AT3G52270

Transcription initiation factor IIF, beta subunit

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
arabidopsis_thaliana
3
OG0013034
Physical Location & Seq
Reverse (-)
19386983 .. 19388944
1962 bp
Loading structure...
UTR
Exon/CDS
Intron
AT3G52270.1

Sequence Viewer

Length: 810 bp
ATGAGTCTGAGAGAAATGGAAGATGTAAAGGTGGAAATGAAGGTAAGGAAGAATGAGAATGAAGCGTTGGAAACGGGTTTGGCAGAGAGATCGATGTTGCTGATGAAAGCTCCATCTCTCGTCGCGAGTTCTCTCCAATCTCATTCTTTTCCTGACGATCCGTACCGTCCTGACGATCCGTACCGTCCTGACGCCAAAGTCATCCTCGGCGTCGATCCTCTGGCTCACGAGGACGAAGGGACCCAATTCGTAATGGAATTAGCTCGAGCTGACTCTGGAAACATGCCGAGGCGTTACACTTTGGATATGTCTAAAGATTTTATTCCTATGAATGTTTTCTGTGAGTCTTCAGATGGAAAGATGTCAGTAGAAGGGAAGATAAAGAACAAATTTGATATGAGGCCTCATAACGAAAATATTGAAAGCTATGGGAGATTGTGCCGTGAAAGAACAAACAAGTATATGGGCAAAAATAGACAGATCCAGGTCATTGATAATGCCAGAGGAATGCATATGAGGCCAATGCCAGGAATGATAATCCCAACCGCGGCTCCGGAAAAGAAAAAATTGACGAACAGGACATCAGAAATGAAGAGAACAAGAAGGGACCGTAGAGAGATGGAGGAGGTGATGTTTAATCTCTTTGAAAGACAATCAAATTGGACTCTGAGGCTGCTCATTCAGGAAACTGACCAGCCAGAGCAATTCCTGAAAGACTTGTTGAAAGATCTATGCATATACAACAACAAAGGGAGCAACCAAGGAACTTATGAGCTGAAGCCTGAATATAAGAAAGCCACTCAGGAATAG
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
GO:0000375 GO:0000377 GO:0000398 GO:0000428 GO:0000988 GO:0000990 GO:0000991 GO:0003674 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005667 GO:0005674 GO:0005856 GO:0006139 GO:0006351 GO:0006352 GO:0006354 GO:0006355 GO:0006357 GO:0006366 GO:0006367 GO:0006368 GO:0006370 GO:0006396 GO:0006397 GO:0006725 GO:0006807 GO:0007154 GO:0007165 GO:0007166 GO:0007167 GO:0007169 GO:0008150 GO:0008152 GO:0008380 GO:0008543 GO:0009058 GO:0009059 GO:0009301 GO:0009452 GO:0009719 GO:0009889 GO:0009891 GO:0009893 GO:0009987 GO:0010033 GO:0010467 GO:0010468 GO:0010556 GO:0010557 GO:0010604 GO:0010628 GO:0015630 GO:0016070 GO:0016071 GO:0016073 GO:0016591 GO:0018130 GO:0019219 GO:0019222 GO:0019438 GO:0023052 GO:0030880 GO:0031323 GO:0031325 GO:0031326 GO:0031328 GO:0031334 GO:0031974 GO:0031981 GO:0032774 GO:0032784 GO:0032786 GO:0032968 GO:0032991 GO:0032993 GO:0034243 GO:0034641 GO:0034645 GO:0034654 GO:0034660 GO:0036260 GO:0042221 GO:0042795 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0043254 GO:0044087 GO:0044089 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044271 GO:0044344 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044451 GO:0044464 GO:0044798 GO:0045893 GO:0045935 GO:0045944 GO:0046483 GO:0048518 GO:0048522 GO:0050789 GO:0050794 GO:0050896 GO:0051128 GO:0051130 GO:0051171 GO:0051173 GO:0051252 GO:0051254 GO:0051716 GO:0055029 GO:0060255 GO:0060260 GO:0060261 GO:0061695 GO:0065007 GO:0070013 GO:0070848 GO:0070887 GO:0071310 GO:0071363 GO:0071495 GO:0071704 GO:0071774 GO:0080090 GO:0090304 GO:0090575 GO:0097550 GO:0097659 GO:0098781 GO:0140110 GO:1901360 GO:1901362 GO:1901576 GO:1902494 GO:1902680 GO:1903506 GO:1903508 GO:1990234 GO:2000112 GO:2000142 GO:2000144 GO:2001141
KEGG Pathways
Metabolic & Signaling
ko03022 map03022
Pfam Domains
Protein Families
TFIIF_beta

Protein Analysis

269

Amino Acids

31.39

Weight (kDa)

7.67

Isoelectric Point (pI)

48.65

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
TFIIF_beta PF02270 201 - 264 3.1e-17 TFIIF, beta subunit HTH domain
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
Loading...
Style Settings
Image
Tree File
Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0013034)

Species Orthologous Gene IDs
arabidopsis_thaliana AT3G52270
fragaria_vesca FvH4_7g19881
malus_domestica MD01G1111000.v1.1 MD07G1177200.v1.1
prunus_persica Prupe.2G215900_v2.0.a1
pyrus_communis pycom07g17120
rosa_chinensis RchiOBHm_Chr1g0363871
rosa_laevigata RLG00000027539
rosa_multiflora Rmu_sc0002483.1_g000003
rosa_roxburghii Rroxscaffold_4G00292900
rosa_rugosa Rorug01G0310400 Rorug01G0310500 Rorug01G0310600
rosa_samantha Rh1AG318500 Rh1BG281700 Rh1CG298100 Rh1DG313000
rosa_wichuraiana Rw1G028270

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AasI GACNNNNNNGTC 1 cut(s) 197
AccII CGCG 2 cut(s) 125, 548
AccIII TCCGGA 1 cut(s) 553
AciI CCGC 2 cut(s) 546, 548
AclWI GGATC 4 cut(s) 152, 170, 209, 475
AcsI RAATTY 1 cut(s) 389
AcuI CTGAAG 2 cut(s) 333, 797
AcyI GRCGYC 2 cut(s) 192, 210
AfaI GTAC 2 cut(s) 164, 182
AfiI CCNNNNNNNGG 2 cut(s) 527, 547
AgsI TTSAA 3 cut(s) 422, 647, 724
AjnI CCWGG 2 cut(s) 483, 526
AjuI GAANNNNNNNTTGG 2 cut(s) 50, 82
AluBI AGCT 5 cut(s) 110, 263, 269, 426, 775
AluI AGCT 5 cut(s) 110, 263, 269, 426, 775
AlwI GGATC 4 cut(s) 152, 170, 209, 475
Ama87I CYCGRG 1 cut(s) 264
Aor13HI TCCGGA 1 cut(s) 553
AoxI GGCC 2 cut(s) 401, 518
ApeKI GCWGC 1 cut(s) 673
ApoI RAATTY 1 cut(s) 389
Asp700I GAANNNNTTC 1 cut(s) 335
AspS9I GGNCC 2 cut(s) 240, 607
AsuHPI GGTGA 1 cut(s) 640
AvaI CYCGRG 1 cut(s) 264
AvaII GGWCC 2 cut(s) 240, 607
BauI CACGAG 1 cut(s) 227
BbsI GAAGAC 1 cut(s) 339
BbvI GCAGC 1 cut(s) 660
BccI CCATC 3 cut(s) 121, 347, 613
BceAI ACGGC 1 cut(s) 426
BcgI CGANNNNNNTGC 2 cut(s) 72, 106
BciT130I CCWGG 2 cut(s) 485, 528
BglII AGATCT 1 cut(s) 727
BisI GCNGC 2 cut(s) 549, 674
BlsI GCNGC 2 cut(s) 550, 675
Bme1390I CCNGG 2 cut(s) 485, 528
Bme18I GGWCC 2 cut(s) 240, 607
BmeT110I CYCGRG 1 cut(s) 264
BmgT120I GGNCC 2 cut(s) 240, 607
BmiI GGNNCC 4 cut(s) 241, 242, 552, 608
BmrFI CCNGG 2 cut(s) 485, 528
BpiI GAAGAC 1 cut(s) 339
Bsa29I ATCGAT 1 cut(s) 92
BsaHI GRCGYC 2 cut(s) 192, 210
BsaJI CCNNGG 4 cut(s) 205, 287, 546, 760
BsaWI WCCGGW 1 cut(s) 553
BsaXI ACNNNNNCTCC 4 cut(s) 535, 565, 617, 647
Bsc4I CCNNNNNNNGG 2 cut(s) 527, 547
BseAI TCCGGA 1 cut(s) 553
BseBI CCWGG 2 cut(s) 485, 528
BseCI ATCGAT 1 cut(s) 92
BseDI CCNNGG 4 cut(s) 205, 287, 546, 760
BseGI GGATG 1 cut(s) 201
BseLI CCNNNNNNNGG 2 cut(s) 527, 547
BseMII CTCAG 1 cut(s) 659
BseRI GAGGAG 1 cut(s) 638
BseXI GCAGC 1 cut(s) 660
Bsh1236I CGCG 2 cut(s) 125, 548
BshFI GGCC 2 cut(s) 403, 520
BshVI ATCGAT 1 cut(s) 92
BsiHKCI CYCGRG 1 cut(s) 264
BsiSI CCGG 1 cut(s) 554
BslFI GGGAC 2 cut(s) 253, 620
BslI CCNNNNNNNGG 2 cut(s) 527, 547
BsmFI GGGAC 2 cut(s) 253, 620
BsmI GAATGC 1 cut(s) 513
BsnI GGCC 2 cut(s) 403, 520
BsoBI CYCGRG 1 cut(s) 264
Bsp13I TCCGGA 1 cut(s) 553
Bsp143I GATC 6 cut(s) 89, 157, 175, 214, 480, 727
Bsp68I TCGCGA 1 cut(s) 125
BspACI CCGC 2 cut(s) 546, 548
BspANI GGCC 2 cut(s) 403, 520
BspCNI CTCAG 1 cut(s) 660
BspDI ATCGAT 1 cut(s) 92
BspEI TCCGGA 1 cut(s) 553
BspFNI CGCG 2 cut(s) 125, 548
BspLI GGNNCC 4 cut(s) 241, 242, 552, 608
BspPI GGATC 4 cut(s) 152, 170, 209, 475
BssECI CCNNGG 4 cut(s) 205, 287, 546, 760
BssMI GATC 6 cut(s) 89, 157, 175, 214, 480, 727
BssNI GRCGYC 2 cut(s) 192, 210
BssSI CACGAG 1 cut(s) 227
BssT1I CCWWGG 1 cut(s) 760
Bst2BI CACGAG 1 cut(s) 227
Bst2UI CCWGG 2 cut(s) 485, 528
Bst4CI ACNGT 3 cut(s) 167, 185, 611
Bst6I CTCTTC 1 cut(s) 587
BstACI GRCGYC 2 cut(s) 192, 210
BstDEI CTNAG 3 cut(s) 8, 668, 801
BstDSI CCRYGG 1 cut(s) 546
BstF5I GGATG 1 cut(s) 201
BstFNI CGCG 2 cut(s) 125, 548
BstKTI GATC 6 cut(s) 92, 160, 178, 217, 483, 730
BstMBI GATC 6 cut(s) 89, 157, 175, 214, 480, 727
BstMWI GCNNNNNNNGC 1 cut(s) 517
BstNI CCWGG 2 cut(s) 485, 528
BstNSI RCATGY 1 cut(s) 286
BstSCI CCNGG 2 cut(s) 483, 526
BstUI CGCG 2 cut(s) 125, 548
BstV1I GCAGC 1 cut(s) 660
BstV2I GAAGAC 1 cut(s) 339
BstX2I RGATCY 2 cut(s) 480, 727
BstYI RGATCY 2 cut(s) 480, 727
Bsu15I ATCGAT 1 cut(s) 92
BsuRI GGCC 2 cut(s) 403, 520
BsuTUI ATCGAT 1 cut(s) 92
BtgI CCRYGG 1 cut(s) 546
BtsCI GGATG 1 cut(s) 201
BtuMI TCGCGA 1 cut(s) 125
Cfr13I GGNCC 2 cut(s) 240, 607
Cfr42I CCGCGG 1 cut(s) 549
ClaI ATCGAT 1 cut(s) 92
CseI GACGC 2 cut(s) 199, 200
Csp6I GTAC 2 cut(s) 163, 181
CviAII CATG 1 cut(s) 283
CviQI GTAC 2 cut(s) 163, 181
DdeI CTNAG 3 cut(s) 8, 668, 801
DpnI GATC 6 cut(s) 91, 159, 177, 216, 482, 729
DpnII GATC 6 cut(s) 89, 157, 175, 214, 480, 727
DrdI GACNNNNNNGTC 1 cut(s) 197
DseDI GACNNNNNNGTC 1 cut(s) 197
Eam1104I CTCTTC 1 cut(s) 587
EarI CTCTTC 1 cut(s) 587
Eco130I CCWWGG 1 cut(s) 760
Eco147I AGGCCT 1 cut(s) 403
Eco47I GGWCC 2 cut(s) 240, 607
Eco57I CTGAAG 2 cut(s) 333, 797
Eco88I CYCGRG 1 cut(s) 264
EcoO109I RGGNCCY 1 cut(s) 240
EcoRII CCWGG 2 cut(s) 483, 526
EcoT14I CCWWGG 1 cut(s) 760
EcoT22I ATGCAT 2 cut(s) 513, 737
ErhI CCWWGG 1 cut(s) 760
FaeI CATG 1 cut(s) 286
FaqI GGGAC 2 cut(s) 253, 620
FatI CATG 1 cut(s) 282
FauNDI CATATG 1 cut(s) 513
Fnu4HI GCNGC 2 cut(s) 549, 674
FokI GGATG 1 cut(s) 188
Fsp4HI GCNGC 2 cut(s) 549, 674
GluI GCNGC 2 cut(s) 549, 674
HaeIII GGCC 2 cut(s) 403, 520
HapII CCGG 1 cut(s) 554
HgaI GACGC 2 cut(s) 199, 200
Hin1I GRCGYC 2 cut(s) 192, 210
Hin1II CATG 1 cut(s) 286
HinfI GANTC 4 cut(s) 4, 272, 344, 664
HpaII CCGG 1 cut(s) 554
HphI GGTGA 1 cut(s) 640
Hpy188I TCNGA 4 cut(s) 9, 352, 586, 669
Hpy99I CGWCG 2 cut(s) 125, 215
HpyAV CCTTC 4 cut(s) 34, 230, 365, 597
HpyCH4III ACNGT 3 cut(s) 167, 185, 611
HpyCH4V TGCA 2 cut(s) 511, 735
HpyF10VI GCNNNNNNNGC 1 cut(s) 517
HpyF3I CTNAG 3 cut(s) 8, 668, 801
Hsp92I GRCGYC 2 cut(s) 192, 210
Hsp92II CATG 1 cut(s) 286
KflI GGGWCCC 1 cut(s) 240
Kpn2I TCCGGA 1 cut(s) 553
KspI CCGCGG 1 cut(s) 549
Kzo9I GATC 6 cut(s) 89, 157, 175, 214, 480, 727
LmnI GCTCC 3 cut(s) 115, 556, 753
Lsp1109I GCAGC 1 cut(s) 660
MaeIII GTNAC 1 cut(s) 293
MalI GATC 6 cut(s) 91, 159, 177, 216, 482, 729
MboI GATC 6 cut(s) 89, 157, 175, 214, 480, 727
MboII GAAGA 5 cut(s) 32, 61, 339, 388, 604
MflI RGATCY 2 cut(s) 480, 727
MluCI AATT 6 cut(s) 245, 257, 389, 566, 658, 704
MlyI GAGTC 4 cut(s) 13, 266, 353, 658
MmeI TCCRAC 1 cut(s) 48
Mph1103I ATGCAT 2 cut(s) 513, 737
MroI TCCGGA 1 cut(s) 553
MroXI GAANNNNTTC 1 cut(s) 335
MseI TTAA 1 cut(s) 636
MspA1I CMGCKG 1 cut(s) 548
MspI CCGG 1 cut(s) 554
MspR9I CCNGG 2 cut(s) 485, 528
Mva1269I GAATGC 1 cut(s) 513
MvaI CCWGG 2 cut(s) 485, 528
MvnI CGCG 2 cut(s) 125, 548
MwoI GCNNNNNNNGC 1 cut(s) 517
NdeI CATATG 1 cut(s) 513
NdeII GATC 6 cut(s) 89, 157, 175, 214, 480, 727
NlaIII CATG 1 cut(s) 286
NlaIV GGNNCC 4 cut(s) 241, 242, 552, 608
NmeAIII GCCGAG 2 cut(s) 186, 312
NruI TCGCGA 1 cut(s) 125
NsiI ATGCAT 2 cut(s) 513, 737
NspI RCATGY 1 cut(s) 286
PaeR7I CTCGAG 1 cut(s) 264
PceI AGGCCT 1 cut(s) 403
PctI GAATGC 1 cut(s) 513
PdmI GAANNNNTTC 1 cut(s) 335
PkrI GCNGC 2 cut(s) 550, 675
PleI GAGTC 4 cut(s) 12, 266, 352, 658
PpsI GAGTC 4 cut(s) 12, 266, 352, 658
PpuMI RGGWCCY 1 cut(s) 240
Psp5II RGGWCCY 1 cut(s) 240
Psp6I CCWGG 2 cut(s) 483, 526
PspGI CCWGG 2 cut(s) 483, 526
PspN4I GGNNCC 4 cut(s) 241, 242, 552, 608
PspPI GGNCC 2 cut(s) 240, 607
PspPPI RGGWCCY 1 cut(s) 240
PspXI VCTCGAGB 1 cut(s) 264
PsuI RGATCY 2 cut(s) 480, 727
RruI TCGCGA 1 cut(s) 125
RsaI GTAC 2 cut(s) 164, 182
RsaNI GTAC 2 cut(s) 163, 181
SacII CCGCGG 1 cut(s) 549
SaqAI TTAA 1 cut(s) 636
SatI GCNGC 2 cut(s) 549, 674
Sau3AI GATC 6 cut(s) 89, 157, 175, 214, 480, 727
Sau96I GGNCC 2 cut(s) 240, 607
SchI GAGTC 4 cut(s) 13, 266, 353, 658
ScrFI CCNGG 2 cut(s) 485, 528
SetI ASST 9 cut(s) 33, 45, 112, 265, 271, 428, 489, 630, 777
Sfr274I CTCGAG 1 cut(s) 264
Sfr303I CCGCGG 1 cut(s) 549
SgrBI CCGCGG 1 cut(s) 549
SinI GGWCC 2 cut(s) 240, 607
SlaI CTCGAG 1 cut(s) 264
SmlI CTYRAG 1 cut(s) 264
SmoI CTYRAG 1 cut(s) 264
Sse9I AATT 6 cut(s) 245, 257, 389, 566, 658, 704
SseBI AGGCCT 1 cut(s) 403
SsiI CCGC 2 cut(s) 546, 548
SspI AATATT 1 cut(s) 418
StuI AGGCCT 1 cut(s) 403
StyD4I CCNGG 2 cut(s) 483, 526
StyI CCWWGG 1 cut(s) 760
TaaI ACNGT 3 cut(s) 167, 185, 611
TaqI TCGA 3 cut(s) 92, 213, 265
TasI AATT 6 cut(s) 245, 257, 389, 566, 658, 704
TauI GCSGC 1 cut(s) 551
Tru1I TTAA 1 cut(s) 636
Tru9I TTAA 1 cut(s) 636
TseI GCWGC 1 cut(s) 673
TspDTI ATGAA 5 cut(s) 53, 75, 119, 344, 605
TspGWI ACGGA 2 cut(s) 150, 168
VpaK11BI GGWCC 2 cut(s) 240, 607
XapI RAATTY 1 cut(s) 389
XceI RCATGY 1 cut(s) 286
XhoI CTCGAG 1 cut(s) 264
XmnI GAANNNNTTC 1 cut(s) 335
Zsp2I ATGCAT 2 cut(s) 513, 737
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.