Rroxscaffold_4G00327000

Transcription initiation factor

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000004
OG0001612
Physical Location & Seq
Reverse (-)
59358507 .. 59359766
1260 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_4G00327000.1

Sequence Viewer

Length: 555 bp
ATGATTCTCAACAAGAAAGCTAGGGAAGAGTTGCTGGAAAAGGCTCAGAAGCTTAATGAAGCTAAGGTTAGCACTAACGGATTTGAGGGTGTTAAGGATAAACATGACGATGGACATGACAAAATGAGGAGATTTGCTGCTGCCCTTGCTGCTCTTGGAGGACATGACATATTGGCAAAATGGCAGCTTAAGGCAGATCAGCTGGCCCGGGAGAAGCGTCGAGGTAAAGATGTAAACCACAAGGCTACATCAACTGCTGGAAGAACAATAAATGGCAATGTAGAAGCGGAGAAAAGGGGCGGTGCAGAAGCTTTGGTGTCTGCAGCTGGGAGTGCTGTTGGAAAGTATGGGAGGAATGCCCAAGTTATGATGATGCCTCAAACAAAGGTGGCTAGTACTCGTAGTATATCTGTCAAGGATGTGATTGCTGTTCTGGAAAAGGAACCTCAGATGTCCAAGTCTACTCTGATATATTTGCTAATGAACACTGCTAGCAGTGAAACTCCATCTAGCTTCGGCTACTATTTCTGGGCTGCATCTATTCTTTCAGCATAG
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

184

Amino Acids

19.98

Weight (kDa)

9.72

Isoelectric Point (pI)

33.59

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
TAF4 PF05236 10 - 158 3.3e-09 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)
AccI GTMKAC 1 cut(s) 461
AciI CCGC 2 cut(s) 287, 300
AfaI GTAC 1 cut(s) 397
AflII CTTAAG 1 cut(s) 188
AluBI AGCT 8 cut(s) 20, 52, 62, 187, 202, 311, 326, 513
AluI AGCT 8 cut(s) 20, 52, 62, 187, 202, 311, 326, 513
Ama87I CYCGRG 1 cut(s) 207
AoxI GGCC 1 cut(s) 204
ApeKI GCWGC 6 cut(s) 137, 140, 149, 184, 323, 533
AspS9I GGNCC 1 cut(s) 205
AsuC2I CCSGG 2 cut(s) 208, 209
AsuNHI GCTAGC 1 cut(s) 491
AvaI CYCGRG 1 cut(s) 207
BbvI GCAGC 6 cut(s) 124, 127, 136, 196, 335, 520
BccI CCATC 2 cut(s) 104, 514
BcnI CCSGG 2 cut(s) 208, 209
BfaI CTAG 4 cut(s) 21, 393, 492, 510
BfmI CTRYAG 1 cut(s) 321
BfrI CTTAAG 1 cut(s) 188
BisI GCNGC 6 cut(s) 138, 141, 150, 185, 324, 534
BlsI GCNGC 6 cut(s) 139, 142, 151, 186, 325, 535
BmcAI AGTACT 1 cut(s) 397
Bme1390I CCNGG 2 cut(s) 208, 209
BmeT110I CYCGRG 1 cut(s) 207
BmgT120I GGNCC 1 cut(s) 205
BmiI GGNNCC 1 cut(s) 444
BmrFI CCNGG 2 cut(s) 208, 209
BmsI GCATC 2 cut(s) 363, 545
BmtI GCTAGC 1 cut(s) 495
Bpu10I CCTNAGC 1 cut(s) 63
BpuMI CCSGG 2 cut(s) 208, 209
BsaJI CCNNGG 1 cut(s) 207
Bse3DI GCAATG 1 cut(s) 283
BseDI CCNNGG 1 cut(s) 207
BseGI GGATG 1 cut(s) 424
BseMI GCAATG 1 cut(s) 283
BseMII CTCAG 2 cut(s) 59, 461
BseRI GAGGAG 1 cut(s) 142
BseXI GCAGC 6 cut(s) 124, 127, 136, 196, 335, 520
BseYI CCCAGC 1 cut(s) 326
BsgI GTGCAG 1 cut(s) 324
BshFI GGCC 1 cut(s) 206
BsiHKCI CYCGRG 1 cut(s) 207
BsiSI CCGG 1 cut(s) 208
BsmI GAATGC 1 cut(s) 361
BsnI GGCC 1 cut(s) 206
BsoBI CYCGRG 1 cut(s) 207
Bsp143I GATC 1 cut(s) 196
BspACI CCGC 2 cut(s) 287, 300
BspANI GGCC 1 cut(s) 206
BspCNI CTCAG 2 cut(s) 58, 460
BspLI GGNNCC 1 cut(s) 444
BspMAI CTGCAG 1 cut(s) 325
BspOI GCTAGC 1 cut(s) 495
BspTI CTTAAG 1 cut(s) 188
BsrDI GCAATG 1 cut(s) 283
BssECI CCNNGG 1 cut(s) 207
BssMI GATC 1 cut(s) 196
Bst6I CTCTTC 1 cut(s) 21
BstAFI CTTAAG 1 cut(s) 188
BstC8I GCNNGC 2 cut(s) 204, 493
BstDEI CTNAG 3 cut(s) 45, 63, 447
BstF5I GGATG 1 cut(s) 424
BstKTI GATC 1 cut(s) 199
BstMBI GATC 1 cut(s) 196
BstMWI GCNNNNNNNGC 3 cut(s) 146, 149, 332
BstSCI CCNGG 2 cut(s) 206, 207
BstSFI CTRYAG 1 cut(s) 321
BstV1I GCAGC 6 cut(s) 124, 127, 136, 196, 335, 520
BsuRI GGCC 1 cut(s) 206
BtsCI GGATG 1 cut(s) 424
BtsI GCAGTG 2 cut(s) 486, 502
BtsIMutI CAGTG 2 cut(s) 486, 502
Cac8I GCNNGC 2 cut(s) 204, 493
Cfr13I GGNCC 1 cut(s) 205
Cfr9I CCCGGG 1 cut(s) 207
CseI GACGC 1 cut(s) 206
Csp6I GTAC 1 cut(s) 396
CviAII CATG 3 cut(s) 104, 116, 164
CviQI GTAC 1 cut(s) 396
DdeI CTNAG 3 cut(s) 45, 63, 447
DpnI GATC 1 cut(s) 198
DpnII GATC 1 cut(s) 196
Eam1104I CTCTTC 1 cut(s) 21
EarI CTCTTC 1 cut(s) 21
Eco88I CYCGRG 1 cut(s) 207
FaeI CATG 3 cut(s) 107, 119, 167
FaiI YATR 9 cut(s) 105, 117, 165, 170, 348, 368, 407, 472, 553
FatI CATG 3 cut(s) 103, 115, 163
FblI GTMKAC 1 cut(s) 461
Fnu4HI GCNGC 6 cut(s) 138, 141, 150, 185, 324, 534
FokI GGATG 1 cut(s) 431
Fsp4HI GCNGC 6 cut(s) 138, 141, 150, 185, 324, 534
FspBI CTAG 4 cut(s) 21, 393, 492, 510
GluI GCNGC 6 cut(s) 138, 141, 150, 185, 324, 534
GsaI CCCAGC 1 cut(s) 330
HaeIII GGCC 1 cut(s) 206
HapII CCGG 1 cut(s) 208
HgaI GACGC 1 cut(s) 206
Hin1II CATG 3 cut(s) 107, 119, 167
HindIII AAGCTT 2 cut(s) 50, 309
HinfI GANTC 1 cut(s) 4
HpaII CCGG 1 cut(s) 208
Hpy166II GTNNAC 2 cut(s) 235, 462
Hpy188I TCNGA 3 cut(s) 48, 450, 468
Hpy188III TCNNGA 1 cut(s) 434
Hpy8I GTNNAC 2 cut(s) 235, 462
Hpy99I CGWCG 1 cut(s) 222
HpyCH4V TGCA 3 cut(s) 305, 323, 536
HpyF10VI GCNNNNNNNGC 3 cut(s) 146, 149, 332
HpyF3I CTNAG 3 cut(s) 45, 63, 447
Hsp92II CATG 3 cut(s) 107, 119, 167
Kzo9I GATC 1 cut(s) 196
LpnPI CCDG 7 cut(s) 20, 188, 221, 243, 312, 419, 514
Lsp1109I GCAGC 6 cut(s) 124, 127, 136, 196, 335, 520
LweI GCATC 2 cut(s) 363, 545
MaeI CTAG 4 cut(s) 21, 393, 492, 510
MalI GATC 1 cut(s) 198
MboI GATC 1 cut(s) 196
MboII GAAGA 2 cut(s) 38, 273
MmeI TCCRAC 1 cut(s) 319
MnlI CCTC 7 cut(s) 79, 120, 152, 215, 345, 387, 456
MseI TTAA 3 cut(s) 54, 93, 189
MslI CAYNNNNRTG 1 cut(s) 108
MspA1I CMGCKG 2 cut(s) 202, 326
MspCI CTTAAG 1 cut(s) 188
MspI CCGG 1 cut(s) 208
MspR9I CCNGG 2 cut(s) 208, 209
Mva1269I GAATGC 1 cut(s) 361
MwoI GCNNNNNNNGC 3 cut(s) 146, 149, 332
NciI CCSGG 2 cut(s) 208, 209
NdeII GATC 1 cut(s) 196
NheI GCTAGC 1 cut(s) 491
NlaIII CATG 3 cut(s) 107, 119, 167
NlaIV GGNNCC 1 cut(s) 444
PctI GAATGC 1 cut(s) 361
PfeI GAWTC 1 cut(s) 4
PkrI GCNGC 6 cut(s) 139, 142, 151, 186, 325, 535
PspFI CCCAGC 1 cut(s) 326
PspN4I GGNNCC 1 cut(s) 444
PspPI GGNCC 1 cut(s) 205
PstI CTGCAG 1 cut(s) 325
PvuII CAGCTG 2 cut(s) 202, 326
RsaI GTAC 1 cut(s) 397
RsaNI GTAC 1 cut(s) 396
RseI CAYNNNNRTG 1 cut(s) 108
SaqAI TTAA 3 cut(s) 54, 93, 189
SatI GCNGC 6 cut(s) 138, 141, 150, 185, 324, 534
Sau3AI GATC 1 cut(s) 196
Sau96I GGNCC 1 cut(s) 205
ScaI AGTACT 1 cut(s) 397
ScrFI CCNGG 2 cut(s) 208, 209
SfaNI GCATC 2 cut(s) 363, 545
SfcI CTRYAG 1 cut(s) 321
SmaI CCCGGG 1 cut(s) 209
SmiMI CAYNNNNRTG 1 cut(s) 108
SmlI CTYRAG 1 cut(s) 188
SmoI CTYRAG 1 cut(s) 188
SsiI CCGC 2 cut(s) 287, 300
SspMI CTAG 4 cut(s) 21, 393, 492, 510
StyD4I CCNGG 2 cut(s) 206, 207
TaqI TCGA 1 cut(s) 220
TatI WGTACW 1 cut(s) 395
TfiI GAWTC 1 cut(s) 4
Tru1I TTAA 3 cut(s) 54, 93, 189
Tru9I TTAA 3 cut(s) 54, 93, 189
TscAI CASTG 2 cut(s) 493, 502
TseI GCWGC 6 cut(s) 137, 140, 149, 184, 323, 533
TspDTI ATGAA 2 cut(s) 72, 497
TspGWI ACGGA 1 cut(s) 93
TspMI CCCGGG 1 cut(s) 207
TspRI CASTG 2 cut(s) 493, 502
Vha464I CTTAAG 1 cut(s) 188
XmaI CCCGGG 1 cut(s) 207
XmiI GTMKAC 1 cut(s) 461
XspI CTAG 4 cut(s) 21, 393, 492, 510
ZrmI AGTACT 1 cut(s) 397
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.