Rroxscaffold_4G00327020

Transcription initiation factor

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000004
OG0001612
Physical Location & Seq
Reverse (-)
59426597 .. 59427490
894 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_4G00327020.1

Sequence Viewer

Length: 894 bp
ATGGGGTTTTCACCATTCTTCCCAAACCCTCTGTTTCCTCCTGTCAAAAAGCCTAGCAAGCGTAGTGCTTCTCCACCACCAAGTAAGAAGCAAAAGGTAGCTGATGATGAGATAGACACAGATCAAGAAGGCATTGAGCAACTCCGCGACGTCGTTTCTGTCAGTGGAGTCAATCTTGTGGAAGAGCAAGAGCGCATGCTGTTGCTTTCGGGGCCCAAGAAGCAGCAAGCATCTCGAAAACTTGTGCTTCAAGAAAACCAGGAAGGGCTGGTTTTGCAGAAGATTCCCCTGCAGAAAAAGTTGGCGGCAATCATGGGCAGGTGTGGTTTGAGAGTTGGTATAGATAAAGATGTGGAGAGATGCTTGTCAATGTGTGTGGAGGAGAGACTGAGGGGGATCATATGCAATTTGATTAGACAGTCGAAGCAGCGGGTTGATTGTGAAAAATCGAGACATCACACTGTTTCGACATCTGATGTGAAGCAAGAAATTATGATTCTCAACAAGAAAGCTAGGGAAAAGTTGCAGGAAAAGGCTCAGAAGCTTAATGAAGCTAAGGTTAGCAATAACGGATTTGAGGGTGTTAAGGATAAACATGACGATGAAGATGACAAAATGAGGAGAAGTACAGCCGCAGCAAATGTTGCTGCCCTTGCTGCTCTTGGAGGACATGACATATTGGCGAAATGGAAACTTAAGGCGGATCAGCTATCCCGGGAGAAGCGTCGAGGTAAAGATGTAAACCCCAAGGCTACATCAACTGTTGGAAGAGCAATAGAAGCGGAGAAAAGGGGCGGTGTAGAAGCTATGGTGTCTGCAGCTGGGAGTGCTGTTGGAAAGTTTGGGAGGAATTGCCAAGTTATGATGATGCCTCAAACAAAGGTGGCTAGCTAG
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

32.83

Weight (kDa)

9.62

Isoelectric Point (pI)

51.66

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
TAF4 PF05236 48 - 261 2.5e-39 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)
AarI CACCTGC 1 cut(s) 309
AatII GACGTC 1 cut(s) 153
Acc36I ACCTGC 1 cut(s) 309
AccII CGCG 1 cut(s) 147
AciI CCGC 7 cut(s) 145, 305, 430, 633, 701, 782, 795
AclWI GGATC 2 cut(s) 404, 711
AcyI GRCGYC 1 cut(s) 150
AfaI GTAC 1 cut(s) 628
AflII CTTAAG 1 cut(s) 695
AgsI TTSAA 1 cut(s) 251
AjnI CCWGG 1 cut(s) 258
AluBI AGCT 8 cut(s) 101, 512, 544, 554, 709, 806, 821, 891
AluI AGCT 8 cut(s) 101, 512, 544, 554, 709, 806, 821, 891
Alw26I GTCTC 2 cut(s) 379, 445
AlwI GGATC 2 cut(s) 404, 711
Ama87I CYCGRG 1 cut(s) 714
AoxI GGCC 1 cut(s) 212
ApaI GGGCCC 1 cut(s) 216
ApeKI GCWGC 6 cut(s) 223, 427, 635, 647, 656, 818
AspLEI GCGC 1 cut(s) 195
AspS9I GGNCC 2 cut(s) 212, 213
AsuC2I CCSGG 2 cut(s) 715, 716
AsuHPI GGTGA 1 cut(s) 3
AsuNHI GCTAGC 1 cut(s) 887
AvaI CYCGRG 1 cut(s) 714
BaeGI GKGCMC 1 cut(s) 216
BanII GRGCYC 1 cut(s) 216
BbvI GCAGC 6 cut(s) 235, 439, 634, 643, 647, 830
BcgI CGANNNNNNTGC 2 cut(s) 215, 249
BciT130I CCWGG 1 cut(s) 260
BcnI CCSGG 2 cut(s) 715, 716
BcoDI GTCTC 2 cut(s) 379, 445
BfaI CTAG 4 cut(s) 54, 513, 888, 892
BfmI CTRYAG 2 cut(s) 290, 816
BfrI CTTAAG 1 cut(s) 695
BfuAI ACCTGC 1 cut(s) 309
BisI GCNGC 8 cut(s) 224, 306, 428, 633, 636, 648, 657, 819
BlsI GCNGC 8 cut(s) 225, 307, 429, 634, 637, 649, 658, 820
Bme1390I CCNGG 3 cut(s) 260, 715, 716
BmeT110I CYCGRG 1 cut(s) 714
BmgT120I GGNCC 2 cut(s) 212, 213
BmiI GGNNCC 2 cut(s) 213, 214
BmrFI CCNGG 3 cut(s) 260, 715, 716
BmsI GCATC 3 cut(s) 239, 350, 858
BmtI GCTAGC 1 cut(s) 891
Bpu10I CCTNAGC 1 cut(s) 555
BpuMI CCSGG 2 cut(s) 715, 716
BsaHI GRCGYC 1 cut(s) 150
BsaJI CCNNGG 2 cut(s) 714, 747
BseBI CCWGG 1 cut(s) 260
BseDI CCNNGG 2 cut(s) 714, 747
BseMII CTCAG 2 cut(s) 380, 551
BseRI GAGGAG 2 cut(s) 395, 634
BseSI GKGCMC 1 cut(s) 216
BseXI GCAGC 6 cut(s) 235, 439, 634, 643, 647, 830
BseYI CCCAGC 1 cut(s) 821
Bsh1236I CGCG 1 cut(s) 147
BshFI GGCC 1 cut(s) 214
BsiHKCI CYCGRG 1 cut(s) 714
BsiSI CCGG 1 cut(s) 715
BsmAI GTCTC 2 cut(s) 379, 445
BsnI GGCC 1 cut(s) 214
BsoBI CYCGRG 1 cut(s) 714
Bsp120I GGGCCC 1 cut(s) 212
Bsp1286I GDGCHC 1 cut(s) 216
Bsp143I GATC 3 cut(s) 121, 396, 703
BspACI CCGC 7 cut(s) 145, 305, 430, 633, 701, 782, 795
BspANI GGCC 1 cut(s) 214
BspCNI CTCAG 2 cut(s) 381, 550
BspFNI CGCG 1 cut(s) 147
BspLI GGNNCC 2 cut(s) 213, 214
BspMAI CTGCAG 2 cut(s) 294, 820
BspMI ACCTGC 1 cut(s) 309
BspOI GCTAGC 1 cut(s) 891
BspPI GGATC 2 cut(s) 404, 711
BspQI GCTCTTC 2 cut(s) 177, 763
BspTI CTTAAG 1 cut(s) 695
BssECI CCNNGG 2 cut(s) 714, 747
BssMI GATC 3 cut(s) 121, 396, 703
BssNI GRCGYC 1 cut(s) 150
BssT1I CCWWGG 1 cut(s) 747
Bst2UI CCWGG 1 cut(s) 260
Bst4CI ACNGT 3 cut(s) 420, 463, 763
Bst6I CTCTTC 2 cut(s) 177, 763
BstACI GRCGYC 1 cut(s) 150
BstAFI CTTAAG 1 cut(s) 695
BstAPI GCANNNNNTGC 1 cut(s) 644
BstC8I GCNNGC 4 cut(s) 59, 197, 228, 889
BstDEI CTNAG 3 cut(s) 389, 537, 555
BstFNI CGCG 1 cut(s) 147
BstHHI GCGC 1 cut(s) 195
BstKTI GATC 3 cut(s) 124, 399, 706
BstMAI GTCTC 2 cut(s) 379, 445
BstMBI GATC 3 cut(s) 121, 396, 703
BstMWI GCNNNNNNNGC 9 cut(s) 58, 211, 220, 274, 644, 653, 656, 779, 827
BstNI CCWGG 1 cut(s) 260
BstNSI RCATGY 1 cut(s) 199
BstSCI CCNGG 3 cut(s) 258, 713, 714
BstSFI CTRYAG 2 cut(s) 290, 816
BstSLI GKGCMC 1 cut(s) 216
BstUI CGCG 1 cut(s) 147
BstV1I GCAGC 6 cut(s) 235, 439, 634, 643, 647, 830
BsuRI GGCC 1 cut(s) 214
BtsIMutI CAGTG 2 cut(s) 169, 459
BveI ACCTGC 1 cut(s) 309
Cac8I GCNNGC 4 cut(s) 59, 197, 228, 889
CfoI GCGC 1 cut(s) 195
Cfr13I GGNCC 2 cut(s) 212, 213
Cfr9I CCCGGG 1 cut(s) 714
CseI GACGC 1 cut(s) 713
Csp6I GTAC 1 cut(s) 627
CspCI CAANNNNNGTGG 2 cut(s) 357, 392
CviAII CATG 4 cut(s) 196, 313, 596, 671
CviQI GTAC 1 cut(s) 627
DdeI CTNAG 3 cut(s) 389, 537, 555
DpnI GATC 3 cut(s) 123, 398, 705
DpnII GATC 3 cut(s) 121, 396, 703
Eam1104I CTCTTC 2 cut(s) 177, 763
EarI CTCTTC 2 cut(s) 177, 763
EciI GGCGGA 1 cut(s) 716
Eco130I CCWWGG 1 cut(s) 747
Eco24I GRGCYC 1 cut(s) 216
Eco88I CYCGRG 1 cut(s) 714
EcoO109I RGGNCCY 1 cut(s) 212
EcoRII CCWGG 1 cut(s) 258
EcoT14I CCWWGG 1 cut(s) 747
EcoT38I GRGCYC 1 cut(s) 216
ErhI CCWWGG 1 cut(s) 747
FaeI CATG 4 cut(s) 199, 316, 599, 674
FatI CATG 4 cut(s) 195, 312, 595, 670
FauI CCCGC 1 cut(s) 423
FauNDI CATATG 1 cut(s) 401
Fnu4HI GCNGC 8 cut(s) 224, 306, 428, 633, 636, 648, 657, 819
FriOI GRGCYC 1 cut(s) 216
Fsp4HI GCNGC 8 cut(s) 224, 306, 428, 633, 636, 648, 657, 819
FspBI CTAG 4 cut(s) 54, 513, 888, 892
GlaI GCGC 1 cut(s) 194
GluI GCNGC 8 cut(s) 224, 306, 428, 633, 636, 648, 657, 819
GsaI CCCAGC 1 cut(s) 825
HaeIII GGCC 1 cut(s) 214
HapII CCGG 1 cut(s) 715
HgaI GACGC 1 cut(s) 713
HhaI GCGC 1 cut(s) 195
Hin1I GRCGYC 1 cut(s) 150
Hin1II CATG 4 cut(s) 199, 316, 599, 674
Hin6I GCGC 1 cut(s) 193
HinP1I GCGC 1 cut(s) 193
HindIII AAGCTT 1 cut(s) 542
HinfI GANTC 3 cut(s) 168, 283, 496
HpaII CCGG 1 cut(s) 715
HphI GGTGA 1 cut(s) 3
Hpy166II GTNNAC 1 cut(s) 742
Hpy188I TCNGA 2 cut(s) 475, 540
Hpy188III TCNNGA 4 cut(s) 125, 234, 251, 450
Hpy8I GTNNAC 1 cut(s) 742
Hpy99I CGWCG 3 cut(s) 152, 155, 729
HpyAV CCTTC 2 cut(s) 122, 257
HpyCH4III ACNGT 3 cut(s) 420, 463, 763
HpyCH4IV ACGT 1 cut(s) 150
HpyCH4V TGCA 5 cut(s) 277, 292, 405, 526, 818
HpyF10VI GCNNNNNNNGC 9 cut(s) 58, 211, 220, 274, 644, 653, 656, 779, 827
HpyF3I CTNAG 3 cut(s) 389, 537, 555
HpySE526I ACGT 1 cut(s) 150
Hsp92I GRCGYC 1 cut(s) 150
Hsp92II CATG 4 cut(s) 199, 316, 599, 674
HspAI GCGC 1 cut(s) 193
Kzo9I GATC 3 cut(s) 121, 396, 703
LguI GCTCTTC 2 cut(s) 177, 763
LpnPI CCDG 9 cut(s) 54, 245, 254, 272, 302, 304, 512, 728, 807
Lsp1109I GCAGC 6 cut(s) 235, 439, 634, 643, 647, 830
LweI GCATC 3 cut(s) 239, 350, 858
MaeI CTAG 4 cut(s) 54, 513, 888, 892
MaeII ACGT 1 cut(s) 150
MalI GATC 3 cut(s) 123, 398, 705
MboI GATC 3 cut(s) 121, 396, 703
MboII GAAGA 5 cut(s) 10, 194, 292, 617, 780
MhlI GDGCHC 1 cut(s) 216
MluCI AATT 3 cut(s) 406, 489, 850
MlyI GAGTC 1 cut(s) 177
MmeI TCCRAC 2 cut(s) 745, 814
MseI TTAA 3 cut(s) 546, 585, 696
MslI CAYNNNNRTG 1 cut(s) 600
MspA1I CMGCKG 2 cut(s) 430, 821
MspCI CTTAAG 1 cut(s) 695
MspI CCGG 1 cut(s) 715
MspR9I CCNGG 3 cut(s) 260, 715, 716
MvaI CCWGG 1 cut(s) 260
MvnI CGCG 1 cut(s) 147
MwoI GCNNNNNNNGC 9 cut(s) 58, 211, 220, 274, 644, 653, 656, 779, 827
NciI CCSGG 2 cut(s) 715, 716
NdeI CATATG 1 cut(s) 401
NdeII GATC 3 cut(s) 121, 396, 703
NheI GCTAGC 1 cut(s) 887
NlaIII CATG 4 cut(s) 199, 316, 599, 674
NlaIV GGNNCC 2 cut(s) 213, 214
NspI RCATGY 1 cut(s) 199
PaeI GCATGC 1 cut(s) 199
PaqCI CACCTGC 1 cut(s) 309
PciSI GCTCTTC 2 cut(s) 177, 763
PfeI GAWTC 2 cut(s) 283, 496
PkrI GCNGC 8 cut(s) 225, 307, 429, 634, 637, 649, 658, 820
PleI GAGTC 1 cut(s) 176
PpsI GAGTC 1 cut(s) 176
Psp6I CCWGG 1 cut(s) 258
PspFI CCCAGC 1 cut(s) 821
PspGI CCWGG 1 cut(s) 258
PspN4I GGNNCC 2 cut(s) 213, 214
PspOMI GGGCCC 1 cut(s) 212
PspPI GGNCC 2 cut(s) 212, 213
PstI CTGCAG 2 cut(s) 294, 820
PvuII CAGCTG 1 cut(s) 821
RsaI GTAC 1 cut(s) 628
RsaNI GTAC 1 cut(s) 627
RseI CAYNNNNRTG 1 cut(s) 600
SapI GCTCTTC 2 cut(s) 177, 763
SaqAI TTAA 3 cut(s) 546, 585, 696
SatI GCNGC 8 cut(s) 224, 306, 428, 633, 636, 648, 657, 819
Sau3AI GATC 3 cut(s) 121, 396, 703
Sau96I GGNCC 2 cut(s) 212, 213
SchI GAGTC 1 cut(s) 177
ScrFI CCNGG 3 cut(s) 260, 715, 716
SduI GDGCHC 1 cut(s) 216
SfaNI GCATC 3 cut(s) 239, 350, 858
SfcI CTRYAG 2 cut(s) 290, 816
SmaI CCCGGG 1 cut(s) 716
SmiMI CAYNNNNRTG 1 cut(s) 600
SmlI CTYRAG 1 cut(s) 695
SmoI CTYRAG 1 cut(s) 695
SphI GCATGC 1 cut(s) 199
Sse9I AATT 3 cut(s) 406, 489, 850
SsiI CCGC 7 cut(s) 145, 305, 430, 633, 701, 782, 795
SspMI CTAG 4 cut(s) 54, 513, 888, 892
StyD4I CCNGG 3 cut(s) 258, 713, 714
StyI CCWWGG 1 cut(s) 747
TaaI ACNGT 3 cut(s) 420, 463, 763
TaiI ACGT 1 cut(s) 153
TaqI TCGA 5 cut(s) 235, 422, 449, 467, 727
TasI AATT 3 cut(s) 406, 489, 850
TatI WGTACW 1 cut(s) 626
TauI GCSGC 2 cut(s) 308, 635
TfiI GAWTC 2 cut(s) 283, 496
Tru1I TTAA 3 cut(s) 546, 585, 696
Tru9I TTAA 3 cut(s) 546, 585, 696
TscAI CASTG 2 cut(s) 169, 466
TseI GCWGC 6 cut(s) 223, 427, 635, 647, 656, 818
TspDTI ATGAA 2 cut(s) 564, 618
TspGWI ACGGA 1 cut(s) 585
TspMI CCCGGG 1 cut(s) 714
TspRI CASTG 2 cut(s) 169, 466
Vha464I CTTAAG 1 cut(s) 695
XceI RCATGY 1 cut(s) 199
XmaI CCCGGG 1 cut(s) 714
XspI CTAG 4 cut(s) 54, 513, 888, 892
ZraI GACGTC 1 cut(s) 151
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.