Rorug07G0282500

TFIIA is a component of the transcription machinery of RNA polymerase II and plays an important role in transcriptional activation

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_rugosa
GWHBQTZ00000007
OG0008441
Physical Location & Seq
Forward (+)
27430236 .. 27430562
327 bp
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UTR
Exon/CDS
Intron
Rorug07G0282500.1

Sequence Viewer

Length: 327 bp
ATGGAAGCACAGAATTTGGGGAATGTAAAGCGACAGTTAGCAAAACTATTTGAAGAGTCACTGAAAGCAATAGTCTCTGGGGAATTTAAACCGTCTGTTGCAGCCTCCACAAGGAAACATGGCGATTATCAGTGCAACAATGCCATGGCTTTATGGACCAAAATAAAAGGAAATGACTCAAAGGAGGGCAATGAGTTTAAAGACGCTGAGTCTATTGGGCATGCTATTCAAAACCTTCCACAATCCGAAATCGTAGAATCATGCTCTGTGGCAACTGGCAAGGCCTGGATTTGTGAATGTTATATTGTCAAAGAGTTGGATGGCTAA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
GO:0000428 GO:0003674 GO:0003712 GO:0003713 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005667 GO:0005672 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:0009889 GO:0009891 GO:0009893 GO:0009987 GO:0010467 GO:0010468 GO:0010556 GO:0010557 GO:0010604 GO:0010628 GO:0016043 GO:0016070 GO:0016591 GO:0017025 GO:0018130 GO:0019219 GO:0019222 GO:0019438 GO:0022607 GO:0030880 GO:0031323 GO:0031325 GO:0031326 GO:0031328 GO:0031974 GO:0031981 GO:0032774 GO:0032991 GO:0034622 GO:0034641 GO:0034645 GO:0034654 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043233 GO:0043933 GO:0044085 GO:0044093 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044271 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044451 GO:0044464 GO:0044798 GO:0045893 GO:0045935 GO:0045944 GO:0046483 GO:0048518 GO:0048522 GO:0050789 GO:0050794 GO:0051090 GO:0051091 GO:0051123 GO:0051171 GO:0051173 GO:0051252 GO:0051254 GO:0055029 GO:0060255 GO:0061695 GO:0065003 GO:0065004 GO:0065007 GO:0065009 GO:0070013 GO:0070897 GO:0071704 GO:0071824 GO:0071840 GO:0080090 GO:0090304 GO:0090575 GO:0097659 GO:0140110 GO:1901360 GO:1901362 GO:1901576 GO:1902494 GO:1902680 GO:1903506 GO:1903508 GO:1990234 GO:2000112 GO:2001141
KEGG Pathways
Metabolic & Signaling
ko03022 ko05203 map03022 map05203
Pfam Domains
Protein Families
TFIIA_gamma_C TFIIA_gamma_N

Protein Analysis

108

Amino Acids

11.85

Weight (kDa)

5.68

Isoelectric Point (pI)

30.29

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Arg_tRNA_synt_N PF03485 12 - 64 2.5e-06 Arginyl tRNA synthetase N terminal domain
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AcsI RAATTY 2 cut(s) 13, 83
AfiI CCNNNNNNNGG 1 cut(s) 111
AgsI TTSAA 2 cut(s) 53, 230
AhdI GACNNNNNGTC 1 cut(s) 208
AjnI CCWGG 1 cut(s) 284
Alw26I GTCTC 1 cut(s) 79
AoxI GGCC 1 cut(s) 282
ApeKI GCWGC 1 cut(s) 101
ApoI RAATTY 2 cut(s) 13, 83
AspS9I GGNCC 1 cut(s) 156
AvaII GGWCC 1 cut(s) 156
BbvI GCAGC 1 cut(s) 113
BccI CCATC 1 cut(s) 314
BciT130I CCWGG 1 cut(s) 286
BcoDI GTCTC 1 cut(s) 79
BisI GCNGC 1 cut(s) 102
BlsI GCNGC 1 cut(s) 103
Bme1390I CCNGG 1 cut(s) 286
Bme18I GGWCC 1 cut(s) 156
BmeRI GACNNNNNGTC 1 cut(s) 208
BmgT120I GGNCC 1 cut(s) 156
BmrFI CCNGG 1 cut(s) 286
BsaJI CCNNGG 1 cut(s) 144
Bsc4I CCNNNNNNNGG 1 cut(s) 111
Bse1I ACTGG 1 cut(s) 280
Bse3DI GCAATG 1 cut(s) 196
BseBI CCWGG 1 cut(s) 286
BseDI CCNNGG 1 cut(s) 144
BseGI GGATG 1 cut(s) 325
BseLI CCNNNNNNNGG 1 cut(s) 111
BseMI GCAATG 1 cut(s) 196
BseMII CTCAG 1 cut(s) 198
BseNI ACTGG 1 cut(s) 280
BseXI GCAGC 1 cut(s) 113
BshFI GGCC 1 cut(s) 284
BslI CCNNNNNNNGG 1 cut(s) 111
BsmAI GTCTC 1 cut(s) 79
BsnI GGCC 1 cut(s) 284
Bsp19I CCATGG 1 cut(s) 144
BspANI GGCC 1 cut(s) 284
BspCNI CTCAG 1 cut(s) 199
BsrDI GCAATG 1 cut(s) 196
BsrI ACTGG 1 cut(s) 280
BssECI CCNNGG 1 cut(s) 144
BssT1I CCWWGG 1 cut(s) 144
Bst2UI CCWGG 1 cut(s) 286
Bst4CI ACNGT 2 cut(s) 36, 93
Bst6I CTCTTC 1 cut(s) 48
BstC8I GCNNGC 1 cut(s) 222
BstDEI CTNAG 1 cut(s) 207
BstDSI CCRYGG 1 cut(s) 144
BstENI CCTNNNNNAGG 1 cut(s) 109
BstF5I GGATG 1 cut(s) 325
BstMAI GTCTC 1 cut(s) 79
BstNI CCWGG 1 cut(s) 286
BstNSI RCATGY 1 cut(s) 224
BstSCI CCNGG 1 cut(s) 284
BstV1I GCAGC 1 cut(s) 113
BsuRI GGCC 1 cut(s) 284
BtgI CCRYGG 1 cut(s) 144
BtsCI GGATG 1 cut(s) 325
BtsIMutI CAGTG 2 cut(s) 59, 137
Cac8I GCNNGC 1 cut(s) 222
Cfr13I GGNCC 1 cut(s) 156
CseI GACGC 1 cut(s) 212
CviAII CATG 4 cut(s) 119, 145, 221, 261
CviJI RGCY 4 cut(s) 104, 149, 284, 324
CviKI_1 RGCY 4 cut(s) 104, 149, 284, 324
DdeI CTNAG 1 cut(s) 207
DraI TTTAAA 2 cut(s) 88, 199
DriI GACNNNNNGTC 1 cut(s) 208
Eam1104I CTCTTC 1 cut(s) 48
Eam1105I GACNNNNNGTC 1 cut(s) 208
EarI CTCTTC 1 cut(s) 48
Eco130I CCWWGG 1 cut(s) 144
Eco147I AGGCCT 1 cut(s) 284
Eco47I GGWCC 1 cut(s) 156
EcoNI CCTNNNNNAGG 1 cut(s) 109
EcoRII CCWGG 1 cut(s) 284
EcoT14I CCWWGG 1 cut(s) 144
ErhI CCWWGG 1 cut(s) 144
FaeI CATG 4 cut(s) 122, 148, 224, 264
FaiI YATR 6 cut(s) 120, 146, 154, 222, 262, 303
FatI CATG 4 cut(s) 118, 144, 220, 260
Fnu4HI GCNGC 1 cut(s) 102
Fsp4HI GCNGC 1 cut(s) 102
GluI GCNGC 1 cut(s) 102
HaeIII GGCC 1 cut(s) 284
HgaI GACGC 1 cut(s) 212
Hin1II CATG 4 cut(s) 122, 148, 224, 264
HinfI GANTC 4 cut(s) 56, 176, 209, 257
Hpy188I TCNGA 1 cut(s) 247
HpyAV CCTTC 1 cut(s) 245
HpyCH4III ACNGT 2 cut(s) 36, 93
HpyCH4V TGCA 2 cut(s) 101, 135
HpyF3I CTNAG 1 cut(s) 207
Hsp92II CATG 4 cut(s) 122, 148, 224, 264
LpnPI CCDG 4 cut(s) 63, 261, 271, 298
Lsp1109I GCAGC 1 cut(s) 113
MaeIII GTNAC 1 cut(s) 57
MboII GAAGA 1 cut(s) 65
MluCI AATT 2 cut(s) 13, 83
MlyI GAGTC 3 cut(s) 65, 170, 218
MmeI TCCRAC 1 cut(s) 297
MnlI CCTC 2 cut(s) 115, 178
MseI TTAA 2 cut(s) 87, 198
MspR9I CCNGG 1 cut(s) 286
MvaI CCWGG 1 cut(s) 286
NcoI CCATGG 1 cut(s) 144
NlaIII CATG 4 cut(s) 122, 148, 224, 264
NmuCI GTSAC 1 cut(s) 57
NspI RCATGY 1 cut(s) 224
PaeI GCATGC 1 cut(s) 224
PceI AGGCCT 1 cut(s) 284
PfeI GAWTC 1 cut(s) 257
PkrI GCNGC 1 cut(s) 103
PleI GAGTC 3 cut(s) 64, 170, 217
PpsI GAGTC 3 cut(s) 64, 170, 217
Psp6I CCWGG 1 cut(s) 284
PspGI CCWGG 1 cut(s) 284
PspPI GGNCC 1 cut(s) 156
SaqAI TTAA 2 cut(s) 87, 198
SatI GCNGC 1 cut(s) 102
Sau96I GGNCC 1 cut(s) 156
SchI GAGTC 3 cut(s) 65, 170, 218
ScrFI CCNGG 1 cut(s) 286
SetI ASST 1 cut(s) 237
SinI GGWCC 1 cut(s) 156
SphI GCATGC 1 cut(s) 224
Sse9I AATT 2 cut(s) 13, 83
SseBI AGGCCT 1 cut(s) 284
StuI AGGCCT 1 cut(s) 284
StyD4I CCNGG 1 cut(s) 284
StyI CCWWGG 1 cut(s) 144
TaaI ACNGT 2 cut(s) 36, 93
TasI AATT 2 cut(s) 13, 83
TfiI GAWTC 1 cut(s) 257
Tru1I TTAA 2 cut(s) 87, 198
Tru9I TTAA 2 cut(s) 87, 198
TscAI CASTG 2 cut(s) 66, 137
TseFI GTSAC 1 cut(s) 57
TseI GCWGC 1 cut(s) 101
Tsp45I GTSAC 1 cut(s) 57
TspRI CASTG 2 cut(s) 66, 137
VpaK11BI GGWCC 1 cut(s) 156
XagI CCTNNNNNAGG 1 cut(s) 109
XapI RAATTY 2 cut(s) 13, 83
XceI RCATGY 1 cut(s) 224
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.