGSRASGTCCFWRLWRRSSPRTTPRRRSTTSPSPTSPSPAYPSSVSSTWLTRI |
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| Event Type | Chromosome | Start | End | Strand | Alternative mRNAs | Total mRNAs | Source |
| A3 | Chr01 | 2667608 | 2667718 | + | OsLima_01g0003240.02 | OsLima_01g0003240.02,OsLima_01g0003240.01 | All |
| A5 | Chr01 | 2668753 | 2668912 | + | OsLima_01g0003240.01,OsLima_01g0003240.03 | OsLima_01g0003240.01,OsLima_01g0003240.03,OsLima_01g0003240.04 | All |
Expression
| Leaf | Root | Panicle | |
| FPKM | 0.177765 | 0.000000 | None |
Homologues
| Genome & Annotation | Homologs | Type | Expression(FPKM) | ||
|---|---|---|---|---|---|
| Leaf | Root | Panicle | |||
| Nipponbare | IRGSP 1.0 | Gramene(+IsoSeq) | NA | NA | NA | NA | NA |
| Nipponbare | IRGSP 1.0 | MSU | LOC_Os01g05680 | RBH | 0.166192 | 0.524606 | 0.411050 |
| Nipponbare | IRGSP 1.0 | RAP-db | NA | NA | NA | NA | NA |
| Azucena | AzucenaRS1 | Gramene(+IsoSeq) | OsAzu_01g0003630 | RBH | 0.122565 | 1.692992 | 3.954034 |
| KETAN NANGKA | Os128077RS1 | Gramene(+IsoSeq) | OsKeNa_01g0003460 | RBH | 0.294431 | 1.535562 | 0.965141 |
| CHAO MEO | Os132278RS1 | Gramene(+IsoSeq) | OsCMeo_01g0003610 | SBH | 1.347394 | 23.056200 | 12.605496 |
| ARC 10497 | Os117425RS1 | Gramene(+IsoSeq) | OsARC_01g0003290 | SBH | 0.045135 | 1.180108 | None |
| PR 106 | Os127742RS1 | Gramene(+IsoSeq) | OsPr106_01g0003510 | RBH | 3.617102 | 22.207834 | 10.573362 |
| Minghui 63 | MH63RS3 | HZAU | OsMH63_01G0046700 | SBH | 9.59436 | 7.9674395 | 9.0453085 |
| IR 64 | OsIR64RS1 | Gramene(+IsoSeq) | OsIR64_01g0003420 | RBH | 0.095892 | 0.424919 | 0.866245 |
| Zhenshan 97 | ZS97RS3 | HZAU | OsZS97_01G0048100 | RBH | 5.8668715 | 10.345772 | 22.733634 |
| LIMA | Os127564RS1 | Gramene(+IsoSeq) | NA | NA | NA | NA | NA |
| KHAO YAI GUANG | Os127518RS1 | Gramene(+IsoSeq) | OsKYG_01g0003350 | RBH | 0.153574 | 2.889673 | None |
| GOBOL SAIL | Os132424RS1 | Gramene(+IsoSeq) | NA | NA | NA | NA | NA |
| LIU XU | Os125827RS1 | Gramene(+IsoSeq) | OsLiXu_01g0003530 | RBH | 0.306714 | 0.058413 | 0.113796 |
| LARHA MUGAD | Os125619RS1 | Gramene(+IsoSeq) | OsLaMu_01g0003390 | RBH | 0.192026 | 0.896729 | None |
| N22 | OsN22RS2 | Gramene(+IsoSeq) | OsN22_01G003570 | RBH | 0.280848 | 3.428406 | 2.858830 |
| NATEL BORO | Os127652RS1 | Gramene(+IsoSeq) | OsNaBo_01g0003420 | RBH | 0.109494 | 21.563763 | 8.029791 |
