AT4G09070

Component of the Mediator complex, a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes. Mediator functions as a bridge to convey information from gene-specific regulatory proteins to the basal RNA polymerase II transcription machinery. The Mediator complex, having a compact conformation in its free form, is recruited to promoters by direct interactions with regulatory proteins and serves for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
arabidopsis_thaliana
4
OG0013016
Physical Location & Seq
Forward (+)
5802308 .. 5803392
1085 bp
Loading structure...
UTR
Exon/CDS
Intron
AT4G09070.1

Sequence Viewer

Length: 660 bp
ATGCCCGTCAAATGGCTTTTGCATTGGCAACCAAATCAGGGATCAACATTTAGCAGCCAAATCCTAAACGAAGTAACACAAAGCATAGAGAGTCTCAATGGCGTCAAAGAGGGAACATGGAAAGCCACTCTCAACTATTACAAACCCATGTTGCAAGATCAGGCGAATCAAGCTGAGTTCCCGCGTGAATTTGTAGGAATTTCGCTTCCGGAGGAGCCAGATAAGTACTATTTCGTCATCAGGTCGCAAAGGATCGTCGTGGAAGCAGATTCTTCAATTCAAATGATCATGGAGAGCCTTCAGTCTTACAAATGCAAACTCTCGTTTTACTTTGAAGGGCTTGAGTATCAACTTGGGGATTTTCGTTTGAGAGTTGGTAAAGTTGTTCCTACTCATGCTGAGACCATTAGAGGCGTAGTCATGGAGGTGGAGTATCTTCCTATATCATCAATGGGAATGGCAAAAAAATTGATGGAGGAGTTCTTGGAGATATGGCAAGAAGCTATGTCGAAAAGGTCGTTGCCGGGTAAGTTTGTGAACAAAGAACTCAACTTTGAAAAGTTTGGACTTGGAGACAACTACACTCCGCAACATACCGCTGTTGGATATGCTTTCTTCATGGCTAATTTGATGGCAGCAATTCAAGCTGGGAGAGGCTAA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
GO:0002831 GO:0003674 GO:0003712 GO:0003713 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0006139 GO:0006351 GO:0006355 GO:0006357 GO:0006366 GO:0006396 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009889 GO:0009891 GO:0009892 GO:0009893 GO:0009966 GO:0009987 GO:0010033 GO:0010467 GO:0010468 GO:0010556 GO:0010557 GO:0010604 GO:0010605 GO:0010608 GO:0010628 GO:0010629 GO:0010646 GO:0014070 GO:0016070 GO:0016441 GO:0016458 GO:0016592 GO:0018130 GO:0019219 GO:0019222 GO:0019438 GO:0023051 GO:0031047 GO:0031050 GO:0031323 GO:0031325 GO:0031326 GO:0031328 GO:0031347 GO:0031974 GO:0031981 GO:0032101 GO:0032774 GO:0032991 GO:0034641 GO:0034645 GO:0034654 GO:0035194 GO:0035195 GO:0035196 GO:0040029 GO:0042221 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043233 GO:0043331 GO:0043900 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044271 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044451 GO:0044464 GO:0045893 GO:0045935 GO:0045944 GO:0046483 GO:0048518 GO:0048519 GO:0048522 GO:0048583 GO:0050789 GO:0050794 GO:0050896 GO:0051171 GO:0051173 GO:0051252 GO:0051254 GO:0051716 GO:0060255 GO:0065007 GO:0070013 GO:0070887 GO:0070918 GO:0071310 GO:0071359 GO:0071407 GO:0071704 GO:0080090 GO:0080134 GO:0090304 GO:0097659 GO:0140110 GO:1900150 GO:1901360 GO:1901362 GO:1901576 GO:1901698 GO:1901699 GO:1902680 GO:1903506 GO:1903508 GO:2000031 GO:2000112 GO:2001023 GO:2001038 GO:2001141
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
Med20

Protein Analysis

219

Amino Acids

25.12

Weight (kDa)

5.72

Isoelectric Point (pI)

46.65

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Med20 PF08612 1 - 207 2.2e-56 TATA-binding related factor (TRF) of subunit 20 of Mediator complex
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Orthologous Genes (Group: OG0013016)

Species Orthologous Gene IDs
arabidopsis_thaliana AT2G28230 AT2G28230 AT4G09070
fragaria_vesca FvH4_1g08420
malus_domestica MD15G1215700.v1.1 MD15G1215800.v1.1
prunus_persica Prupe.7G201200_v2.0.a1
pyrus_communis pycom02g07100 pycom15g19140
rosa_chinensis RchiOBHm_Chr2g0094521
rosa_laevigata RLG00000016498
rosa_multiflora Rmu_sc0004359.1_g000043
rosa_roxburghii Rroxscaffold_2G00147100
rosa_rugosa Rorug02G0044400
rosa_samantha Rh2AG092700 Rh2BG092900 Rh2CG095400 Rh2DG091800

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccII CGCG 1 cut(s) 184
AccIII TCCGGA 1 cut(s) 208
AciI CCGC 3 cut(s) 182, 587, 597
AclWI GGATC 2 cut(s) 49, 260
AcsI RAATTY 2 cut(s) 188, 198
AcuI CTGAAG 1 cut(s) 284
AcyI GRCGYC 1 cut(s) 102
AfaI GTAC 1 cut(s) 227
AfiI CCNNNNNNNGG 2 cut(s) 12, 38
AgsI TTSAA 5 cut(s) 276, 281, 335, 557, 644
AluBI AGCT 3 cut(s) 173, 503, 647
AluI AGCT 3 cut(s) 173, 503, 647
Alw26I GTCTC 3 cut(s) 98, 395, 567
AlwI GGATC 2 cut(s) 49, 260
Aor13HI TCCGGA 1 cut(s) 208
ApeKI GCWGC 2 cut(s) 54, 635
ApoI RAATTY 2 cut(s) 188, 198
AsuC2I CCSGG 1 cut(s) 525
BbvI GCAGC 2 cut(s) 66, 647
BccI CCATC 2 cut(s) 466, 625
BclI TGATCA 1 cut(s) 285
BcnI CCSGG 1 cut(s) 525
BcoDI GTCTC 3 cut(s) 98, 395, 567
BisI GCNGC 2 cut(s) 55, 636
BlsI GCNGC 2 cut(s) 56, 637
BmcAI AGTACT 1 cut(s) 227
Bme1390I CCNGG 1 cut(s) 525
BmiI GGNNCC 1 cut(s) 216
BmrFI CCNGG 1 cut(s) 525
BpuEI CTTGAG 1 cut(s) 362
BpuMI CCSGG 1 cut(s) 525
BsaHI GRCGYC 1 cut(s) 102
BsaI GGTCTC 1 cut(s) 395
BsaWI WCCGGW 1 cut(s) 208
BsaXI ACNNNNNCTCC 2 cut(s) 416, 446
Bsc4I CCNNNNNNNGG 2 cut(s) 12, 38
BseAI TCCGGA 1 cut(s) 208
BseLI CCNNNNNNNGG 2 cut(s) 12, 38
BseMII CTCAG 2 cut(s) 165, 390
BseRI GAGGAG 2 cut(s) 227, 491
BseXI GCAGC 2 cut(s) 66, 647
BseYI CCCAGC 1 cut(s) 647
Bsh1236I CGCG 1 cut(s) 184
BsiSI CCGG 2 cut(s) 209, 524
BslI CCNNNNNNNGG 2 cut(s) 12, 38
BsmAI GTCTC 3 cut(s) 98, 395, 567
Bso31I GGTCTC 1 cut(s) 395
Bsp13I TCCGGA 1 cut(s) 208
Bsp143I GATC 4 cut(s) 41, 157, 252, 285
BspACI CCGC 3 cut(s) 182, 587, 597
BspCNI CTCAG 2 cut(s) 166, 391
BspEI TCCGGA 1 cut(s) 208
BspFNI CGCG 1 cut(s) 184
BspLI GGNNCC 1 cut(s) 216
BspPI GGATC 2 cut(s) 49, 260
BspTNI GGTCTC 1 cut(s) 395
BssMI GATC 4 cut(s) 41, 157, 252, 285
BssNI GRCGYC 1 cut(s) 102
BstACI GRCGYC 1 cut(s) 102
BstDEI CTNAG 2 cut(s) 174, 399
BstFNI CGCG 1 cut(s) 184
BstKTI GATC 4 cut(s) 44, 160, 255, 288
BstMAI GTCTC 3 cut(s) 98, 395, 567
BstMBI GATC 4 cut(s) 41, 157, 252, 285
BstMWI GCNNNNNNNGC 2 cut(s) 170, 644
BstSCI CCNGG 1 cut(s) 523
BstUI CGCG 1 cut(s) 184
BstV1I GCAGC 2 cut(s) 66, 647
CseI GACGC 1 cut(s) 91
Csp6I GTAC 1 cut(s) 226
CviAII CATG 6 cut(s) 117, 148, 289, 395, 421, 619
CviQI GTAC 1 cut(s) 226
DdeI CTNAG 2 cut(s) 174, 399
DpnI GATC 4 cut(s) 43, 159, 254, 287
DpnII GATC 4 cut(s) 41, 157, 252, 285
Eco31I GGTCTC 1 cut(s) 395
Eco57I CTGAAG 1 cut(s) 284
FaeI CATG 6 cut(s) 120, 151, 292, 398, 424, 622
FatI CATG 6 cut(s) 116, 147, 288, 394, 420, 618
FauI CCCGC 1 cut(s) 189
FbaI TGATCA 1 cut(s) 285
Fnu4HI GCNGC 2 cut(s) 55, 636
Fsp4HI GCNGC 2 cut(s) 55, 636
GluI GCNGC 2 cut(s) 55, 636
GsaI CCCAGC 1 cut(s) 651
HapII CCGG 2 cut(s) 209, 524
HgaI GACGC 1 cut(s) 91
Hin1I GRCGYC 1 cut(s) 102
Hin1II CATG 6 cut(s) 120, 151, 292, 398, 424, 622
HinfI GANTC 3 cut(s) 91, 166, 269
HpaII CCGG 2 cut(s) 209, 524
Hpy166II GTNNAC 1 cut(s) 538
Hpy188III TCNNGA 1 cut(s) 209
Hpy8I GTNNAC 1 cut(s) 538
Hpy99I CGWCG 1 cut(s) 260
HpyAV CCTTC 2 cut(s) 308, 329
HpyCH4V TGCA 3 cut(s) 22, 154, 315
HpyF10VI GCNNNNNNNGC 2 cut(s) 170, 644
HpyF3I CTNAG 2 cut(s) 174, 399
Hsp92I GRCGYC 1 cut(s) 102
Hsp92II CATG 6 cut(s) 120, 151, 292, 398, 424, 622
Kpn2I TCCGGA 1 cut(s) 208
Ksp22I TGATCA 1 cut(s) 285
Kzo9I GATC 4 cut(s) 41, 157, 252, 285
LmnI GCTCC 1 cut(s) 214
LpnPI CCDG 7 cut(s) 23, 146, 222, 226, 231, 537, 633
Lsp1109I GCAGC 2 cut(s) 66, 647
MaeIII GTNAC 1 cut(s) 73
MalI GATC 4 cut(s) 43, 159, 254, 287
MboI GATC 4 cut(s) 41, 157, 252, 285
MboII GAAGA 3 cut(s) 264, 428, 607
MluCI AATT 6 cut(s) 188, 198, 276, 467, 625, 639
MlyI GAGTC 1 cut(s) 100
MmeI TCCRAC 1 cut(s) 583
MnlI CCTC 6 cut(s) 103, 205, 404, 418, 469, 647
MroI TCCGGA 1 cut(s) 208
MslI CAYNNNNRTG 1 cut(s) 425
MspA1I CMGCKG 1 cut(s) 599
MspI CCGG 2 cut(s) 209, 524
MspR9I CCNGG 1 cut(s) 525
MvnI CGCG 1 cut(s) 184
MwoI GCNNNNNNNGC 2 cut(s) 170, 644
NciI CCSGG 1 cut(s) 525
NdeII GATC 4 cut(s) 41, 157, 252, 285
NlaIII CATG 6 cut(s) 120, 151, 292, 398, 424, 622
NlaIV GGNNCC 1 cut(s) 216
PcsI WCGNNNNNNNCGW 1 cut(s) 515
PfeI GAWTC 2 cut(s) 166, 269
PkrI GCNGC 2 cut(s) 56, 637
PleI GAGTC 1 cut(s) 99
PpsI GAGTC 1 cut(s) 99
PspFI CCCAGC 1 cut(s) 647
PspN4I GGNNCC 1 cut(s) 216
RsaI GTAC 1 cut(s) 227
RsaNI GTAC 1 cut(s) 226
RseI CAYNNNNRTG 1 cut(s) 425
SatI GCNGC 2 cut(s) 55, 636
Sau3AI GATC 4 cut(s) 41, 157, 252, 285
ScaI AGTACT 1 cut(s) 227
SchI GAGTC 1 cut(s) 100
ScrFI CCNGG 1 cut(s) 525
SetI ASST 6 cut(s) 175, 245, 429, 505, 518, 649
SmiMI CAYNNNNRTG 1 cut(s) 425
SmlI CTYRAG 1 cut(s) 341
SmoI CTYRAG 1 cut(s) 341
Sse9I AATT 6 cut(s) 188, 198, 276, 467, 625, 639
SsiI CCGC 3 cut(s) 182, 587, 597
StyD4I CCNGG 1 cut(s) 523
TaqI TCGA 1 cut(s) 509
TasI AATT 6 cut(s) 188, 198, 276, 467, 625, 639
TatI WGTACW 1 cut(s) 225
TfiI GAWTC 2 cut(s) 166, 269
TseI GCWGC 2 cut(s) 54, 635
TspDTI ATGAA 1 cut(s) 607
XapI RAATTY 2 cut(s) 188, 198
ZrmI AGTACT 1 cut(s) 227
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.