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| Field | Value |
|---|---|
| Gene ID | LotjaGi1g1v0539400 |
| Transcript ID | LotjaGi1g1v0539400.1 |
| Lotus japonicus genome version | Gifu v1.2 |
| Description | Transcription initiation factor TFIID subunit 6; TAIR: AT1G04950.1 TATA BOX ASSOCIATED FACTOR II 59; Swiss-Prot: sp|Q9MAU3|TAF6_ARATH Transcription initiation factor TFIID subunit 6; TrEMBL-Plants: tr|A0A0L9UX09|A0A0L9UX09_PHAAN Uncharacterized protein; Found in the gene: LotjaGi1g1v0539400 |
| Working Lj name | n.a. |
Genomic sequence (LjG1.1_chr1:106795618..106802453) extracted from Lotus japonicus Gifu genome v1.2.
GGGCTCCAAACCCAACTCCCCAGACAGAGACAGACTGTGACTCTCATTCATTCTCACAGTCTCATACATATGAAGTGAAC CCCATCTCTCTTCAAAACCAATCACTCCTCCGTTTCACCGTCGTCTCGCAACTCCGGCGACTCACCTCACCGCTCACCGG AGACCCAGTTTCATCTAGGGTTTCCACTTCCCATCCCCAAATTTTCATGCTCTGAACTCTCAAATCGTTCTTCACACACA CAAGTGTTTTCTTCCAGCAACTGGTGGTGTGTGTGTGTGATTGAACATGAGCATTGTTCCCAAAGAGACCGTGGAGGTTA TTGCACAGAGTATTGGGATTAACACCTTGTCTCCCGATGTTGCTCTTGCTGTTGCTCCTGATGTTGAGTACCGTATGCGT CAGATTATGCAGGTGCCCTTGTTTTTTAAGTTTCAAAGTTATGATCTTTTCTTTATTTTTGCTTGTGGGCTTCAATCAAT TTGGTGAATAAATTTGAAATTTTGAACAAAGAAGAGTGTTTGATGAAGTATGTAACATGGTGTAATATGGTTTGTTCAAA CCCCAGGAAGCAATCAAGTGCATGCGGCATTCTAGGAGAACCACTTTGACAGTAGATGATGTTGATGCTGCACTCAACTT GAAGAATGTTGAAGTAAGTAAGCTTCTTAAGTAATTTGACTTAGTACCCGTTTGGATGCGAACTAAAGAGCACTTATTGA AGCTTGTTTAGTGTTTTTTCTAATAGATAAGCTCCAATAAGCACGTATCCAAACGGGCTCTTAGATGACCGATAGAAGAA AAAAAATGTGTTTGAAGTGGTTGGCTAACTGTTTTTAAGAGTATTTTCAGTCTTCCTGTTTGGTTATTTTGTCCATATAT AATAGGGTTGTCACTTGTCAGTAAGTTGTTTGTTGTTCCAAATGAATCGTTGGTGCGGGGTGGGTGGTAATGGAATTAAC GAGTGTTCAATGTTCTGGGCTAACTTCATATACAGTTCTGAAGTTAATATGTTTATTTGGGATGTGAGCTTTCAGAACAT TGTTGTTGTAAGGGAATGAATCTGGCTCAATGTGTTAATTTTGTAGTGTTAATACTAGATGCATTGTTCCTTCTCTTCTT CTTTTTTTTTTGGACAGCAAAAAAAAAATGTTAGTAAATTAGTCCTCTCAGGGTTCGAACCCTGGACCCTTCACCCTAAA GCATGGATAATTTTCAATTGAGTGATGAACAATTGGTTCTGCGATGTCAGGATCTGTGTATAGCCAGGACAAAAGTTCTA CGATTTCCCGATATTTGCAAATCGATGATGTATATTAGAACTGCCATCTAGAAACTTTTGGCAGTGATTTTTCATGGTGA AAAATTCTTAGTTTTTGTCTCTAATATCAATACCGCTTCTTGTTTTTCTTATGTCAGCCAATATATGGATTTGCATCTGG CGGTCCTTTACGGTTCAAAAGAGCTGTTGGACATAGAGATTTATTTTACATTGATGACAAGGATGTAGACTTAAAAGATG TAAGGGAGTACTAAATCATTGTCACTTCAATTGGATTTGAATTTTGAGTGTATCCCCTTTTTATAATCAGATTCCGTGTT AATCGTAGGTCATTGAAGCTCCTTTACCAAAAGCACCCCTTGATACTGCAATTACGTGCCACTGGCTTGCCATTGAAGGT GTGCAACCTGCTATTCCGGAAAATGCTCCTATAGAGGGTAGGTATCTAACCTTGAGTGCTACCTGTAGGTATTTTGTTCA CAGATTAATTGTTCATGGTACAATACTTTAAAATTAGGAATCCTTGAGTTTATGCTTTTTCTTATGTTATCATTTCAATG TCATTATGTATTGTTCTTTGTTCGTTCATGATGTCAAATTTTTTTATCGAGTTAGTGATTAGATTGTGAGATATGATAAC TGAAGTGGGTTTTCTTATTTTTATAGCTATGTAGCATGGCCATCTCACATGTGTACAATTTGTGGAAAACATGTATCAAT ATATTACCATTATCTTCATGAACCTTGATCATCAATTATAAATGGTAGATATGCAAATTTATTAATCTAATTAAATATAC TGAGTTTCACATATACATATGCATGTTTATAGCTACATATGTACTTTTGGAGATGCACATCATGCAGACAAACAAGAACT ATTTGGCTGCTTATTGGTTCACAATCTATTAATTGACGCTTTTATGTCCTTCCATGTACCTATAGCTTGCTTTCCCCTTT CCGTTTAAGAATAAATTTTTTTCCCACTGTTTTATTTGCAGTAATTTCAGCTCCTCCTGATGTAAAAAAGCCTGATCAGA ACAATGATGGACTTCCAGTTGACATCAAGTTACCTGTTAAGCATGTATTATCTAGAGAGCTTCAGGTATCAAAATTATTA AGCCACTGTGAGCTATTTTGTATCTCATCCTTTAGTTCATTTATCATTTAACTTGGTTCTGTATTTTCTTGCAGCTGTAT TTTGATAAAGTGACTGAACTAACTTTAAATGAGTCGGATTCAGTTCTATTTAAAGAAGCATTAGTAAGTTTGGCTACTGA TTCAGGACTACATCCATTAGTTCCTTATTTCACATGCTTTATAGCTGATGAGGTAATCATATTTTTTTCTCTTTATCATG GTGGATAAGAATGAAAATGTTACCTTATCTAGCTCATTACAACTGTGTGCTTCTCCATTCTTGTCAGGTTTCTCACAGCT TGAATAATTTTCCTCGTCTATTTGCCTTGATGCGAGTTGTTAGTAGGCTTCTGCAAAACCCTCATATCCATATTGAACCT TATGTGAGTTCACCCCTTGTTGATTTAGTGTATTTCTATATTTGTTACTGACATAACTTGATCTTTGCAAAAGCAAAGTT GCATTATTAATATTTTAATTAGGTTGGTTCATCTTTCTATTTGGAACTCTGTAGTGTCCAACTTTCCATTGAAACGTGAA AGTGTGCTGACTGCTGAGTTATTAAAGTTGATTTTTCATTTTTTTGCTCCATCATAAATATGACCCTGACAACTTTTGGC CCGTAAAAATGTAAATGCTAGTTGACAAAATTTGTATGTTGCTGTCTTATTGTTTTCTTCATAATCGGCTTAGTAATAAA GTGTTTATATTTTTCAATGTTGAATTGTTGATCATTGTCGTCACATATAAAAAAGTTTTGTCTGCTCTAGACAATTAATA TTTTGGGTGCGTTTGAAAGAGCTCATTTGAGTTTATCGTATAGTATAAGCACTTAAGCAGGTGTTTGGTTAAACTTATGA AAATAGCTTATGACATACTATAAGTTCTTTTGATAAACTTCTGAGATTATCTTATGAATGAGTGTTTATAACTCTACCTG TAAGTTCTTTTAAGTTTATTTCCATCAACTTCTCTAATAAGTTTATGAATAAGCGCTTCTGTGATAAGTTCTTATTGACA TAAACGCATAATTAAGTTGTTTATCCAAATGCATTTTCTTTGTATGCAACTATTTATACTCAACAATAAGTTCTAACAAA CAACATATGGGCTCAATGTGGCAAAGAATGGGATAAAAACTTGGTACACGAAAATGAGTTTATGTGGAACAATCTCTTAT CTCCTTTTCTTTACTTTTTTGCTTGCTTCAGCTACACCAGTTGATGCCTTCTATTGTGACCTGCCTTGTTGCTAAAAGGT TGGGCAGTAGATTGTCAGACAACCATTGGGAACTTAGAGACTTCACAGCTAATCTGGTAGCCTCAATATGTAAAAAGTGA GATATCTTCACTCTATTCTGTTATATGTTGTGGATCATGATATACAGAATCAATTTATACTTGATAGTTTTATTGGTCTC TAATTTTATTGTTGCAATCCATTCTACGTTTCCTGCTTCGATTTTATTGTGGCAAAGCTATAGATTTGTGTATTTCCTTT AAAATGAACCCTTGTTTTGGAGCTCCAGTTTAAAGGGGCACATCAATGTTTTCATTTGGTGAATTTGTACATTAAAGCTT ATGCTTTGTTGAGTTCTTGCAATCCCCTAGCATAGTCTTTGTCCTGTGAAGATGCTGAACTTGGTACAGACTGTTGAATC ATTTAACTGAAACTAGAAATATATAGTCTTCCTTAATAACTTTTGTTAACTTACCTATTTTAAAATCGTATGAGGCTTAT TTGTTTGACATTTGTTGATTGCATTGCAACTTTACCTTTTCTTAACTTTCAAATGCTTCTTTATGTAGGTTTGGACATGT TTATAGCAATCTACAGTCCCGGTTGACAAAAACATTGCTGAATGCATTCTTGGATCCCAAGAAGGCATTGACGCAACACT ATGGAGCAATTCAGGGGTTAGGAGCACTGGGACCTAATGTGGTATGTGCCTATCCATGCTCTAGGAAATTATGGACTTTT TCTAGGACCAATAGTAGGGAAAATATTGTGAAAGACAAATCAATAAGCCAGTACATTTGTATTTGTTCTATGTTTAATGC TTCCGATGGTATCAGAAATAGCTGAAGAAAAATTTGTTTTTATATCAGAAATACTCCTGTGAGTCAAAATGACGACTTTC CAAAGGACTAGTTGTAATCTATATGATTAGAAGATTAGGTTCCCATGTTGTTTAATATGGAAAGGAAATGTTATATCATA TATTCAGTATTATGAAGCATATTGAAAGTAGAAATTGTAAAGATTTGGGGAAAAGGGTACTGCATGCTTGATGTTTATTC ATATTACTATCAAGCAGCTATATAAGGTAGTTTTGTTATTTACTCCATTAACAGTCTTGAGGACAAAATTTGAAAGAGTG GGGGGAACTTGAAGGATTCAATTAACTAATTTAAAAAAGCCATGTATGTTTGGGGTGTATTTCTTAGTTGTTTGACTCAA GTCAGATTTGATAATTACATCTTGAGTCTTTGACATGTTTTTGATGATACCCTTACTTTGAAAGTAGGTTCGCCTTCTTT TGCTACCAAATCTTGAAACATATATAAGACTTCTTGAACCAGAGATGCAGCTCGAGAAGCAGAAAAATGAAATAAAAAGG CATGAAGCTTGGCGTGTTTATGGAGCCTTGCTGGTAAGATATGTTATCAAATACAGATACTTCCTAGTCAAATGTAGCTT CTTTTATGACTGAAAAACATCAGTCTCGGTACAATATGGTTGGTCTGATGATTGTATGCGATGTATTATTCAGCGTGCTG CAGGTCAGTGTATATATGATCGACTCAAGATGTTCCCTACATTACCATCTCCTCTCCCTCAAGCTGTCTGGAAGACCAAT GCTAGAGTTCTTACCTCTTCAACTCGTGAGTATTTCCTTTGTTACCCAAGAAAATTCTGGTCTGTAGTTCATGAAATGTG CAAGCACAATAATTTTTAAACCTAGTCTTGGGAGGTAGGACACCTTTTGCTTGGATAGCTAATTTAATGGAAACAAATGT GTATAATACTAAAAGAGATGCTAATATTGGTATCTTACTGAGAGGGTTGGAGCTTTTGAACCTGGAGCAAGAAATAGTTA AATTGGTCATATTCAAGATTTTGAAATGGTGAATTGCCTAATCATTTAATTAAAGTCACAATGGAAAATAGTGAAATATG ACCTGTAAATAATGCATAATGCTCTGAATAATTTCAAACTAGGAATTGACAAAAAACTTGATCATAAGTTTCACAAAACA AAATCACAAGTCATAGTTGAGTCTCCCTTATATAAAAGCTAATAAATAAAGAACCCGTACATAACATACGAGTAACTAAG TGAACTCATTACTCATTAGTCATAATTCAAATGGAAGTTCATCCTAAGTTCACTGCCCACATTGTTTGTGGACTTCGGAT GATAACTACATTACATCCTTCTTCCCATTCTTCCTTTCCTGGTTGCCATATAAAGTGACTGCACGAAGCCTGTGTTTTAT AAGGAAAACGGAGCAATGATACACCTATAAGGTTCATATCAAGTGAGCAATGTTTCTGTTATTAGGAGCTACTAAATCTC CAATGGTTCTGTTACTCGTCAATGTCATGATGATTTAAAAGAATATCTTGGGGTCCACTTGAAACTTTCACTAGTCTGGT CTGCAGTTTACCAAACCAGAGTATCAACTGTTTCTTTGTACTTTTCCATAGTTTGTATTCTTACTCATTCCCATGTTTGA TTATCAAGTTAAACGCAAGGCAAGCCATGAGCAATTGGAAGAGCAGCCCCCTTTAAAGAAATCTGCTACTGATGGTGAAG CTGATGTAATTATGACAAATTCGTCACCGTCTCACAAGCAAGGGGAGACAGGGACTCAAGATTCTTCAGTTGATTCAATA GCAGCCGCATCAACATCTTCTAGGCAGATGAAAAATGAGACCACTTTAGATGGCGAAGTTAAAAGTAACAAGGTAGATAC TCAGGCATTGAAGATATCTGCTGCCCTCACCCAGGTTTGGAAGGATGAGCTGAATTCAGGACGTACCCTGGCGTCACTGT TTGAGTTGTTTGGTGAAGCCATTCTTCCCTTCATTAAGGCTCCTGAGATGTACGTGTTCCTGTAACTTGGGGAGTATTAT AGTAATCTTGTTTATGGATAGATACATGATGGATGATATTTTTGACAACCTAAAATTACTTAATGGTATAAAATGTACAA TTTTCTTTCTGATGAATGAAATTTACAGTTCACGTGAAACTTGATGCTTTACTTTGTGTTTGGTTTCCCGTTTGCGTTGT AGTAAACCTGTGCCTATGCACAACCGGACAAGCTAGACTTCAGTTGTTGACTCAACGTGGATTTGCGTTGAGTTAATGGA AATCCAAATAGACACTTAGATGTTGGATGATATTGC
CDS sequence (LotjaGi1g1v0539400.1) extracted from Lotus japonicus Gifu v1.2 CDS.
ATGAGCATTGTTCCCAAAGAGACCGTGGAGGTTATTGCACAGAGTATTGGGATTAACACCTTGTCTCCCGATGTTGCTCT TGCTGTTGCTCCTGATGTTGAGTACCGTATGCGTCAGATTATGCAGGAAGCAATCAAGTGCATGCGGCATTCTAGGAGAA CCACTTTGACAGTAGATGATGTTGATGCTGCACTCAACTTGAAGAATGTTGAACCAATATATGGATTTGCATCTGGCGGT CCTTTACGGTTCAAAAGAGCTGTTGGACATAGAGATTTATTTTACATTGATGACAAGGATGTAGACTTAAAAGATGTCAT TGAAGCTCCTTTACCAAAAGCACCCCTTGATACTGCAATTACGTGCCACTGGCTTGCCATTGAAGGTGTGCAACCTGCTA TTCCGGAAAATGCTCCTATAGAGGTAATTTCAGCTCCTCCTGATGTAAAAAAGCCTGATCAGAACAATGATGGACTTCCA GTTGACATCAAGTTACCTGTTAAGCATGTATTATCTAGAGAGCTTCAGCTGTATTTTGATAAAGTGACTGAACTAACTTT AAATGAGTCGGATTCAGTTCTATTTAAAGAAGCATTAGTAAGTTTGGCTACTGATTCAGGACTACATCCATTAGTTCCTT ATTTCACATGCTTTATAGCTGATGAGGTTTCTCACAGCTTGAATAATTTTCCTCGTCTATTTGCCTTGATGCGAGTTGTT AGTAGGCTTCTGCAAAACCCTCATATCCATATTGAACCTTATCTACACCAGTTGATGCCTTCTATTGTGACCTGCCTTGT TGCTAAAAGGTTGGGCAGTAGATTGTCAGACAACCATTGGGAACTTAGAGACTTCACAGCTAATCTGGTAGCCTCAATAT GTAAAAAGTTTGGACATGTTTATAGCAATCTACAGTCCCGGTTGACAAAAACATTGCTGAATGCATTCTTGGATCCCAAG AAGGCATTGACGCAACACTATGGAGCAATTCAGGGGTTAGGAGCACTGGGACCTAATGTGGTTCGCCTTCTTTTGCTACC AAATCTTGAAACATATATAAGACTTCTTGAACCAGAGATGCAGCTCGAGAAGCAGAAAAATGAAATAAAAAGGCATGAAG CTTGGCGTGTTTATGGAGCCTTGCTGCGTGCTGCAGGTCAGTGTATATATGATCGACTCAAGATGTTCCCTACATTACCA TCTCCTCTCCCTCAAGCTGTCTGGAAGACCAATGCTAGAGTTCTTACCTCTTCAACTCTTAAACGCAAGGCAAGCCATGA GCAATTGGAAGAGCAGCCCCCTTTAAAGAAATCTGCTACTGATGGTGAAGCTGATGTAATTATGACAAATTCGTCACCGT CTCACAAGCAAGGGGAGACAGGGACTCAAGATTCTTCAGTTGATTCAATAGCAGCCGCATCAACATCTTCTAGGCAGATG AAAAATGAGACCACTTTAGATGGCGAAGTTAAAAGTAACAAGGTAGATACTCAGGCATTGAAGATATCTGCTGCCCTCAC CCAGGTTTGGAAGGATGAGCTGAATTCAGGACGTACCCTGGCGTCACTGTTTGAGTTGTTTGGTGAAGCCATTCTTCCCT TCATTAAGGCTCCTGAGATGTACGTGTTCCTGTAA
Protein sequence (LotjaGi1g1v0539400.1) extracted from Lotus japonicus Gifu v1.2 Proteins.
MSIVPKETVEVIAQSIGINTLSPDVALAVAPDVEYRMRQIMQEAIKCMRHSRRTTLTVDDVDAALNLKNVEPIYGFASGG PLRFKRAVGHRDLFYIDDKDVDLKDVIEAPLPKAPLDTAITCHWLAIEGVQPAIPENAPIEVISAPPDVKKPDQNNDGLP VDIKLPVKHVLSRELQLYFDKVTELTLNESDSVLFKEALVSLATDSGLHPLVPYFTCFIADEVSHSLNNFPRLFALMRVV SRLLQNPHIHIEPYLHQLMPSIVTCLVAKRLGSRLSDNHWELRDFTANLVASICKKFGHVYSNLQSRLTKTLLNAFLDPK KALTQHYGAIQGLGALGPNVVRLLLLPNLETYIRLLEPEMQLEKQKNEIKRHEAWRVYGALLRAAGQCIYDRLKMFPTLP SPLPQAVWKTNARVLTSSTLKRKASHEQLEEQPPLKKSATDGEADVIMTNSSPSHKQGETGTQDSSVDSIAAASTSSRQM KNETTLDGEVKSNKVDTQALKISAALTQVWKDELNSGRTLASLFELFGEAILPFIKAPEMYVFL
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 | 544 | 544 | 0.0 | ||
| SUPERFAMILY | 1 | 66 | 66 | 1.24E-16 | ||
| Gene3D | 1 | 66 | 66 | 9.1E-32 | ||
| Pfam | 1 | 65 | 65 | 8.1E-29 | ||
| PANTHER | 1 | 544 | 544 | 0.0 | – | |
| SMART | 2 | 68 | 67 | 6.0E-34 | ||
| CDD | 5 | 341 | 337 | 4.77344E-158 | – | |
| Gene3D | 167 | 372 | 206 | 2.5E-75 | – | |
| SUPERFAMILY | 188 | 393 | 206 | 1.77E-9 | ||
| Pfam | 262 | 349 | 88 | 2.0E-32 | ||
| MobiDBLite | 419 | 490 | 72 | - | – | |
| MobiDBLite | 423 | 438 | 16 | - | – | |
| MobiDBLite | 444 | 483 | 40 | - | – |
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 |
|---|---|---|---|---|
| Cellular component | SAGA complex | A SAGA-type histone acetyltransferase complex that contains Spt8 (in budding yeast) or a homolog thereof; additional polypeptides include Spt group, consisting of Spt7, Spt3, and Spt20/Ada5, which interact with the TATA-binding protein (TBP); the Ada group, consisting of Ada1, Ada2, Ada3, Ada4/Gcn5, and Ada5/Spt20, which is functionally linked to the nucleosomal HAT activity; Tra1, an ATM/PI-3 kinase-related protein that targets DNA-bound activators for recruitment to promoters; the TBP-associated factor (TAF) proteins, consisting of Taf5, Taf6, Taf9, Taf10, and Taf12, which mediate nucleosomal HAT activity and are thought to help recruit the basal transcription machinery; the ubiquitin specifc protease Ubp-8. | ||
| Cellular component | Transcription factor TFIID complex | A complex composed of TATA binding protein (TBP) and TBP associated factors (TAFs); the total mass is typically about 800 kDa. Most of the TAFs are conserved across species. In TATA-containing promoters for RNA polymerase II (Pol II), TFIID is believed to recognize at least two distinct elements, the TATA element and a downstream promoter element. TFIID is also involved in recognition of TATA-less Pol II promoters. Binding of TFIID to DNA is necessary but not sufficient for transcription initiation from most RNA polymerase II promoters. | ||
| Biological process | DNA-templated transcription, initiation | Any process involved in the assembly of the RNA polymerase preinitiation complex (PIC) at the core promoter region of a DNA template, resulting in the subsequent synthesis of RNA from that promoter. The initiation phase includes PIC assembly and the formation of the first few bonds in the RNA chain, including abortive initiation, which occurs when the first few nucleotides are repeatedly synthesized and then released. The initiation phase ends just before and does not include promoter clearance, or release, which is the transition between the initiation and elongation phases of transcription. | ||
| Biological process | Regulation of transcription by RNA polymerase II | Any process that modulates the frequency, rate or extent of transcription mediated by RNA polymerase II. | ||
| Biological process | Transcription initiation from RNA polymerase II promoter | Any process involved in the assembly of the RNA polymerase II preinitiation complex (PIC) at an RNA polymerase II promoter region of a DNA template, resulting in the subsequent synthesis of RNA from that promoter. The initiation phase includes PIC assembly and the formation of the first few bonds in the RNA chain, including abortive initiation, which occurs when the first few nucleotides are repeatedly synthesized and then released. Promoter clearance, or release, is the transition between the initiation and elongation phases of transcription. | ||
| Cellular component | SLIK (SAGA-like) complex | A SAGA-type histone acetyltransferase complex that contains Rtg2 and a smaller form of Spt7 than the fungal SAGA complex, and lacks Spt8. The complex is involved in the yeast retrograde response pathway, which is important for gene expression changes during mitochondrial dysfunction. | ||
| Molecular function | Protein heterodimerization activity | Interacting selectively and non-covalently with a nonidentical protein to form a heterodimer. |
Expression pattern of LotjaGi1g1v0539400.1, powered by ExpAt. For advanced configuration, data transformation and export options, view expression data in the ExpAt application.
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