RLG00000028661

Transcription initiation factor

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_laevigata
Chr6
OG0001612
Physical Location & Seq
Forward (+)
25761055 .. 25761932
878 bp
Loading structure...
UTR
Exon/CDS
Intron
RLM00000028661

Sequence Viewer

Length: 843 bp
ATGGATCAAGAAGGCATTGAGCAACTCCGCGACGTCGTTTCTGTAAGTGGAGTCAATCTTGTCGAAGAGGAAGAGCGCATGCTGTTGCGCTCGGGGCCCAAGAAGCTGCAAGCATCTCGAAAACTTGTGCTTCAAGAAAACCAAGGGGGGCTGGTTTTGCAGAAGATTCCGTTGCAGAAAAAGTTGGCGGGAATCATGGGGAGGTGGGGTTTGAGAATTGGTGAAGACGAAGATGTGGAGAGATGCTTGTCAATGTGTGTGGAGGAGAGAATGAGGGGCATCATATGCAATTTGATTAGACAGTCGAAGCAGCGGGTTGATTGCGAAAAATCGAGACACCACACTGTTTGTACATCTGATGTGAAGCAAGCAATTACGATTCTCAACAAGAAAGCTAGGGAAGAATTGCAGGAAACGGCTCAGAAGCTTAATGAAGCTAAGGTTAGCACTAACGGATTTGAGGGTGTTAAGGATAAACGTGACGATGGAGATGACAAAACGATGAGAAGTACAGCAGCAGCAAATGTTGCTGCCCTTGCTGCTCTTGGAGGACATGACATATTGGCGAAATGGAAACTTAAGGCGGATCAGCTATCCCTGGAGAAGCGTCGAGGTAAAGATGTAAACCCCAAGGCTACATCAACTGTTGGAAGAACAATAGAAGCGGAGAAAAGGGGCGGTGTAGAAGCTATGGTGTCTGCAGCTGGGAGTGCTGTTGGAAAGTTTGGGAGGAATTGCCAAGTTATGATGATGCCTCAAACAAAGGTGGCTAGTACTCGTAGTATATCTGTCAAGGATGTGATTGCTGCTCTGGAAAAGGAATCTCAGACGTCCAACCGGTGA
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

281

Amino Acids

30.82

Weight (kDa)

9.34

Isoelectric Point (pI)

47.08

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
TAF4 PF05236 9 - 279 1.6e-43 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)
AatII GACGTC 2 cut(s) 36, 833
AccII CGCG 1 cut(s) 30
AciI CCGC 6 cut(s) 28, 188, 313, 584, 665, 678
AclWI GGATC 2 cut(s) 12, 594
AcyI GRCGYC 2 cut(s) 33, 830
AfaI GTAC 3 cut(s) 352, 511, 775
AflII CTTAAG 1 cut(s) 578
AgeI ACCGGT 1 cut(s) 837
AgsI TTSAA 1 cut(s) 134
AjnI CCWGG 1 cut(s) 597
AluBI AGCT 7 cut(s) 106, 395, 427, 437, 592, 689, 704
AluI AGCT 7 cut(s) 106, 395, 427, 437, 592, 689, 704
Alw26I GTCTC 1 cut(s) 328
AlwI GGATC 2 cut(s) 12, 594
Ama87I CYCGRG 1 cut(s) 91
AoxI GGCC 1 cut(s) 95
ApaI GGGCCC 1 cut(s) 99
ApeKI GCWGC 8 cut(s) 106, 310, 515, 518, 530, 539, 701, 806
AsiGI ACCGGT 1 cut(s) 837
AspLEI GCGC 2 cut(s) 78, 90
AspS9I GGNCC 2 cut(s) 95, 96
AsuHPI GGTGA 1 cut(s) 233
AvaI CYCGRG 1 cut(s) 91
BaeGI GKGCMC 1 cut(s) 99
BanII GRGCYC 1 cut(s) 99
BbsI GAAGAC 1 cut(s) 231
BbvI GCAGC 8 cut(s) 93, 322, 517, 526, 527, 530, 713, 793
BccI CCATC 1 cut(s) 479
BceAI ACGGC 1 cut(s) 432
BcgI CGANNNNNNTGC 2 cut(s) 98, 132
BciT130I CCWGG 1 cut(s) 599
BcoDI GTCTC 1 cut(s) 328
BfaI CTAG 2 cut(s) 396, 771
BfmI CTRYAG 1 cut(s) 699
BfrI CTTAAG 1 cut(s) 578
BisI GCNGC 8 cut(s) 107, 311, 516, 519, 531, 540, 702, 807
BlsI GCNGC 8 cut(s) 108, 312, 517, 520, 532, 541, 703, 808
BmcAI AGTACT 1 cut(s) 775
Bme1390I CCNGG 1 cut(s) 599
BmeT110I CYCGRG 1 cut(s) 91
BmgT120I GGNCC 2 cut(s) 95, 96
BmiI GGNNCC 2 cut(s) 96, 97
BmrFI CCNGG 1 cut(s) 599
BmsI GCATC 4 cut(s) 122, 233, 288, 741
BpiI GAAGAC 1 cut(s) 231
BpmI CTGGAG 1 cut(s) 620
Bpu10I CCTNAGC 1 cut(s) 438
BsaHI GRCGYC 2 cut(s) 33, 830
BsaJI CCNNGG 3 cut(s) 142, 597, 630
BsaWI WCCGGW 1 cut(s) 837
BsaXI ACNNNNNCTCC 2 cut(s) 193, 223
Bse118I RCCGGY 1 cut(s) 837
BseBI CCWGG 1 cut(s) 599
BseDI CCNNGG 3 cut(s) 142, 597, 630
BseGI GGATG 1 cut(s) 802
BseMII CTCAG 2 cut(s) 434, 839
BseRI GAGGAG 1 cut(s) 278
BseSI GKGCMC 1 cut(s) 99
BseXI GCAGC 8 cut(s) 93, 322, 517, 526, 527, 530, 713, 793
BseYI CCCAGC 1 cut(s) 704
Bsh1236I CGCG 1 cut(s) 30
BshFI GGCC 1 cut(s) 97
BshTI ACCGGT 1 cut(s) 837
BsiHKCI CYCGRG 1 cut(s) 91
BsiSI CCGG 1 cut(s) 838
BsmAI GTCTC 1 cut(s) 328
BsnI GGCC 1 cut(s) 97
BsoBI CYCGRG 1 cut(s) 91
Bsp120I GGGCCC 1 cut(s) 95
Bsp1286I GDGCHC 1 cut(s) 99
Bsp1407I TGTACA 1 cut(s) 350
Bsp143I GATC 2 cut(s) 4, 586
BspACI CCGC 6 cut(s) 28, 188, 313, 584, 665, 678
BspANI GGCC 1 cut(s) 97
BspCNI CTCAG 2 cut(s) 433, 838
BspFNI CGCG 1 cut(s) 30
BspLI GGNNCC 2 cut(s) 96, 97
BspMAI CTGCAG 1 cut(s) 703
BspPI GGATC 2 cut(s) 12, 594
BspQI GCTCTTC 1 cut(s) 66
BspTI CTTAAG 1 cut(s) 578
BsrFI RCCGGY 1 cut(s) 837
BsrGI TGTACA 1 cut(s) 350
BssAI RCCGGY 1 cut(s) 837
BssECI CCNNGG 3 cut(s) 142, 597, 630
BssMI GATC 2 cut(s) 4, 586
BssNI GRCGYC 2 cut(s) 33, 830
BssT1I CCWWGG 2 cut(s) 142, 630
Bst2UI CCWGG 1 cut(s) 599
Bst4CI ACNGT 3 cut(s) 303, 346, 646
Bst6I CTCTTC 2 cut(s) 60, 66
BstACI GRCGYC 2 cut(s) 33, 830
BstAFI CTTAAG 1 cut(s) 578
BstAPI GCANNNNNTGC 2 cut(s) 285, 527
BstAUI TGTACA 1 cut(s) 350
BstC8I GCNNGC 3 cut(s) 80, 111, 369
BstDEI CTNAG 3 cut(s) 420, 438, 825
BstF5I GGATG 1 cut(s) 802
BstFNI CGCG 1 cut(s) 30
BstHHI GCGC 2 cut(s) 78, 90
BstKTI GATC 2 cut(s) 7, 589
BstMAI GTCTC 1 cut(s) 328
BstMBI GATC 2 cut(s) 4, 586
BstMWI GCNNNNNNNGC 8 cut(s) 94, 103, 157, 285, 527, 536, 539, 710
BstNI CCWGG 1 cut(s) 599
BstNSI RCATGY 1 cut(s) 82
BstSCI CCNGG 1 cut(s) 597
BstSFI CTRYAG 1 cut(s) 699
BstSLI GKGCMC 1 cut(s) 99
BstUI CGCG 1 cut(s) 30
BstV1I GCAGC 8 cut(s) 93, 322, 517, 526, 527, 530, 713, 793
BstV2I GAAGAC 1 cut(s) 231
BsuRI GGCC 1 cut(s) 97
BtsCI GGATG 1 cut(s) 802
BtsIMutI CAGTG 1 cut(s) 342
Cac8I GCNNGC 3 cut(s) 80, 111, 369
CfoI GCGC 2 cut(s) 78, 90
Cfr10I RCCGGY 1 cut(s) 837
Cfr13I GGNCC 2 cut(s) 95, 96
CseI GACGC 1 cut(s) 596
Csp6I GTAC 3 cut(s) 351, 510, 774
CspAI ACCGGT 1 cut(s) 837
CspCI CAANNNNNGTGG 4 cut(s) 240, 275, 329, 364
CviAII CATG 3 cut(s) 79, 196, 554
CviQI GTAC 3 cut(s) 351, 510, 774
DdeI CTNAG 3 cut(s) 420, 438, 825
DpnI GATC 2 cut(s) 6, 588
DpnII GATC 2 cut(s) 4, 586
Eam1104I CTCTTC 2 cut(s) 60, 66
EarI CTCTTC 2 cut(s) 60, 66
EciI GGCGGA 1 cut(s) 599
Eco130I CCWWGG 2 cut(s) 142, 630
Eco24I GRGCYC 1 cut(s) 99
Eco88I CYCGRG 1 cut(s) 91
EcoO109I RGGNCCY 1 cut(s) 95
EcoRII CCWGG 1 cut(s) 597
EcoT14I CCWWGG 2 cut(s) 142, 630
EcoT38I GRGCYC 1 cut(s) 99
ErhI CCWWGG 2 cut(s) 142, 630
FaeI CATG 3 cut(s) 82, 199, 557
FaiI YATR 9 cut(s) 80, 197, 284, 286, 555, 560, 692, 746, 785
FatI CATG 3 cut(s) 78, 195, 553
FauI CCCGC 2 cut(s) 181, 306
FauNDI CATATG 1 cut(s) 284
Fnu4HI GCNGC 8 cut(s) 107, 311, 516, 519, 531, 540, 702, 807
FokI GGATG 1 cut(s) 809
FriOI GRGCYC 1 cut(s) 99
Fsp4HI GCNGC 8 cut(s) 107, 311, 516, 519, 531, 540, 702, 807
FspBI CTAG 2 cut(s) 396, 771
GlaI GCGC 2 cut(s) 77, 89
GluI GCNGC 8 cut(s) 107, 311, 516, 519, 531, 540, 702, 807
GsaI CCCAGC 1 cut(s) 708
GsuI CTGGAG 1 cut(s) 620
HaeIII GGCC 1 cut(s) 97
HapII CCGG 1 cut(s) 838
HgaI GACGC 1 cut(s) 596
HhaI GCGC 2 cut(s) 78, 90
Hin1I GRCGYC 2 cut(s) 33, 830
Hin1II CATG 3 cut(s) 82, 199, 557
Hin6I GCGC 2 cut(s) 76, 88
HinP1I GCGC 2 cut(s) 76, 88
HindIII AAGCTT 1 cut(s) 425
HinfI GANTC 5 cut(s) 51, 166, 192, 379, 821
HpaII CCGG 1 cut(s) 838
HphI GGTGA 1 cut(s) 233
Hpy166II GTNNAC 1 cut(s) 625
Hpy188I TCNGA 3 cut(s) 358, 423, 828
Hpy188III TCNNGA 5 cut(s) 8, 117, 134, 333, 812
Hpy8I GTNNAC 1 cut(s) 625
Hpy99I CGWCG 3 cut(s) 35, 38, 612
HpyAV CCTTC 1 cut(s) 5
HpyCH4III ACNGT 3 cut(s) 303, 346, 646
HpyCH4IV ACGT 3 cut(s) 33, 478, 830
HpyCH4V TGCA 6 cut(s) 109, 160, 175, 288, 409, 701
HpyF10VI GCNNNNNNNGC 8 cut(s) 94, 103, 157, 285, 527, 536, 539, 710
HpyF3I CTNAG 3 cut(s) 420, 438, 825
HpySE526I ACGT 3 cut(s) 33, 478, 830
Hsp92I GRCGYC 2 cut(s) 33, 830
Hsp92II CATG 3 cut(s) 82, 199, 557
HspAI GCGC 2 cut(s) 76, 88
Kzo9I GATC 2 cut(s) 4, 586
LguI GCTCTTC 1 cut(s) 66
LpnPI CCDG 6 cut(s) 137, 395, 584, 611, 690, 797
Lsp1109I GCAGC 8 cut(s) 93, 322, 517, 526, 527, 530, 713, 793
LweI GCATC 4 cut(s) 122, 233, 288, 741
MaeI CTAG 2 cut(s) 396, 771
MaeII ACGT 3 cut(s) 33, 478, 830
MaeIII GTNAC 1 cut(s) 479
MalI GATC 2 cut(s) 6, 588
MboI GATC 2 cut(s) 4, 586
MboII GAAGA 7 cut(s) 77, 83, 175, 236, 242, 413, 663
MhlI GDGCHC 1 cut(s) 99
MluCI AATT 5 cut(s) 216, 289, 372, 404, 733
MlyI GAGTC 1 cut(s) 60
MmeI TCCRAC 2 cut(s) 628, 697
MnlI CCTC 9 cut(s) 61, 195, 256, 267, 454, 542, 605, 723, 765
MseI TTAA 3 cut(s) 429, 468, 579
MspA1I CMGCKG 2 cut(s) 313, 704
MspCI CTTAAG 1 cut(s) 578
MspI CCGG 1 cut(s) 838
MspR9I CCNGG 1 cut(s) 599
MvaI CCWGG 1 cut(s) 599
MvnI CGCG 1 cut(s) 30
MwoI GCNNNNNNNGC 8 cut(s) 94, 103, 157, 285, 527, 536, 539, 710
NdeI CATATG 1 cut(s) 284
NdeII GATC 2 cut(s) 4, 586
NlaIII CATG 3 cut(s) 82, 199, 557
NlaIV GGNNCC 2 cut(s) 96, 97
NmuCI GTSAC 1 cut(s) 479
NspI RCATGY 1 cut(s) 82
PaeI GCATGC 1 cut(s) 82
PciSI GCTCTTC 1 cut(s) 66
PfeI GAWTC 4 cut(s) 166, 192, 379, 821
PinAI ACCGGT 1 cut(s) 837
PkrI GCNGC 8 cut(s) 108, 312, 517, 520, 532, 541, 703, 808
PleI GAGTC 1 cut(s) 59
PpsI GAGTC 1 cut(s) 59
Psp6I CCWGG 1 cut(s) 597
PspFI CCCAGC 1 cut(s) 704
PspGI CCWGG 1 cut(s) 597
PspN4I GGNNCC 2 cut(s) 96, 97
PspOMI GGGCCC 1 cut(s) 95
PspPI GGNCC 2 cut(s) 95, 96
PstI CTGCAG 1 cut(s) 703
PvuII CAGCTG 1 cut(s) 704
RsaI GTAC 3 cut(s) 352, 511, 775
RsaNI GTAC 3 cut(s) 351, 510, 774
SapI GCTCTTC 1 cut(s) 66
SaqAI TTAA 3 cut(s) 429, 468, 579
SatI GCNGC 8 cut(s) 107, 311, 516, 519, 531, 540, 702, 807
Sau3AI GATC 2 cut(s) 4, 586
Sau96I GGNCC 2 cut(s) 95, 96
ScaI AGTACT 1 cut(s) 775
SchI GAGTC 1 cut(s) 60
ScrFI CCNGG 1 cut(s) 599
SduI GDGCHC 1 cut(s) 99
SfaNI GCATC 4 cut(s) 122, 233, 288, 741
SfcI CTRYAG 1 cut(s) 699
SmlI CTYRAG 1 cut(s) 578
SmoI CTYRAG 1 cut(s) 578
SphI GCATGC 1 cut(s) 82
Sse9I AATT 5 cut(s) 216, 289, 372, 404, 733
SsiI CCGC 6 cut(s) 28, 188, 313, 584, 665, 678
SspMI CTAG 2 cut(s) 396, 771
StyD4I CCNGG 1 cut(s) 597
StyI CCWWGG 2 cut(s) 142, 630
TaaI ACNGT 3 cut(s) 303, 346, 646
TaiI ACGT 3 cut(s) 36, 481, 833
TaqI TCGA 5 cut(s) 63, 118, 305, 332, 610
TasI AATT 5 cut(s) 216, 289, 372, 404, 733
TatI WGTACW 3 cut(s) 350, 509, 773
TfiI GAWTC 4 cut(s) 166, 192, 379, 821
Tru1I TTAA 3 cut(s) 429, 468, 579
Tru9I TTAA 3 cut(s) 429, 468, 579
TscAI CASTG 1 cut(s) 349
TseFI GTSAC 1 cut(s) 479
TseI GCWGC 8 cut(s) 106, 310, 515, 518, 530, 539, 701, 806
Tsp45I GTSAC 1 cut(s) 479
TspDTI ATGAA 1 cut(s) 447
TspGWI ACGGA 2 cut(s) 159, 468
TspRI CASTG 1 cut(s) 349
Vha464I CTTAAG 1 cut(s) 578
XceI RCATGY 1 cut(s) 82
XspI CTAG 2 cut(s) 396, 771
ZraI GACGTC 2 cut(s) 34, 831
ZrmI AGTACT 1 cut(s) 775
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.