Transcription Factor

Accessions: T116962_1.02 (CISBP 1.02), Q9FNN6 (JASPAR 2024), T26197 (AthalianaCistrome v4_May2016)
Names: AT5G08520, T116962_1.02;, Myb-related protein SRM1, Protein SALT-RELATED MYB 1, SRM1_ARATH, Transcription factor SRM1, T26197;
Organisms: Arabidopsis thaliana
Libraries: CISBP 1.02 1, JASPAR 2024 2, AthalianaCistrome v4_May2016 3
1 Weirauch MT, Yang A, Albu M, Cote AG, Montenegro-Montero A, Drewe P, Najafabadi HS, Lambert SA, Mann I, Cook K, Zheng H, Goity A, van Bakel H, Lozano JC, Galli M, Lewsey MG, Huang E, Mukherjee T, Chen X, Reece-Hoyes JS, Govindarajan S, Shaulsky G, et al. Determination and inference of eukaryotic transcription factor sequence specificity. Cell. 2014 Sep 11;158(6):1431-43. doi: 10.1016/j.cell.2014.08.009. [Pubmed]
2 Rauluseviciute I, Riudavets-Puig R, Blanc-Mathieu R, Castro-Mondragon JA, Ferenc K, Kumar V, Lemma RB, Lucas J, Cheneby J, Baranasic D, Khan A, Fornes O, Gundersen S, Johansen M, Hovig E, Lenhard B, Sandelin A, Wasserman WW, Parcy F, Mathelier A. JASPAR 2024: 20th anniversary of the open-access database of transcription factor binding profiles. Nucleic Acids Res : (2023). [Pubmed]
3 O'Malley RC, Huang SS, Song L, Lewsey MG, Bartlett A, Nery JR, Galli M, Gallavotti A, Ecker JR. Cistrome and Epicistrome Features Shape the Regulatory DNA Landscape. Cell 165:1280-92 (2016). [Pubmed]
Notes: experiment type:PBM, family:Myb/SANT, ecotype:Col-0, experiment type: ampDAP-seq, experiment type: ampDAP-seq (methyl-cytosines removed by PCR), experiment type: DAP-seq, family:MYB-related
Length: 298
Pfam Domains: 11-55 Myb-like DNA-binding domain
119-163 Myb-like DNA-binding domain
Sequence:
(in bold interface residues)
1 MTVEEVSDGSVWSREDDIAFERALANNTDESEERWEKIAADVPGKSVEQIKEHYELLVED 60
61 VTRIESGCVPLPAYGSPEGSNGHAGDEGASSKKGGNSHAGESNQAGKSKSDQERRKGIAW 120
121 TEDEHRLFLLGLDKYGKGDWRSISRNFVVTRTPTQVASHAQKYFIRLNSMNKDRRRSSIH 180
181 DITSVGNADVSTPQGPITGQNNSNNNNNNNNNNSSPAVAGGGNKSAKQAVSQAPPGPPMY 240
241 GTPAIGQPAVGTPVNLPAPPHMAYGVHAAPVPGSVVPGAAMNIGQMPYTMPRTPTAHR
Interface Residues: 47, 51, 52, 115, 152, 153, 154, 155, 158, 168, 169, 172, 173, 176
3D-footprint Homologues: 7xur_A, 1w0t_A, 2kdz_A, 1vfc_A
Binding Motifs: M1339_1.02 yrGATargg
M0607 / MA1399.1 dwwdwrGATAAGr
M0602 yCTTATCywhw
MA1681.1 wwwaGATAAGrtww
MA1681.2 aGATAAGrt
Binding Sites: MA1399.1.1
MA1399.1.10
MA1399.1.11
MA1399.1.12
MA1399.1.13
MA1399.1.14
MA1399.1.15
MA1399.1.16
MA1399.1.17
MA1399.1.18
MA1399.1.19
MA1399.1.2
MA1399.1.20
MA1399.1.3
MA1399.1.4
MA1399.1.5
MA1399.1.6
MA1399.1.7
MA1399.1.8
MA1399.1.9
MA1681.1.1
MA1681.1.10
MA1681.1.11 / MA1681.1.9
MA1681.1.10 / MA1681.1.12
MA1681.1.13
MA1681.1.11 / MA1681.1.14
MA1681.1.15
MA1681.1.12 / MA1681.1.16
MA1681.1.17
MA1681.1.13 / MA1681.1.18
MA1681.1.14 / MA1681.1.19
MA1681.1.1 / MA1681.1.2
MA1681.1.15 / MA1681.1.20
MA1681.1.2 / MA1681.1.3
MA1681.1.3 / MA1681.1.4
MA1681.1.4 / MA1681.1.5
MA1681.1.5 / MA1681.1.6
MA1681.1.6 / MA1681.1.7
MA1681.1.7 / MA1681.1.8
MA1681.1.8 / MA1681.1.9
MA1681.1.16
MA1681.1.17
MA1681.1.18
MA1681.1.19
MA1681.1.20
MA1681.2.10 / MA1681.2.6
MA1681.2.1
MA1681.2.11 / MA1681.2.7
MA1681.2.12
MA1681.2.13
MA1681.2.14
MA1681.2.15
MA1681.2.16
MA1681.2.17
MA1681.2.18 / MA1681.2.19
MA1681.2.2 / MA1681.2.5
MA1681.2.20
MA1681.2.3
MA1681.2.4
MA1681.2.8
MA1681.2.9
Publications: Weirauch MT, Yang A, Albu M, Cote AG, Montenegro-Montero A, Drewe P, Najafabadi HS, Lambert SA, Mann I, Cook K, Zheng H, Goity A, van Bakel H, Lozano JC, Galli M, Lewsey MG, Huang E, Mukherjee T, Chen X, Reece-Hoyes JS, Govindarajan S, Shaulsky G, et al. Determination and inference of eukaryotic transcription factor sequence specificity. Cell. 2014 Sep 11;158(6):1431-43. doi: 10.1016/j.cell.2014.08.009. [Pubmed]
Related annotations: PaperBLAST

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These data are available AS IS and at your own risk. The EEAD/CSIC do not give any representation or warranty nor assume any liability or responsibility for the data nor the results posted (whether as to their accuracy, completeness, quality or otherwise). Access to these data is available free of charge for ordinary use in the course of research. Downloaded data have CC-BY-NC-SA license. FootprintDB is also available at RSAT::Plants, part of the INB/ELIXIR-ES resources portfolio.