Rw1G006790

Transcription initiation factor

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_wichuraiana
Chr1
OG0001817
Physical Location & Seq
Reverse (-)
13979043 .. 13983416
4374 bp
Loading structure...
UTR
Exon/CDS
Intron
Rw1G006790.1

Sequence Viewer

Length: 582 bp
ATGAATCTCAATTTGGCAGCTAGGAAAGAATGGCAGGCAGAGGAACAAGCAGTCCAGAAGCTTAGTGAACCTGATGTTAGCAATGGAGTCAACCACAGTAAGGAAAAAGATCAAGGTTGTTCTAAATTGTTTAAGGTAAATAAAGAAGAAGATGATAAAATGAGTACAACAGCAGCAAATGTTGTGGCCCTTGCTGCTGTTGGAGGAGATGACATGTTGTCAAAATGGAAACTTATCGCTGAGCGAGCCAGGAAAAAGCGTGAAGGTGGGTTTAATGCTCCATCTGTGTCCCAGGATGTGAACCACAAGCCCACAACAGCGGGAAGAATTATGATGTACAATCAAGAAGCAGAGAAAATGCGGGATGGAGCTGGGACTATAAGAAATTTTGGAGAAAACCAAGTTGTCATGCCCCAAACAAGGGTGGTGCGTGGTATATCAGTAAAAGATGTGATTGCTGTTCTGGAACGGGAACCTTGGATGTCGAAGTCTCCTCTGACATATCTCTTATATGAGAGAAACCGTTCTGATATCACTGTTGAAGACTCCAAATTGTTAAATACAGTGCCTATCATATCCTAG
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
GO:0000428 GO:0001650 GO:0003674 GO:0003676 GO:0003677 GO:0003712 GO:0003713 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005667 GO:0005669 GO:0005730 GO:0005911 GO:0006139 GO:0006351 GO:0006352 GO:0006355 GO:0006357 GO:0006366 GO:0006367 GO:0006725 GO:0006807 GO:0008134 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009506 GO:0009889 GO:0009891 GO:0009893 GO:0009966 GO:0009987 GO:0010467 GO:0010468 GO:0010556 GO:0010557 GO:0010604 GO:0010628 GO:0010646 GO:0016070 GO:0016591 GO:0018130 GO:0019219 GO:0019222 GO:0019438 GO:0023051 GO:0030054 GO:0030880 GO:0031323 GO:0031325 GO:0031326 GO:0031328 GO:0031974 GO:0031981 GO:0032774 GO:0032991 GO:0034641 GO:0034645 GO:0034654 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044271 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044451 GO:0044452 GO:0044464 GO:0044798 GO:0045893 GO:0045935 GO:0045944 GO:0046483 GO:0048518 GO:0048522 GO:0048583 GO:0050789 GO:0050794 GO:0051059 GO:0051171 GO:0051173 GO:0051252 GO:0051254 GO:0055029 GO:0055044 GO:0060255 GO:0061695 GO:0065007 GO:0070013 GO:0071704 GO:0080090 GO:0090304 GO:0090575 GO:0097159 GO:0097659 GO:0140110 GO:1901360 GO:1901362 GO:1901363 GO:1901576 GO:1901796 GO:1902494 GO:1902531 GO:1902680 GO:1903506 GO:1903508 GO:1990234 GO:2000112 GO:2001141
KEGG Pathways
Metabolic & Signaling
ko03022 ko05016 ko05168 map03022 map05016 map05168
Pfam Domains
Protein Families
RST TAF4

Protein Analysis

193

Amino Acids

21.56

Weight (kDa)

8.59

Isoelectric Point (pI)

39.25

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
TAF4 PF05236 2 - 168 3.1e-21 Transcription initiation factor TFIID component TAF4 family
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AciI CCGC 2 cut(s) 320, 361
AcsI RAATTY 1 cut(s) 385
AfaI GTAC 2 cut(s) 166, 338
AfiI CCNNNNNNNGG 3 cut(s) 100, 420, 421
AflIII ACRYGT 1 cut(s) 213
AgsI TTSAA 1 cut(s) 542
AhdI GACNNNNNGTC 1 cut(s) 217
AjnI CCWGG 2 cut(s) 248, 291
AjuI GAANNNNNNNTTGG 1 cut(s) 28
AloI GAACNNNNNNTCC 2 cut(s) 36, 68
AluBI AGCT 3 cut(s) 20, 61, 371
AluI AGCT 3 cut(s) 20, 61, 371
Alw26I GTCTC 1 cut(s) 495
AoxI GGCC 1 cut(s) 186
ApeKI GCWGC 3 cut(s) 17, 173, 194
ApoI RAATTY 1 cut(s) 385
Asp700I GAANNNNTTC 1 cut(s) 523
AspS9I GGNCC 1 cut(s) 187
BbsI GAAGAC 1 cut(s) 549
BbvI GCAGC 3 cut(s) 29, 181, 185
BccI CCATC 2 cut(s) 289, 359
BciT130I CCWGG 2 cut(s) 250, 293
BcoDI GTCTC 1 cut(s) 495
BfaI CTAG 2 cut(s) 21, 580
BisI GCNGC 3 cut(s) 18, 174, 195
BlpI GCTNAGC 1 cut(s) 240
BlsI GCNGC 3 cut(s) 19, 175, 196
Bme1390I CCNGG 2 cut(s) 250, 293
BmeRI GACNNNNNGTC 1 cut(s) 217
BmgT120I GGNCC 1 cut(s) 187
BmiI GGNNCC 1 cut(s) 474
BmrFI CCNGG 2 cut(s) 250, 293
BpiI GAAGAC 1 cut(s) 549
Bpu1102I GCTNAGC 1 cut(s) 240
BsaJI CCNNGG 2 cut(s) 291, 476
Bsc4I CCNNNNNNNGG 3 cut(s) 100, 420, 421
Bse3DI GCAATG 1 cut(s) 88
BseBI CCWGG 2 cut(s) 250, 293
BseDI CCNNGG 2 cut(s) 291, 476
BseGI GGATG 3 cut(s) 301, 370, 486
BseLI CCNNNNNNNGG 3 cut(s) 100, 420, 421
BseMI GCAATG 1 cut(s) 88
BseMII CTCAG 1 cut(s) 231
BseRI GAGGAG 2 cut(s) 219, 483
BseXI GCAGC 3 cut(s) 29, 181, 185
BseYI CCCAGC 1 cut(s) 371
BshFI GGCC 1 cut(s) 188
BslFI GGGAC 2 cut(s) 274, 388
BslI CCNNNNNNNGG 3 cut(s) 100, 420, 421
BsmAI GTCTC 1 cut(s) 495
BsmFI GGGAC 2 cut(s) 274, 388
BsnI GGCC 1 cut(s) 188
Bsp1407I TGTACA 1 cut(s) 336
Bsp143I GATC 1 cut(s) 109
Bsp1720I GCTNAGC 1 cut(s) 240
BspACI CCGC 2 cut(s) 320, 361
BspANI GGCC 1 cut(s) 188
BspCNI CTCAG 1 cut(s) 232
BspLI GGNNCC 1 cut(s) 474
BsrDI GCAATG 1 cut(s) 88
BsrGI TGTACA 1 cut(s) 336
BssECI CCNNGG 2 cut(s) 291, 476
BssMI GATC 1 cut(s) 109
BssT1I CCWWGG 1 cut(s) 476
Bst2UI CCWGG 2 cut(s) 250, 293
Bst4CI ACNGT 4 cut(s) 98, 524, 538, 565
BstAUI TGTACA 1 cut(s) 336
BstC8I GCNNGC 2 cut(s) 36, 246
BstDEI CTNAG 2 cut(s) 62, 240
BstF5I GGATG 3 cut(s) 301, 370, 486
BstKTI GATC 1 cut(s) 112
BstMAI GTCTC 1 cut(s) 495
BstMBI GATC 1 cut(s) 109
BstMWI GCNNNNNNNGC 2 cut(s) 194, 245
BstNI CCWGG 2 cut(s) 250, 293
BstNSI RCATGY 1 cut(s) 217
BstSCI CCNGG 2 cut(s) 248, 291
BstV1I GCAGC 3 cut(s) 29, 181, 185
BstV2I GAAGAC 1 cut(s) 549
BsuRI GGCC 1 cut(s) 188
BtsCI GGATG 3 cut(s) 301, 370, 486
BtsIMutI CAGTG 2 cut(s) 534, 570
Cac8I GCNNGC 2 cut(s) 36, 246
Cfr13I GGNCC 1 cut(s) 187
Csp6I GTAC 2 cut(s) 165, 337
CspCI CAANNNNNGTGG 2 cut(s) 165, 200
CviAII CATG 2 cut(s) 214, 409
CviJI RGCY 6 cut(s) 20, 61, 188, 248, 310, 371
CviKI_1 RGCY 6 cut(s) 20, 61, 188, 248, 310, 371
CviQI GTAC 2 cut(s) 165, 337
DdeI CTNAG 2 cut(s) 62, 240
DpnI GATC 1 cut(s) 111
DpnII GATC 1 cut(s) 109
DriI GACNNNNNGTC 1 cut(s) 217
Eam1105I GACNNNNNGTC 1 cut(s) 217
Eco130I CCWWGG 1 cut(s) 476
Eco32I GATATC 1 cut(s) 532
EcoRII CCWGG 2 cut(s) 248, 291
EcoRV GATATC 1 cut(s) 532
EcoT14I CCWWGG 1 cut(s) 476
ErhI CCWWGG 1 cut(s) 476
FaeI CATG 2 cut(s) 217, 412
FaiI YATR 9 cut(s) 215, 332, 380, 410, 437, 502, 511, 513, 575
FaqI GGGAC 2 cut(s) 274, 388
FatI CATG 2 cut(s) 213, 408
FauI CCCGC 2 cut(s) 313, 354
Fnu4HI GCNGC 3 cut(s) 18, 174, 195
FokI GGATG 3 cut(s) 308, 377, 493
Fsp4HI GCNGC 3 cut(s) 18, 174, 195
FspBI CTAG 2 cut(s) 21, 580
GluI GCNGC 3 cut(s) 18, 174, 195
GsaI CCCAGC 1 cut(s) 375
HaeIII GGCC 1 cut(s) 188
Hin1II CATG 2 cut(s) 217, 412
HincII GTYRAC 1 cut(s) 91
HindII GTYRAC 1 cut(s) 91
HindIII AAGCTT 1 cut(s) 59
HinfI GANTC 3 cut(s) 4, 87, 545
Hpy166II GTNNAC 3 cut(s) 68, 91, 301
Hpy188I TCNGA 2 cut(s) 498, 529
Hpy188III TCNNGA 3 cut(s) 55, 344, 464
Hpy8I GTNNAC 3 cut(s) 68, 91, 301
HpyAV CCTTC 1 cut(s) 257
HpyCH4III ACNGT 4 cut(s) 98, 524, 538, 565
HpyF10VI GCNNNNNNNGC 2 cut(s) 194, 245
HpyF3I CTNAG 2 cut(s) 62, 240
Hsp92II CATG 2 cut(s) 217, 412
Kzo9I GATC 1 cut(s) 109
LmnI GCTCC 2 cut(s) 283, 368
LpnPI CCDG 9 cut(s) 20, 68, 84, 235, 262, 278, 305, 357, 449
Lsp1109I GCAGC 3 cut(s) 29, 181, 185
MaeI CTAG 2 cut(s) 21, 580
MalI GATC 1 cut(s) 111
MboI GATC 1 cut(s) 109
MboII GAAGA 4 cut(s) 158, 161, 336, 554
MluCI AATT 5 cut(s) 10, 125, 327, 385, 551
MlyI GAGTC 2 cut(s) 96, 539
MmeI TCCRAC 1 cut(s) 181
MnlI CCTC 3 cut(s) 34, 197, 504
MroXI GAANNNNTTC 1 cut(s) 523
MseI TTAA 3 cut(s) 132, 273, 557
MspA1I CMGCKG 1 cut(s) 320
MspR9I CCNGG 2 cut(s) 250, 293
MvaI CCWGG 2 cut(s) 250, 293
MwoI GCNNNNNNNGC 2 cut(s) 194, 245
NdeII GATC 1 cut(s) 109
NlaIII CATG 2 cut(s) 217, 412
NlaIV GGNNCC 1 cut(s) 474
NspI RCATGY 1 cut(s) 217
PciI ACATGT 1 cut(s) 213
PdmI GAANNNNTTC 1 cut(s) 523
PfeI GAWTC 1 cut(s) 4
PkrI GCNGC 3 cut(s) 19, 175, 196
PleI GAGTC 2 cut(s) 95, 539
PpsI GAGTC 2 cut(s) 95, 539
PscI ACATGT 1 cut(s) 213
Psp6I CCWGG 2 cut(s) 248, 291
PspFI CCCAGC 1 cut(s) 371
PspGI CCWGG 2 cut(s) 248, 291
PspN4I GGNNCC 1 cut(s) 474
PspPI GGNCC 1 cut(s) 187
RsaI GTAC 2 cut(s) 166, 338
RsaNI GTAC 2 cut(s) 165, 337
SaqAI TTAA 3 cut(s) 132, 273, 557
SatI GCNGC 3 cut(s) 18, 174, 195
Sau3AI GATC 1 cut(s) 109
Sau96I GGNCC 1 cut(s) 187
SchI GAGTC 2 cut(s) 96, 539
ScrFI CCNGG 2 cut(s) 250, 293
SetI ASST 8 cut(s) 22, 63, 73, 118, 138, 268, 373, 478
Sse9I AATT 5 cut(s) 10, 125, 327, 385, 551
SsiI CCGC 2 cut(s) 320, 361
SspMI CTAG 2 cut(s) 21, 580
StyD4I CCNGG 2 cut(s) 248, 291
StyI CCWWGG 1 cut(s) 476
TaaI ACNGT 4 cut(s) 98, 524, 538, 565
TaqI TCGA 1 cut(s) 485
TasI AATT 5 cut(s) 10, 125, 327, 385, 551
TatI WGTACW 2 cut(s) 164, 336
TfiI GAWTC 1 cut(s) 4
Tru1I TTAA 3 cut(s) 132, 273, 557
Tru9I TTAA 3 cut(s) 132, 273, 557
TscAI CASTG 2 cut(s) 541, 570
TseI GCWGC 3 cut(s) 17, 173, 194
TspDTI ATGAA 1 cut(s) 17
TspRI CASTG 2 cut(s) 541, 570
XapI RAATTY 1 cut(s) 385
XceI RCATGY 1 cut(s) 217
XmnI GAANNNNTTC 1 cut(s) 523
XspI CTAG 2 cut(s) 21, 580
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.