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| Field | Value |
|---|---|
| Gene ID | LotjaGi2g1v0343700 |
| Transcript ID | LotjaGi2g1v0343700.1 |
| Lotus japonicus genome version | Gifu v1.2 |
| Description | DNA-directed RNA polymerase II family protein; TAIR: AT5G51940.1 RNA polymerase Rpb6; Swiss-Prot: sp|Q9FJ98|RPD6A_ARATH DNA-directed RNA polymerases II, IV and V subunit 6A; TrEMBL-Plants: tr|I3RZV1|I3RZV1_LOTJA Uncharacterized protein; Found in the gene: LotjaGi2g1v0343700 |
| Working Lj name | n.a. |
Genomic sequence (LjG1.1_chr2:82094158..82098706) extracted from Lotus japonicus Gifu genome v1.2.
ACGTATGTTTTGGTTCAATTGTTTGTTTGTCGAAGAACTAGAACCTCGAGGGACAAAGCTCAGAAGAGGGTTAAGCTTCT GAGGGATTCTCCATGGCCGACGAAGACTATGATGATGTTGACATGGGGTTAGTCCTATTCCTCTCTTCATCTCTGTTCAT TCAAATTAGGGTTTGAAACCCTTTCAGTTCAGACGAGTGAGTCTTAATCTTATTGCTTCTGTTTCTGCATATTATAGCAA AAACGGAAACTTTTGTAAATTTCCTCTTCTGGGTTTGCTCTAGTTTCTGTGTGTGGTATTTTGAATTGCTACAATTAGAG CCATTTGTTTTGTACTCTGCATGTTACTGCTGAAGTGAATGGTTTCTCATTGATGGTGATAATGTAGGTACGAGGATGAG CCTGTAGAGCCTGAGATTGAGGTATTTTTTTGTTTTGTTTGGGTTATGATTTTATTTATGTTTATGAAACTTGGCATTGA ATGAGTTGGTGGATTGAGCAGGAAGGTGCAGAGGAGGATTTGGAGAACAAGAATGAGGAGGAAGAAAATGGAGGAGAACC TCTTGAGACTGAGGAGAAGGAAGAGGCACAACCAGTGCAGAGGCCTCGGAAGACGTCCAAGTATATGACCAAGTATGAGA GAGCCAGGATTTTGGGTACCCGTGCTCTTCAAATCAGGTTTTCTTCTCAACTTTTTCAGAGTCTAAGATTCTGCTTCTTC ATTATTTGTGATGCTATAACACCAGTTTTTGTATTTCTGGTTGACCAGCATGAATGCACCTGTCATGGTTGAGTTGGCCG GGGAAACTGACCCACTTGAGGTAATAAAACCTTTTGTTCCCATTACAATCTCATGCTTTTGCTCTTGTACATTTCAAACT CATCTGTTTCTCAATTTCATCGTTTCGAGGGTGAGGGTATCTGTATTGTAAATATCCAAATAGTTGTCTACTTGTCTGTA ATCTGAAATTAGATATAAGTATAGCTGAGAAAGGATGGCTAATGCCCTACTTAAAGAAAGTTCATAAATATAAGTATAGA CTATAATCCGCGCGTTGCATTGATATTATAGTAATTGATTTCTTTCCTCTCCACCCTTTCCTTTTTACCTATTCTCTTCT ATTTTTAAAGAATTAAATGGTATGTGCTGTAAGTGGACTGCAAACTGAACTTCATCCTTCTCTTGTTGCTGTTTGATTGA TGGGTTCGTGAGGGGTCTAAATGAGATAATGCTTGAAGCATACATGAATGATCTTTGAAGATAATTTTATGCATTATTGA TTTTTGGTATGTTTGCTAGGATTCTGAGAATTTTAAACTGGTTTAACTCTGATATAAATCTTGATAATATGTGTACAAAT ACGTGCTGGTTTGTTGTTACAAATATAATGGCTTTGACTGTGGGAAGTTCATGGCTACATGCTCAATGCCTCAATTAGAT TGATTATTTGCAAATGCAAGGATGCTTTGTTATTGTTAATTTTTGGGCTGCTTCTTGTTGCTGTCAACACTGTGGTACAA GTTTGAGGCTATTATGTAAGTAAATAAATAAAATACTCTTGGGATATTATTGATGCCCCTGTGATTAAAAGTGGTGAACT GGTGATTTAAGTTGCTTAACTTAATGAAATTTTATTAATCTCTGTTTTGAGATTGACAATTACTTGGGAATAACTTTCTG GTATGAGAAGTTACAGGTTCAAGAACGTTTAAGATTTAAACATCTCCCGCAGATGAGCAGTGTACTTTGTATTATATACT GAGTGTGATTTGCTATTGTTATGTTATTTGATTCAATTCTCAGGTTTAGTTTTGGTGAAGAATACACTGTGCACTTTATA CAAGGAATAACTTGATTATGGGGTCTCTGAATTTTTATAAGTTGATGTGAACCATGTCCAACCTATGGCCCTGCTTGCCT CTTGATTCACTTTGCCTTCAATTTATCTTGTTTAACCTTTTTCAATTCCAATTATCACTGTTTCATTTCCTGCCTGTTCT GTTGATTATTTTAAGTTTTGACCCCCTTTTTTGTATTTGCTATTAGGAACATATGTTAGCTCTGTTGTGGTTTCTTCAGT TTTATTTTATATCAGTACTCAGTAGTGTGATAGCTATAGTTTTACATTTAATTTGAGATTGTACCTAGATTATATAAAAT CTTGTCTTGTTCTCCCAACTGGTCAGATTGCCATGAAGGAGCTTCGAGAGCGGAAAATACCGTTTACCATCCGTCGCTAC TTGCCTGATGGAAGGTAAATACTACCCAATATTTAAGTTGCCCAAGTTGTGGACTTTCCTCGTGGGACTTCAAAACTGAT TCCGCGCTTTTGTGTCATACTCACTGTTGTCTTTTTCTTTTTTTTGTTGCTGCATTTTGCAGTTATGAAGATTGGGGAGT TGATGAGCTGATTGTGGAAGACTCATGGAAGAGGCAAGTGGGTGGTGATTGATGGTTTGAACTGATAGGTCTGGATAGGA GTTAACGGACACTAAAGATTTCTCTTGAAATTTATCGATGATTTGTCTGAAGCTGAAACTGATCTATGGTCCTACCAAAA AGCTTGTAGCGTTTTAATTTTATCGCTATTAGGACACAGTGCAATATGAACATGTTATTTGTCTTTGGTTTTCATGGTGT TTGTCATGTGGTCTTCTGCATCATAGCAATAGAACTAATTACTAAACCTAAAATCCTAAATGACGAGCTTTGTTAAAAGT ACTTCTGCGTATTATGTGCTTTATAGATGTTTATGCAATCTGTTCTTCCTTTACTTAAATATGATTTTTTCTTCTAGTAG TGTTTCTAATAAAATCTACTCACTGCGAAATCTGCAAAGTTGTCAAACATGACAATTAACCGAGCAATACAAGTTAGAAG AGAACTTGAGTCATCTTATTAATTTTCGGCTGTAGTTCAGCTTAATGGCGTTCTTAGATTCCAATTAAGACAACTCTTAA TTAAAGTCATGATCAAGCTCAATTACATTCTGGATGGACTCTAGTGGTTAGTATCAAGACAGTGAAAACAGTGAAGGCAC AAATCAGTGTCAATATGTCATAGAGAATGTGGAAATATGGTATTGATGGAAGTGACAAAAGTAAAAGCTATTCTCCAATT CCCTCTTCCTTGGTTTCAGCTAAAACTTTATAAGTTCAAAATTTGTTAATAACTCGATAGGAGGAGAATTTGTTAATAAC TCATAAAACAGTGTGAATAGCTGGTCCAAGTCTACTAACCCAACAAAGGGCTTTACAAATCAGCTACTATTACAGATATG ATGACCGAGTTTTCTTCTACTATATCTCTACCAACCTACATGTTTTCTTCTTCTTCGGCATCATCTGAACTTTGGAGATG GCTTAGCTTCACTCTTGCCTTTTTCGGTTGTGGTAAGTCTTCTCTTGGTTCATCATCTTCATTACCCTTCCTCTTCTCTC TCTCACCTTTTTCTTCATCAACAACAGCTGCAGGACGTTCATCAGCACCCAAATTACCTTCCGATTCCAATGACAGCGCC TTTGTATCAGATTCTCCAGCTTCATCCTTATCTTTAGATTCTCCAGCTCCATCTTTATCTTTAGATTCTCCACCTACATC CTTATCTTTTGATTCTCCATTCTTAGCTGATCTTTCATATCCCTCCAGAAAAGAGCGAACTTCTTCATCAGTAGCAAGAT CCAAAGGCGTCTTCCCCGCCTTTGTCTTCGCACTGAGGCTAACCCCTTTCTTGGCCAAGTACTTAACAAGCTCCAAATGA GAACCTTGAGCAGCATAATGCAACGGACTCATTCCTTTGCGAGTAAAGGATTTGATAGAGGCCCCAGCCGAAACTAGAGC CTGAACAACTCTCAAGTGCCCCTTCTGCGCCGCAAAGTGTACCGCAGCCATGTCATCCATAGCAGCAGCACCAACAGCAG CCTTGTTCTGGCACAGATAACTTACAACCTCCGCATGCCCGGCAAATGCTGCTAAATGCAGTCTATAGTCCAAATTTGTT TGTCAAAGAAACAACATAGCAATAACAGAATTTCAAAATTCCCAAGAAAAACCCTAGTTACTAAACCCAGATAAAAGTTT CTTCCTTTTTTCCTCAATTCAGCTTAAAATACAATAATCATATAATGTTGAAGAAAAATTCAACCATCTATATTGATTTT AACATGTAGATAACATAAACATGAATCATAAATATGAAAAATGAAATTCTCAAGAGCATGTAAGAATTAACCTAATAATC AGATAATAGATGCAATGAAATGATGAATCATCACGCTATTGAAAGGGAAGAAGGATACGGTGTTCTGGAATGCTTATCTC TGGAATTAACGGCGAGAGGATTTGAAATCAAAATTGACTGAACGGCGGTGAGATCGCCGGACCTTGCCGCCGTATGAAGG TCGTTGGCGGTTCCCGATTTGTGTGGATTGCCCTTACCCATCTTCTCTCCTTCTTCTTCTTCACGCTGTTACCCTGCAAA AACCCTTGCTGGTTCTGCTCTTCTCTTCTCCTAAAAATCAAAATGCTCTTTTCTTTTCTCCCTCTCCCC
CDS sequence (LotjaGi2g1v0343700.1) extracted from Lotus japonicus Gifu v1.2 CDS.
ATGGCCGACGAAGACTATGATGATGTTGACATGGGGTACGAGGATGAGCCTGTAGAGCCTGAGATTGAGGAAGGTGCAGA GGAGGATTTGGAGAACAAGAATGAGGAGGAAGAAAATGGAGGAGAACCTCTTGAGACTGAGGAGAAGGAAGAGGCACAAC CAGTGCAGAGGCCTCGGAAGACGTCCAAGTATATGACCAAGTATGAGAGAGCCAGGATTTTGGGTACCCGTGCTCTTCAA ATCAGCATGAATGCACCTGTCATGGTTGAGTTGGCCGGGGAAACTGACCCACTTGAGATTGCCATGAAGGAGCTTCGAGA GCGGAAAATACCGTTTACCATCCGTCGCTACTTGCCTGATGGAAGTTATGAAGATTGGGGAGTTGATGAGCTGATTGTGG AAGACTCATGGAAGAGGCAAGTGGGTGGTGATTGA
Protein sequence (LotjaGi2g1v0343700.1) extracted from Lotus japonicus Gifu v1.2 Proteins.
MADEDYDDVDMGYEDEPVEPEIEEGAEEDLENKNEEEENGGEPLETEEKEEAQPVQRPRKTSKYMTKYERARILGTRALQ ISMNAPVMVELAGETDPLEIAMKELRERKIPFTIRRYLPDGSYEDWGVDELIVEDSWKRQVGGD
Data for domain prediction are obtained with InterProScan, and merged with InterPro data obtained from the EB-eye REST service.
| Prediction algorithm | Identifier | Start | End | Length | E-value | InterPro ID |
|---|---|---|---|---|---|---|
| PANTHER | 1 | 144 | 144 | 3.7E-77 | – | |
| PANTHER | 1 | 144 | 144 | 3.7E-77 | – | |
| PIRSF | 1 | 135 | 135 | 6.1E-56 | ||
| MobiDBLite | 1 | 45 | 45 | - | – | |
| MobiDBLite | 1 | 63 | 63 | - | – | |
| PIRSF | 1 | 135 | 135 | 1.6E-49 | ||
| Gene3D | 2 | 135 | 134 | 6.0E-52 | ||
| SUPERFAMILY | 3 | 134 | 132 | 1.18E-45 | ||
| MobiDBLite | 46 | 63 | 18 | - | – | |
| SMART | 59 | 112 | 54 | 2.7E-6 | ||
| Pfam | 61 | 112 | 52 | 2.0E-16 | ||
| Hamap | 63 | 118 | 56 | 18.393 | ||
| ProSitePatterns | 66 | 80 | 15 | - |
GO predictions are based solely on the InterPro-to-GO mappings published by EMBL-EBI, which are in turn based on the mapping of predicted domains to the InterPro dataset. The InterPro-to-GO mapping was last updated on , while the GO metadata was last updated on .
| GO term | Namespace | Name | Definition | Relationships |
|---|---|---|---|---|
| Molecular function | DNA binding | Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid). | ||
| Molecular function | DNA-directed 5'-3' RNA polymerase activity | Catalysis of the reaction: nucleoside triphosphate + RNA(n) = diphosphate + RNA(n+1). Utilizes a DNA template, i.e. the catalysis of DNA-template-directed extension of the 3'-end of an RNA strand by one nucleotide at a time. Can initiate a chain 'de novo'. | ||
| Cellular component | Nucleus | A membrane-bounded organelle of eukaryotic cells in which chromosomes are housed and replicated. In most cells, the nucleus contains all of the cell's chromosomes except the organellar chromosomes, and is the site of RNA synthesis and processing. In some species, or in specialized cell types, RNA metabolism or DNA replication may be absent. | ||
| Cellular component | RNA polymerase II, core complex | RNA polymerase II, one of three nuclear DNA-directed RNA polymerases found in all eukaryotes, is a multisubunit complex; typically it produces mRNAs, snoRNAs, and some of the snRNAs. Two large subunits comprise the most conserved portion including the catalytic site and share similarity with other eukaryotic and bacterial multisubunit RNA polymerases. The largest subunit of RNA polymerase II contains an essential carboxyl-terminal domain (CTD) composed of a variable number of heptapeptide repeats (YSPTSPS). The remainder of the complex is composed of smaller subunits (generally ten or more), some of which are also found in RNA polymerases I and III. Although the core is competent to mediate ribonucleic acid synthesis, it requires additional factors to select the appropriate template. | ||
| Biological process | Transcription, DNA-templated | The cellular synthesis of RNA on a template of DNA. |
Expression pattern of LotjaGi2g1v0343700.1, powered by ExpAt. For advanced configuration, data transformation and export options, view expression data in the ExpAt application.
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