Rw3G010610

TATA-box-binding protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_wichuraiana
Chr3
OG0000930
Physical Location & Seq
Reverse (-)
10258754 .. 10259491
738 bp
Loading structure...
UTR
Exon/CDS
Intron
Rw3G010610.1

Sequence Viewer

Length: 738 bp
ATGACGTTGGAGGCGAATTTGGCTGTTGCTGGTCGCCCTAAACCAACCATCGTGAATATAGTTTCCACCGTCAACTTGGGCTGCAAATTGGACCTAAAGAGGATTGCGAGCCGTGTCAGAAACGCAGAGTACAATCCGAAACGGTTTCATGCCATCATAATGCGAATCCGGGAACCCAAAACCACCTCTCTCATCTTCTCCTCCGGCAAGATGGTCGTCACCGGCGCCAAATCCATAGAAGAGACCAAATTTGCGGCGAGGAAGCACAGCCGAATTGTCCAGAAAGTAGGGGTTGACGACGGGGTTAAGGTACAGTTCATGGATTTCAAGATTCAAAATATCGTGGCATCCTGCAATGTCAACTTCGCGGTCAGGCTTGAGACTCTTTCCTTCTCCGATACTACTCTTGGGTGTGCCTCGTACGAAGCCGAGATTTTCCCGGGGCTGATATACAGGGTTCTGAAGCCCAAGGTTGTCTTCCTCATCTTTGCGTCGGGGAACGTTGTCATCACTGGGGCCAAGAGCTTCGAGAATCACACGCTCAAGGCCTGGGAGCAAATGTACCCTCTTATTGCACAGCACCGGAGAAACTGCCCCGTCAACCTTGTAACATCACCGGTCCAAGAAAAAAGTGCACCAAAAGAGGAAGAAAAAAGAGTGTTCCATCCAGTACTTCTGCCTCTGAGCCAGTTAGTTGCTTTTGATGTTGTTGAGGTTTTGCAAGGGAATTGTATTTAA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko03022 ko05016 ko05165 ko05166 ko05168 ko05169 ko05203 map03022 map05016 map05165 map05166 map05168 map05169 map05203
Pfam Domains
Protein Families
TBP

Protein Analysis

245

Amino Acids

27.3

Weight (kDa)

9.63

Isoelectric Point (pI)

33.38

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
TBP PF00352 15 - 95 7.5e-32 Transcription factor TFIID (or TATA-binding protein, TBP)
TBP PF00352 108 - 193 1.1e-25 Transcription factor TFIID (or TATA-binding protein, TBP)
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Publication-ready
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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB1I GGYRCC 1 cut(s) 224
AccII CGCG 1 cut(s) 368
AciI CCGC 2 cut(s) 254, 368
AclI AACGTT 1 cut(s) 501
AcsI RAATTY 2 cut(s) 16, 248
AcuI CTGAAG 1 cut(s) 482
AcyI GRCGYC 1 cut(s) 225
AfaI GTAC 5 cut(s) 131, 312, 422, 563, 672
AgeI ACCGGT 1 cut(s) 616
AgsI TTSAA 2 cut(s) 328, 335
AjnI CCWGG 1 cut(s) 548
AjuI GAANNNNNNNTTGG 2 cut(s) 461, 493
AluBI AGCT 1 cut(s) 525
AluI AGCT 1 cut(s) 525
Alw21I GWGCWC 1 cut(s) 637
Alw26I GTCTC 2 cut(s) 236, 374
Alw44I GTGCAC 1 cut(s) 633
Ama87I CYCGRG 1 cut(s) 439
AoxI GGCC 2 cut(s) 516, 546
ApaLI GTGCAC 1 cut(s) 633
ApeKI GCWGC 1 cut(s) 81
ApoI RAATTY 2 cut(s) 16, 248
AsiGI ACCGGT 1 cut(s) 616
AspLEI GCGC 1 cut(s) 227
AspS9I GGNCC 3 cut(s) 91, 516, 619
AsuC2I CCSGG 3 cut(s) 170, 440, 441
AsuHPI GGTGA 2 cut(s) 211, 606
AvaI CYCGRG 1 cut(s) 439
AvaII GGWCC 2 cut(s) 91, 619
BaeGI GKGCMC 1 cut(s) 637
BanI GGYRCC 1 cut(s) 224
BbsI GAAGAC 1 cut(s) 469
Bbv12I GWGCWC 1 cut(s) 637
BbvI GCAGC 1 cut(s) 68
BccI CCATC 4 cut(s) 56, 161, 205, 672
BceAI ACGGC 1 cut(s) 96
BcgI CGANNNNNNTGC 2 cut(s) 196, 230
BciT130I CCWGG 1 cut(s) 550
BcnI CCSGG 3 cut(s) 170, 440, 441
BcoDI GTCTC 2 cut(s) 236, 374
BfoI RGCGCY 1 cut(s) 228
BisI GCNGC 2 cut(s) 82, 255
BlsI GCNGC 2 cut(s) 83, 256
BmcAI AGTACT 1 cut(s) 672
Bme1390I CCNGG 4 cut(s) 170, 440, 441, 550
Bme18I GGWCC 2 cut(s) 91, 619
BmeT110I CYCGRG 1 cut(s) 439
BmgT120I GGNCC 3 cut(s) 91, 516, 619
BmiI GGNNCC 3 cut(s) 174, 226, 517
BmrFI CCNGG 4 cut(s) 170, 440, 441, 550
BmrI ACTGGG 1 cut(s) 522
BmsI GCATC 1 cut(s) 356
BmuI ACTGGG 1 cut(s) 522
BpiI GAAGAC 1 cut(s) 469
BpuEI CTTGAG 2 cut(s) 398, 527
BpuMI CCSGG 3 cut(s) 170, 440, 441
BsaHI GRCGYC 1 cut(s) 225
BsaI GGTCTC 1 cut(s) 236
BsaJI CCNNGG 4 cut(s) 439, 440, 468, 549
BsaWI WCCGGW 2 cut(s) 582, 616
BsaXI ACNNNNNCTCC 2 cut(s) 545, 575
Bse118I RCCGGY 2 cut(s) 221, 616
Bse1I ACTGG 3 cut(s) 517, 668, 688
Bse3DI GCAATG 1 cut(s) 361
BseBI CCWGG 1 cut(s) 550
BseDI CCNNGG 4 cut(s) 439, 440, 468, 549
BseGI GGATG 2 cut(s) 347, 664
BseMI GCAATG 1 cut(s) 361
BseMII CTCAG 1 cut(s) 674
BseNI ACTGG 3 cut(s) 517, 668, 688
BseRI GAGGAG 1 cut(s) 190
BseSI GKGCMC 1 cut(s) 637
BseXI GCAGC 1 cut(s) 68
Bsh1236I CGCG 1 cut(s) 368
BshFI GGCC 2 cut(s) 518, 548
BshNI GGYRCC 1 cut(s) 224
BshTI ACCGGT 1 cut(s) 616
BsiHKAI GWGCWC 1 cut(s) 637
BsiHKCI CYCGRG 1 cut(s) 439
BsiSI CCGG 6 cut(s) 169, 204, 222, 440, 583, 617
BsiWI CGTACG 1 cut(s) 420
BsmAI GTCTC 2 cut(s) 236, 374
BsnI GGCC 2 cut(s) 518, 548
Bso31I GGTCTC 1 cut(s) 236
BsoBI CYCGRG 1 cut(s) 439
Bsp1286I GDGCHC 1 cut(s) 637
BspACI CCGC 2 cut(s) 254, 368
BspANI GGCC 2 cut(s) 518, 548
BspCNI CTCAG 1 cut(s) 675
BspFNI CGCG 1 cut(s) 368
BspLI GGNNCC 3 cut(s) 174, 226, 517
BspT107I GGYRCC 1 cut(s) 224
BspTNI GGTCTC 1 cut(s) 236
BsrDI GCAATG 1 cut(s) 361
BsrFI RCCGGY 2 cut(s) 221, 616
BsrI ACTGG 3 cut(s) 517, 668, 688
BssAI RCCGGY 2 cut(s) 221, 616
BssECI CCNNGG 4 cut(s) 439, 440, 468, 549
BssNI GRCGYC 1 cut(s) 225
BssT1I CCWWGG 1 cut(s) 468
Bst2UI CCWGG 1 cut(s) 550
Bst4CI ACNGT 3 cut(s) 70, 144, 315
Bst6I CTCTTC 1 cut(s) 234
BstACI GRCGYC 1 cut(s) 225
BstC8I GCNNGC 1 cut(s) 109
BstDEI CTNAG 1 cut(s) 683
BstF5I GGATG 2 cut(s) 347, 664
BstFNI CGCG 1 cut(s) 368
BstH2I RGCGCY 1 cut(s) 228
BstHHI GCGC 1 cut(s) 227
BstMAI GTCTC 2 cut(s) 236, 374
BstMWI GCNNNNNNNGC 1 cut(s) 20
BstNI CCWGG 1 cut(s) 550
BstSCI CCNGG 4 cut(s) 168, 438, 439, 548
BstSLI GKGCMC 1 cut(s) 637
BstUI CGCG 1 cut(s) 368
BstV1I GCAGC 1 cut(s) 68
BstV2I GAAGAC 1 cut(s) 469
BsuRI GGCC 2 cut(s) 518, 548
BtsCI GGATG 2 cut(s) 347, 664
BtsIMutI CAGTG 1 cut(s) 510
Cac8I GCNNGC 1 cut(s) 109
CfoI GCGC 1 cut(s) 227
Cfr10I RCCGGY 2 cut(s) 221, 616
Cfr13I GGNCC 3 cut(s) 91, 516, 619
Cfr9I CCCGGG 1 cut(s) 439
CseI GACGC 1 cut(s) 480
Csp6I GTAC 5 cut(s) 130, 311, 421, 562, 671
CspAI ACCGGT 1 cut(s) 616
CviAII CATG 2 cut(s) 149, 319
CviQI GTAC 5 cut(s) 130, 311, 421, 562, 671
DdeI CTNAG 1 cut(s) 683
DinI GGCGCC 1 cut(s) 226
Eam1104I CTCTTC 1 cut(s) 234
EarI CTCTTC 1 cut(s) 234
Eco130I CCWWGG 1 cut(s) 468
Eco147I AGGCCT 1 cut(s) 548
Eco31I GGTCTC 1 cut(s) 236
Eco47I GGWCC 2 cut(s) 91, 619
Eco57I CTGAAG 1 cut(s) 482
Eco88I CYCGRG 1 cut(s) 439
EcoRII CCWGG 1 cut(s) 548
EcoT14I CCWWGG 1 cut(s) 468
EgeI GGCGCC 1 cut(s) 226
EheI GGCGCC 1 cut(s) 226
ErhI CCWWGG 1 cut(s) 468
FaeI CATG 2 cut(s) 152, 322
FaiI YATR 6 cut(s) 59, 150, 158, 236, 320, 451
FalI AAGNNNNNCTT 2 cut(s) 461, 493
FatI CATG 2 cut(s) 148, 318
Fnu4HI GCNGC 2 cut(s) 82, 255
FokI GGATG 2 cut(s) 334, 651
Fsp4HI GCNGC 2 cut(s) 82, 255
GlaI GCGC 1 cut(s) 226
GluI GCNGC 2 cut(s) 82, 255
HaeII RGCGCY 1 cut(s) 228
HaeIII GGCC 2 cut(s) 518, 548
HapII CCGG 6 cut(s) 169, 204, 222, 440, 583, 617
HgaI GACGC 1 cut(s) 480
HhaI GCGC 1 cut(s) 227
Hin1I GRCGYC 1 cut(s) 225
Hin1II CATG 2 cut(s) 152, 322
Hin6I GCGC 1 cut(s) 225
HinP1I GCGC 1 cut(s) 225
HincII GTYRAC 4 cut(s) 73, 295, 361, 601
HindII GTYRAC 4 cut(s) 73, 295, 361, 601
HinfI GANTC 4 cut(s) 165, 331, 382, 532
HpaII CCGG 6 cut(s) 169, 204, 222, 440, 583, 617
HphI GGTGA 2 cut(s) 211, 606
Hpy166II GTNNAC 5 cut(s) 73, 295, 361, 601, 635
Hpy188I TCNGA 5 cut(s) 119, 138, 397, 462, 684
Hpy188III TCNNGA 4 cut(s) 52, 280, 328, 529
Hpy8I GTNNAC 5 cut(s) 73, 295, 361, 601, 635
Hpy99I CGWCG 2 cut(s) 302, 496
HpyAV CCTTC 1 cut(s) 400
HpyCH4III ACNGT 3 cut(s) 70, 144, 315
HpyCH4IV ACGT 2 cut(s) 5, 501
HpyCH4V TGCA 5 cut(s) 84, 354, 575, 635, 721
HpyF10VI GCNNNNNNNGC 1 cut(s) 20
HpyF3I CTNAG 1 cut(s) 683
HpySE526I ACGT 2 cut(s) 5, 501
Hsp92I GRCGYC 1 cut(s) 225
Hsp92II CATG 2 cut(s) 152, 322
HspAI GCGC 1 cut(s) 225
KasI GGCGCC 1 cut(s) 224
LmnI GCTCC 1 cut(s) 553
Lsp1109I GCAGC 1 cut(s) 68
LweI GCATC 1 cut(s) 356
MaeII ACGT 2 cut(s) 5, 501
MaeIII GTNAC 2 cut(s) 217, 607
MboII GAAGA 4 cut(s) 187, 251, 469, 659
MhlI GDGCHC 1 cut(s) 637
MluCI AATT 5 cut(s) 16, 86, 248, 273, 727
Mly113I GGCGCC 1 cut(s) 225
MlyI GAGTC 1 cut(s) 376
MseI TTAA 2 cut(s) 306, 736
MslI CAYNNNNRTG 1 cut(s) 158
MspI CCGG 6 cut(s) 169, 204, 222, 440, 583, 617
MspR9I CCNGG 4 cut(s) 170, 440, 441, 550
MvaI CCWGG 1 cut(s) 550
MvnI CGCG 1 cut(s) 368
MwoI GCNNNNNNNGC 1 cut(s) 20
NarI GGCGCC 1 cut(s) 225
NciI CCSGG 3 cut(s) 170, 440, 441
NlaIII CATG 2 cut(s) 152, 322
NlaIV GGNNCC 3 cut(s) 174, 226, 517
NmeAIII GCCGAG 1 cut(s) 454
NmuCI GTSAC 1 cut(s) 217
PceI AGGCCT 1 cut(s) 548
PcsI WCGNNNNNNNCGW 1 cut(s) 11
PfeI GAWTC 3 cut(s) 165, 331, 532
Pfl23II CGTACG 1 cut(s) 420
PfoI TCCNGGA 1 cut(s) 168
PinAI ACCGGT 1 cut(s) 616
PkrI GCNGC 2 cut(s) 83, 256
PleI GAGTC 1 cut(s) 376
PluTI GGCGCC 1 cut(s) 228
PpsI GAGTC 1 cut(s) 376
Psp1406I AACGTT 1 cut(s) 501
Psp6I CCWGG 1 cut(s) 548
PspGI CCWGG 1 cut(s) 548
PspLI CGTACG 1 cut(s) 420
PspN4I GGNNCC 3 cut(s) 174, 226, 517
PspPI GGNCC 3 cut(s) 91, 516, 619
RsaI GTAC 5 cut(s) 131, 312, 422, 563, 672
RsaNI GTAC 5 cut(s) 130, 311, 421, 562, 671
RseI CAYNNNNRTG 1 cut(s) 158
SaqAI TTAA 2 cut(s) 306, 736
SatI GCNGC 2 cut(s) 82, 255
Sau96I GGNCC 3 cut(s) 91, 516, 619
ScaI AGTACT 1 cut(s) 672
SchI GAGTC 1 cut(s) 376
ScrFI CCNGG 4 cut(s) 170, 440, 441, 550
SduI GDGCHC 1 cut(s) 637
SetI ASST 9 cut(s) 8, 96, 188, 312, 474, 504, 527, 606, 717
SfaNI GCATC 1 cut(s) 356
SfoI GGCGCC 1 cut(s) 226
SgrAI CRCCGGYG 1 cut(s) 221
SinI GGWCC 2 cut(s) 91, 619
SmaI CCCGGG 1 cut(s) 441
SmiMI CAYNNNNRTG 1 cut(s) 158
SmlI CTYRAG 2 cut(s) 377, 542
SmoI CTYRAG 2 cut(s) 377, 542
Sse9I AATT 5 cut(s) 16, 86, 248, 273, 727
SseBI AGGCCT 1 cut(s) 548
SsiI CCGC 2 cut(s) 254, 368
SspDI GGCGCC 1 cut(s) 224
StuI AGGCCT 1 cut(s) 548
StyD4I CCNGG 4 cut(s) 168, 438, 439, 548
StyI CCWWGG 1 cut(s) 468
TaaI ACNGT 3 cut(s) 70, 144, 315
TaiI ACGT 2 cut(s) 8, 504
TaqI TCGA 1 cut(s) 528
TasI AATT 5 cut(s) 16, 86, 248, 273, 727
TatI WGTACW 2 cut(s) 129, 670
TauI GCSGC 1 cut(s) 257
TfiI GAWTC 3 cut(s) 165, 331, 532
Tru1I TTAA 2 cut(s) 306, 736
Tru9I TTAA 2 cut(s) 306, 736
TscAI CASTG 1 cut(s) 517
TseFI GTSAC 1 cut(s) 217
TseI GCWGC 1 cut(s) 81
Tsp45I GTSAC 1 cut(s) 217
TspDTI ATGAA 2 cut(s) 137, 307
TspMI CCCGGG 1 cut(s) 439
TspRI CASTG 1 cut(s) 517
VneI GTGCAC 1 cut(s) 633
VpaK11BI GGWCC 2 cut(s) 91, 619
XapI RAATTY 2 cut(s) 16, 248
XcmI CCANNNNNNNNNTGG 1 cut(s) 73
XmaI CCCGGG 1 cut(s) 439
ZrmI AGTACT 1 cut(s) 672
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.