Rroxscaffold_4G00327210

Transcription initiation factor

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000004
OG0001612
Physical Location & Seq
Reverse (-)
59737356 .. 59740126
2771 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_4G00327210.1

Sequence Viewer

Length: 894 bp
ATGAGTAAGGGATACGTGGCTGCTGGTGATGAGAGGAAAAGGAGAATTGAATCAATTGATAATGGAACACCCTCAAGAAACCAAATTTCCTATAGAAATCTTGGGCAGTCTTCATCAATGGGGTTTTCACCATTCTTCCCAAACCCTCTGTTTCCTCCTGTCAAAAACCCTAACAAGCGTAGTGCATCCCCACCACCAAGTAAGAAGCAAAAGGTAGCTGATAATGAGATCGACATAGATCAAGAAGGCATTAAGCAACTCCGCGACGTCGTTTCTGTCAGTGGAGTCAATCTTGTGGAAGAGCAAGAGCGCATGCTGTTGCTTTCGGGGCCCAAGAAGCAGCAAGCATCTCGAAAACTTGTGTTTCAAGAAAATCAAGAAGGGCAGGTATTGCAGAAGATTCCCCTGCAGAAAAAGTTGGCGGGAATCATGGGGAGGTGCGGTTTGAGAATTGGTGTAGACAAAGATGTGGAGAGATGCTTGTCAATGTGTGTGGAGGAGAGAATGAGGGGCTTCATATGCAATTTGATTAGACAGTCGAAGCAGCGGGTTGATTGCGAAAAATTGAGACACCACACTGTTTCTACATCTGATGTGAAGCAAGAGATTATGATTCTCAACAGGAAAGCTAGGGAAGAGTTGCTGGAAAAGGCTCAGAAGCTTAATGAAGCTAAGGTTAGCACTAACGGATTTGAGAGTGTTAAGGATAGACATGACGATGCAGATGACAGAATGTGGAGAAGTACAGCAGCAGCAAATGTTGCTGCCCTTGCTGCTCTTGGAGGACATGACATATTGGCGAAATGGAAACTTAAGGCGGATCAGCTATCCCGGGAGAAGCGTCGAGGTAAAGATGTAAACCCCAGGCTACATCAACTGTTGGAAGAACAATGA
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

297

Amino Acids

33.6

Weight (kDa)

9.62

Isoelectric Point (pI)

51.91

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
TAF4 PF05236 87 - 277 7.5e-36 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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Publication-ready
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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AatII GACGTC 1 cut(s) 270
Acc36I ACCTGC 1 cut(s) 376
AccI GTMKAC 1 cut(s) 459
AccII CGCG 1 cut(s) 264
AciI CCGC 5 cut(s) 262, 422, 441, 547, 818
AclWI GGATC 1 cut(s) 828
AcsI RAATTY 1 cut(s) 84
AcyI GRCGYC 1 cut(s) 267
AfaI GTAC 1 cut(s) 745
AflII CTTAAG 1 cut(s) 812
AgsI TTSAA 2 cut(s) 50, 368
AjnI CCWGG 1 cut(s) 863
AluBI AGCT 5 cut(s) 218, 629, 661, 671, 826
AluI AGCT 5 cut(s) 218, 629, 661, 671, 826
Alw26I GTCTC 1 cut(s) 562
AlwI GGATC 1 cut(s) 828
Ama87I CYCGRG 1 cut(s) 831
AoxI GGCC 1 cut(s) 329
ApaI GGGCCC 1 cut(s) 333
ApeKI GCWGC 7 cut(s) 20, 340, 544, 749, 752, 764, 773
ApoI RAATTY 1 cut(s) 84
AspLEI GCGC 1 cut(s) 312
AspS9I GGNCC 2 cut(s) 329, 330
AsuC2I CCSGG 2 cut(s) 832, 833
AsuHPI GGTGA 2 cut(s) 38, 120
AvaI CYCGRG 1 cut(s) 831
BaeGI GKGCMC 1 cut(s) 333
BanII GRGCYC 1 cut(s) 333
BbsI GAAGAC 1 cut(s) 102
BbvI GCAGC 7 cut(s) 7, 352, 556, 751, 760, 761, 764
BcgI CGANNNNNNTGC 2 cut(s) 332, 366
BciT130I CCWGG 1 cut(s) 865
BciVI GTATCC 1 cut(s) 5
BcnI CCSGG 2 cut(s) 832, 833
BcoDI GTCTC 1 cut(s) 562
BfaI CTAG 1 cut(s) 630
BfmI CTRYAG 2 cut(s) 91, 407
BfrI CTTAAG 1 cut(s) 812
BfuAI ACCTGC 1 cut(s) 376
BfuI GTATCC 1 cut(s) 5
BisI GCNGC 7 cut(s) 21, 341, 545, 750, 753, 765, 774
BlsI GCNGC 7 cut(s) 22, 342, 546, 751, 754, 766, 775
Bme1390I CCNGG 3 cut(s) 832, 833, 865
BmeT110I CYCGRG 1 cut(s) 831
BmgT120I GGNCC 2 cut(s) 329, 330
BmiI GGNNCC 2 cut(s) 330, 331
BmrFI CCNGG 3 cut(s) 832, 833, 865
BmsI GCATC 4 cut(s) 194, 356, 467, 709
BpiI GAAGAC 1 cut(s) 102
Bpu10I CCTNAGC 1 cut(s) 672
BpuEI CTTGAG 1 cut(s) 58
BpuMI CCSGG 2 cut(s) 832, 833
BsaAI YACGTR 1 cut(s) 16
BsaHI GRCGYC 1 cut(s) 267
BsaJI CCNNGG 2 cut(s) 831, 863
BsaXI ACNNNNNCTCC 2 cut(s) 427, 457
BseBI CCWGG 1 cut(s) 865
BseDI CCNNGG 2 cut(s) 831, 863
BseGI GGATG 1 cut(s) 185
BseMII CTCAG 1 cut(s) 668
BseRI GAGGAG 1 cut(s) 512
BseSI GKGCMC 1 cut(s) 333
BseXI GCAGC 7 cut(s) 7, 352, 556, 751, 760, 761, 764
Bsh1236I CGCG 1 cut(s) 264
BshFI GGCC 1 cut(s) 331
BsiHKCI CYCGRG 1 cut(s) 831
BsiSI CCGG 1 cut(s) 832
BsmAI GTCTC 1 cut(s) 562
BsnI GGCC 1 cut(s) 331
BsoBI CYCGRG 1 cut(s) 831
Bsp120I GGGCCC 1 cut(s) 329
Bsp1286I GDGCHC 1 cut(s) 333
Bsp143I GATC 3 cut(s) 228, 238, 820
BspACI CCGC 5 cut(s) 262, 422, 441, 547, 818
BspANI GGCC 1 cut(s) 331
BspCNI CTCAG 1 cut(s) 667
BspFNI CGCG 1 cut(s) 264
BspLI GGNNCC 2 cut(s) 330, 331
BspMAI CTGCAG 1 cut(s) 411
BspMI ACCTGC 1 cut(s) 376
BspPI GGATC 1 cut(s) 828
BspQI GCTCTTC 1 cut(s) 294
BspTI CTTAAG 1 cut(s) 812
BssECI CCNNGG 2 cut(s) 831, 863
BssMI GATC 3 cut(s) 228, 238, 820
BssNI GRCGYC 1 cut(s) 267
Bst2UI CCWGG 1 cut(s) 865
Bst4CI ACNGT 3 cut(s) 537, 580, 879
Bst6I CTCTTC 2 cut(s) 294, 630
BstACI GRCGYC 1 cut(s) 267
BstAFI CTTAAG 1 cut(s) 812
BstAPI GCANNNNNTGC 2 cut(s) 391, 761
BstBAI YACGTR 1 cut(s) 16
BstC8I GCNNGC 2 cut(s) 314, 345
BstDEI CTNAG 2 cut(s) 654, 672
BstF5I GGATG 1 cut(s) 185
BstFNI CGCG 1 cut(s) 264
BstHHI GCGC 1 cut(s) 312
BstKTI GATC 3 cut(s) 231, 241, 823
BstMAI GTCTC 1 cut(s) 562
BstMBI GATC 3 cut(s) 228, 238, 820
BstMWI GCNNNNNNNGC 7 cut(s) 328, 337, 391, 519, 761, 770, 773
BstNI CCWGG 1 cut(s) 865
BstNSI RCATGY 1 cut(s) 316
BstSCI CCNGG 3 cut(s) 830, 831, 863
BstSFI CTRYAG 2 cut(s) 91, 407
BstSLI GKGCMC 1 cut(s) 333
BstUI CGCG 1 cut(s) 264
BstV1I GCAGC 7 cut(s) 7, 352, 556, 751, 760, 761, 764
BstV2I GAAGAC 1 cut(s) 102
BsuI GTATCC 1 cut(s) 5
BsuRI GGCC 1 cut(s) 331
BtsCI GGATG 1 cut(s) 185
BtsIMutI CAGTG 2 cut(s) 286, 576
BveI ACCTGC 1 cut(s) 376
Cac8I GCNNGC 2 cut(s) 314, 345
CfoI GCGC 1 cut(s) 312
Cfr13I GGNCC 2 cut(s) 329, 330
Cfr9I CCCGGG 1 cut(s) 831
CseI GACGC 1 cut(s) 830
Csp6I GTAC 1 cut(s) 744
CspCI CAANNNNNGTGG 2 cut(s) 474, 509
CviAII CATG 4 cut(s) 313, 430, 713, 788
CviQI GTAC 1 cut(s) 744
DdeI CTNAG 2 cut(s) 654, 672
DpnI GATC 3 cut(s) 230, 240, 822
DpnII GATC 3 cut(s) 228, 238, 820
Eam1104I CTCTTC 2 cut(s) 294, 630
EarI CTCTTC 2 cut(s) 294, 630
EciI GGCGGA 1 cut(s) 833
Eco24I GRGCYC 1 cut(s) 333
Eco88I CYCGRG 1 cut(s) 831
EcoO109I RGGNCCY 1 cut(s) 329
EcoRII CCWGG 1 cut(s) 863
EcoT38I GRGCYC 1 cut(s) 333
FaeI CATG 4 cut(s) 316, 433, 716, 791
FatI CATG 4 cut(s) 312, 429, 712, 787
FauI CCCGC 2 cut(s) 415, 540
FauNDI CATATG 1 cut(s) 518
FblI GTMKAC 1 cut(s) 459
Fnu4HI GCNGC 7 cut(s) 21, 341, 545, 750, 753, 765, 774
FokI GGATG 1 cut(s) 172
FriOI GRGCYC 1 cut(s) 333
Fsp4HI GCNGC 7 cut(s) 21, 341, 545, 750, 753, 765, 774
FspBI CTAG 1 cut(s) 630
GlaI GCGC 1 cut(s) 311
GluI GCNGC 7 cut(s) 21, 341, 545, 750, 753, 765, 774
HaeIII GGCC 1 cut(s) 331
HapII CCGG 1 cut(s) 832
HgaI GACGC 1 cut(s) 830
HhaI GCGC 1 cut(s) 312
Hin1I GRCGYC 1 cut(s) 267
Hin1II CATG 4 cut(s) 316, 433, 716, 791
Hin6I GCGC 1 cut(s) 310
HinP1I GCGC 1 cut(s) 310
HindIII AAGCTT 1 cut(s) 659
HinfI GANTC 5 cut(s) 50, 285, 400, 426, 613
HpaII CCGG 1 cut(s) 832
HphI GGTGA 2 cut(s) 38, 120
Hpy166II GTNNAC 2 cut(s) 460, 859
Hpy188I TCNGA 2 cut(s) 592, 657
Hpy188III TCNNGA 5 cut(s) 75, 242, 351, 368, 377
Hpy8I GTNNAC 2 cut(s) 460, 859
Hpy99I CGWCG 3 cut(s) 269, 272, 846
HpyAV CCTTC 2 cut(s) 239, 374
HpyCH4III ACNGT 3 cut(s) 537, 580, 879
HpyCH4IV ACGT 2 cut(s) 15, 267
HpyCH4V TGCA 5 cut(s) 185, 394, 409, 522, 722
HpyF10VI GCNNNNNNNGC 7 cut(s) 328, 337, 391, 519, 761, 770, 773
HpyF3I CTNAG 2 cut(s) 654, 672
HpySE526I ACGT 2 cut(s) 15, 267
Hsp92I GRCGYC 1 cut(s) 267
Hsp92II CATG 4 cut(s) 316, 433, 716, 791
HspAI GCGC 1 cut(s) 310
Kzo9I GATC 3 cut(s) 228, 238, 820
LguI GCTCTTC 1 cut(s) 294
LpnPI CCDG 9 cut(s) 9, 171, 371, 419, 607, 629, 845, 850, 877
Lsp1109I GCAGC 7 cut(s) 7, 352, 556, 751, 760, 761, 764
LweI GCATC 4 cut(s) 194, 356, 467, 709
MaeI CTAG 1 cut(s) 630
MaeII ACGT 2 cut(s) 15, 267
MalI GATC 3 cut(s) 230, 240, 822
MboI GATC 3 cut(s) 228, 238, 820
MboII GAAGA 5 cut(s) 102, 127, 311, 409, 647
MfeI CAATTG 1 cut(s) 54
MhlI GDGCHC 1 cut(s) 333
MluCI AATT 6 cut(s) 45, 54, 84, 450, 523, 563
MlyI GAGTC 1 cut(s) 294
MmeI TCCRAC 1 cut(s) 861
MnlI CCTC 9 cut(s) 27, 82, 156, 165, 429, 490, 501, 776, 839
MseI TTAA 4 cut(s) 252, 663, 702, 813
MslI CAYNNNNRTG 1 cut(s) 717
MspA1I CMGCKG 1 cut(s) 547
MspCI CTTAAG 1 cut(s) 812
MspI CCGG 1 cut(s) 832
MspR9I CCNGG 3 cut(s) 832, 833, 865
MunI CAATTG 1 cut(s) 54
MvaI CCWGG 1 cut(s) 865
MvnI CGCG 1 cut(s) 264
MwoI GCNNNNNNNGC 7 cut(s) 328, 337, 391, 519, 761, 770, 773
NciI CCSGG 2 cut(s) 832, 833
NdeI CATATG 1 cut(s) 518
NdeII GATC 3 cut(s) 228, 238, 820
NlaIII CATG 4 cut(s) 316, 433, 716, 791
NlaIV GGNNCC 2 cut(s) 330, 331
NspI RCATGY 1 cut(s) 316
PaeI GCATGC 1 cut(s) 316
PciSI GCTCTTC 1 cut(s) 294
PfeI GAWTC 4 cut(s) 50, 400, 426, 613
PkrI GCNGC 7 cut(s) 22, 342, 546, 751, 754, 766, 775
PleI GAGTC 1 cut(s) 293
PpsI GAGTC 1 cut(s) 293
Ppu21I YACGTR 1 cut(s) 16
Psp6I CCWGG 1 cut(s) 863
PspGI CCWGG 1 cut(s) 863
PspN4I GGNNCC 2 cut(s) 330, 331
PspOMI GGGCCC 1 cut(s) 329
PspPI GGNCC 2 cut(s) 329, 330
PstI CTGCAG 1 cut(s) 411
RsaI GTAC 1 cut(s) 745
RsaNI GTAC 1 cut(s) 744
RseI CAYNNNNRTG 1 cut(s) 717
SapI GCTCTTC 1 cut(s) 294
SaqAI TTAA 4 cut(s) 252, 663, 702, 813
SatI GCNGC 7 cut(s) 21, 341, 545, 750, 753, 765, 774
Sau3AI GATC 3 cut(s) 228, 238, 820
Sau96I GGNCC 2 cut(s) 329, 330
SchI GAGTC 1 cut(s) 294
ScrFI CCNGG 3 cut(s) 832, 833, 865
SduI GDGCHC 1 cut(s) 333
SfaNI GCATC 4 cut(s) 194, 356, 467, 709
SfcI CTRYAG 2 cut(s) 91, 407
SmaI CCCGGG 1 cut(s) 833
SmiMI CAYNNNNRTG 1 cut(s) 717
SmlI CTYRAG 2 cut(s) 73, 812
SmoI CTYRAG 2 cut(s) 73, 812
SphI GCATGC 1 cut(s) 316
Sse9I AATT 6 cut(s) 45, 54, 84, 450, 523, 563
SsiI CCGC 5 cut(s) 262, 422, 441, 547, 818
SspMI CTAG 1 cut(s) 630
StyD4I CCNGG 3 cut(s) 830, 831, 863
TaaI ACNGT 3 cut(s) 537, 580, 879
TaiI ACGT 2 cut(s) 18, 270
TaqI TCGA 4 cut(s) 231, 352, 539, 844
TasI AATT 6 cut(s) 45, 54, 84, 450, 523, 563
TatI WGTACW 1 cut(s) 743
TfiI GAWTC 4 cut(s) 50, 400, 426, 613
Tru1I TTAA 4 cut(s) 252, 663, 702, 813
Tru9I TTAA 4 cut(s) 252, 663, 702, 813
TscAI CASTG 2 cut(s) 286, 583
TseI GCWGC 7 cut(s) 20, 340, 544, 749, 752, 764, 773
TspDTI ATGAA 3 cut(s) 102, 505, 681
TspGWI ACGGA 1 cut(s) 702
TspMI CCCGGG 1 cut(s) 831
TspRI CASTG 2 cut(s) 286, 583
Vha464I CTTAAG 1 cut(s) 812
XapI RAATTY 1 cut(s) 84
XceI RCATGY 1 cut(s) 316
XmaI CCCGGG 1 cut(s) 831
XmiI GTMKAC 1 cut(s) 459
XspI CTAG 1 cut(s) 630
ZraI GACGTC 1 cut(s) 268
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.