Rorug01G0417900

RNA polymerase sigma factor sigE, chloroplastic

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_rugosa
GWHBQTZ00000001
OG0008760
Physical Location & Seq
Reverse (-)
52023923 .. 52024396
474 bp
Loading structure...
UTR
Exon/CDS
Intron
Rorug01G0417900.1

Sequence Viewer

Length: 474 bp
ATGGCGGAGCACCACCAGCAATACCAGCAGTCCCATCCCTTTCAGGGACAACAAGGCATGCAGCACCAACAAACTAAGTCCTATCAGGTCGCCAAGGCCGCCACCGCAGTCACCGCCGGGGGTTCACTCCTCGTCCTCTCCGGTTTGGTCCTCGCCGGCACAGTCATATGCTTGACCATAGCCACTCCTCTCCTCGTGATCTTCAGTCCGGTCCTCGTCCCGGCTGTGATCACCGTGGCGCTCATAATGACTGGCTTCTTGGCCTCCGGCGGGTTCGGCGTGGCGGCCATCAGTGTCTTGTCGTGGATTTACAAGTACGTGACAGGGAGCCAGCCTCCCGGCGCGGAACAGCTCGATTCGGCACGACACAAGCTGGCGGGGAAGGCCAGGGACATGAAGGACAGAGCTGAGCAGTTTGGGCAACAGCACATGGGCTCTGACCGCGGTCAGCACGGTCAACATCAGACTTCTTAA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
GO:0000988 GO:0000990 GO:0003674 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005739 GO:0006091 GO:0006139 GO:0006351 GO:0006352 GO:0006355 GO:0006725 GO:0006807 GO:0006950 GO:0006970 GO:0006996 GO:0007275 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009314 GO:0009416 GO:0009507 GO:0009536 GO:0009553 GO:0009628 GO:0009637 GO:0009639 GO:0009651 GO:0009657 GO:0009658 GO:0009889 GO:0009891 GO:0009893 GO:0009987 GO:0010114 GO:0010207 GO:0010218 GO:0010467 GO:0010468 GO:0010556 GO:0010557 GO:0010604 GO:0010628 GO:0015979 GO:0016043 GO:0016070 GO:0016987 GO:0018130 GO:0019219 GO:0019222 GO:0019438 GO:0019684 GO:0022607 GO:0031323 GO:0031325 GO:0031326 GO:0031328 GO:0032501 GO:0032502 GO:0032774 GO:0033554 GO:0034622 GO:0034641 GO:0034645 GO:0034654 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043254 GO:0043933 GO:0044085 GO:0044087 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044271 GO:0044424 GO:0044444 GO:0044464 GO:0045893 GO:0045935 GO:0046483 GO:0048229 GO:0048518 GO:0048522 GO:0048856 GO:0050789 GO:0050794 GO:0050896 GO:0051128 GO:0051171 GO:0051173 GO:0051252 GO:0051254 GO:0051716 GO:0060255 GO:0065003 GO:0065007 GO:0071214 GO:0071470 GO:0071472 GO:0071478 GO:0071482 GO:0071483 GO:0071704 GO:0071840 GO:0080090 GO:0090304 GO:0097659 GO:0104004 GO:0140110 GO:1901360 GO:1901362 GO:1901576 GO:1902680 GO:1903506 GO:1903508 GO:2000112 GO:2000142 GO:2001141
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
Sigma70_r2 Sigma70_r3 Sigma70_r4

Protein Analysis

157

Amino Acids

16.68

Weight (kDa)

9.21

Isoelectric Point (pI)

31.0

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Oleosin PF01277 29 - 140 1e-47 Oleosin
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)
AccII CGCG 2 cut(s) 344, 444
AcoI YGGCCR 1 cut(s) 285
AcuI CTGAAG 1 cut(s) 187
AfaI GTAC 1 cut(s) 317
AfiI CCNNNNNNNGG 3 cut(s) 44, 220, 270
AjnI CCWGG 1 cut(s) 386
AluBI AGCT 3 cut(s) 352, 373, 407
AluI AGCT 3 cut(s) 352, 373, 407
Alw21I GWGCWC 1 cut(s) 12
AoxI GGCC 4 cut(s) 96, 261, 285, 384
ApeKI GCWGC 1 cut(s) 61
AspLEI GCGC 2 cut(s) 241, 344
AspS9I GGNCC 2 cut(s) 148, 211
AsuC2I CCSGG 3 cut(s) 118, 221, 339
AsuHPI GGTGA 2 cut(s) 103, 223
AvaII GGWCC 2 cut(s) 148, 211
BanII GRGCYC 1 cut(s) 437
BauI CACGAG 1 cut(s) 194
Bbv12I GWGCWC 1 cut(s) 12
BbvI GCAGC 1 cut(s) 73
BccI CCATC 2 cut(s) 42, 296
BciT130I CCWGG 1 cut(s) 388
BclI TGATCA 1 cut(s) 228
BcnI CCSGG 3 cut(s) 118, 221, 339
BfoI RGCGCY 1 cut(s) 242
BisI GCNGC 3 cut(s) 62, 99, 285
BlpI GCTNAGC 1 cut(s) 408
BlsI GCNGC 3 cut(s) 63, 100, 286
Bme1390I CCNGG 4 cut(s) 118, 221, 339, 388
Bme18I GGWCC 2 cut(s) 148, 211
BmgT120I GGNCC 2 cut(s) 148, 211
BmiI GGNNCC 1 cut(s) 329
BmrFI CCNGG 4 cut(s) 118, 221, 339, 388
BoxI GACNNNNGTC 1 cut(s) 444
BplI GAGNNNNNCTC 2 cut(s) 319, 351
Bpu1102I GCTNAGC 1 cut(s) 408
BpuMI CCSGG 3 cut(s) 118, 221, 339
BsaAI YACGTR 1 cut(s) 319
BsaJI CCNNGG 5 cut(s) 93, 117, 234, 387, 442
BsaWI WCCGGW 2 cut(s) 140, 208
Bsc4I CCNNNNNNNGG 3 cut(s) 44, 220, 270
Bse118I RCCGGY 1 cut(s) 155
Bse1I ACTGG 1 cut(s) 256
BseBI CCWGG 1 cut(s) 388
BseDI CCNNGG 5 cut(s) 93, 117, 234, 387, 442
BseGI GGATG 1 cut(s) 34
BseLI CCNNNNNNNGG 3 cut(s) 44, 220, 270
BseMII CTCAG 1 cut(s) 399
BseNI ACTGG 1 cut(s) 256
BseRI GAGGAG 3 cut(s) 119, 177, 182
BseXI GCAGC 1 cut(s) 73
Bsh1236I CGCG 2 cut(s) 344, 444
BshFI GGCC 4 cut(s) 98, 263, 287, 386
BsiHKAI GWGCWC 1 cut(s) 12
BsiSI CCGG 7 cut(s) 117, 141, 156, 209, 221, 267, 339
BslFI GGGAC 4 cut(s) 16, 60, 203, 404
BslI CCNNNNNNNGG 3 cut(s) 44, 220, 270
BsmFI GGGAC 4 cut(s) 16, 60, 203, 404
BsnI GGCC 4 cut(s) 98, 263, 287, 386
Bsp1286I GDGCHC 2 cut(s) 12, 437
Bsp143I GATC 2 cut(s) 198, 228
Bsp1720I GCTNAGC 1 cut(s) 408
BspANI GGCC 4 cut(s) 98, 263, 287, 386
BspCNI CTCAG 1 cut(s) 400
BspFNI CGCG 2 cut(s) 344, 444
BspLI GGNNCC 1 cut(s) 329
BsrFI RCCGGY 1 cut(s) 155
BsrI ACTGG 1 cut(s) 256
BssAI RCCGGY 1 cut(s) 155
BssECI CCNNGG 5 cut(s) 93, 117, 234, 387, 442
BssMI GATC 2 cut(s) 198, 228
BssSI CACGAG 1 cut(s) 194
BssT1I CCWWGG 1 cut(s) 93
Bst2BI CACGAG 1 cut(s) 194
Bst2UI CCWGG 1 cut(s) 388
Bst4CI ACNGT 3 cut(s) 163, 235, 455
BstBAI YACGTR 1 cut(s) 319
BstC8I GCNNGC 4 cut(s) 59, 157, 332, 375
BstDEI CTNAG 2 cut(s) 75, 408
BstDSI CCRYGG 2 cut(s) 234, 442
BstF5I GGATG 1 cut(s) 34
BstFNI CGCG 2 cut(s) 344, 444
BstH2I RGCGCY 1 cut(s) 242
BstHHI GCGC 2 cut(s) 241, 344
BstKTI GATC 2 cut(s) 201, 231
BstMBI GATC 2 cut(s) 198, 228
BstMWI GCNNNNNNNGC 9 cut(s) 16, 25, 98, 104, 113, 276, 383, 418, 441
BstNI CCWGG 1 cut(s) 388
BstNSI RCATGY 1 cut(s) 61
BstPAI GACNNNNGTC 1 cut(s) 444
BstSCI CCNGG 4 cut(s) 116, 219, 337, 386
BstUI CGCG 2 cut(s) 344, 444
BstV1I GCAGC 1 cut(s) 73
BsuRI GGCC 4 cut(s) 98, 263, 287, 386
BtgI CCRYGG 2 cut(s) 234, 442
BtsCI GGATG 1 cut(s) 34
BtsIMutI CAGTG 1 cut(s) 298
Cac8I GCNNGC 4 cut(s) 59, 157, 332, 375
CfoI GCGC 2 cut(s) 241, 344
Cfr10I RCCGGY 1 cut(s) 155
Cfr13I GGNCC 2 cut(s) 148, 211
Cfr42I CCGCGG 1 cut(s) 445
Csp6I GTAC 1 cut(s) 316
CviAII CATG 3 cut(s) 58, 394, 430
CviQI GTAC 1 cut(s) 316
DdeI CTNAG 2 cut(s) 75, 408
DpnI GATC 2 cut(s) 200, 230
DpnII GATC 2 cut(s) 198, 228
EaeI YGGCCR 1 cut(s) 285
EciI GGCGGA 1 cut(s) 20
Eco130I CCWWGG 1 cut(s) 93
Eco24I GRGCYC 1 cut(s) 437
Eco47I GGWCC 2 cut(s) 148, 211
Eco57I CTGAAG 1 cut(s) 187
EcoRII CCWGG 1 cut(s) 386
EcoT14I CCWWGG 1 cut(s) 93
EcoT38I GRGCYC 1 cut(s) 437
ErhI CCWWGG 1 cut(s) 93
FaeI CATG 3 cut(s) 61, 397, 433
FaiI YATR 7 cut(s) 59, 167, 169, 179, 245, 395, 431
FaqI GGGAC 4 cut(s) 16, 60, 203, 404
FatI CATG 3 cut(s) 57, 393, 429
FauI CCCGC 2 cut(s) 263, 370
FauNDI CATATG 1 cut(s) 167
FbaI TGATCA 1 cut(s) 228
Fnu4HI GCNGC 3 cut(s) 62, 99, 285
FokI GGATG 1 cut(s) 21
FriOI GRGCYC 1 cut(s) 437
Fsp4HI GCNGC 3 cut(s) 62, 99, 285
GlaI GCGC 2 cut(s) 240, 343
GluI GCNGC 3 cut(s) 62, 99, 285
HaeII RGCGCY 1 cut(s) 242
HaeIII GGCC 4 cut(s) 98, 263, 287, 386
HapII CCGG 7 cut(s) 117, 141, 156, 209, 221, 267, 339
HhaI GCGC 2 cut(s) 241, 344
Hin1II CATG 3 cut(s) 61, 397, 433
Hin6I GCGC 2 cut(s) 239, 342
HinP1I GCGC 2 cut(s) 239, 342
HincII GTYRAC 1 cut(s) 458
HindII GTYRAC 1 cut(s) 458
HinfI GANTC 1 cut(s) 356
HpaII CCGG 7 cut(s) 117, 141, 156, 209, 221, 267, 339
HphI GGTGA 2 cut(s) 103, 223
Hpy166II GTNNAC 2 cut(s) 125, 458
Hpy188I TCNGA 2 cut(s) 439, 465
Hpy188III TCNNGA 1 cut(s) 196
Hpy8I GTNNAC 2 cut(s) 125, 458
HpyAV CCTTC 2 cut(s) 376, 391
HpyCH4III ACNGT 3 cut(s) 163, 235, 455
HpyCH4IV ACGT 1 cut(s) 318
HpyCH4V TGCA 1 cut(s) 61
HpyF10VI GCNNNNNNNGC 9 cut(s) 16, 25, 98, 104, 113, 276, 383, 418, 441
HpyF3I CTNAG 2 cut(s) 75, 408
HpySE526I ACGT 1 cut(s) 318
Hsp92II CATG 3 cut(s) 61, 397, 433
HspAI GCGC 2 cut(s) 239, 342
KroI GCCGGC 1 cut(s) 155
KroNI GCCGGC 1 cut(s) 157
Ksp22I TGATCA 1 cut(s) 228
KspI CCGCGG 1 cut(s) 445
Kzo9I GATC 2 cut(s) 198, 228
LmnI GCTCC 2 cut(s) 7, 327
Lsp1109I GCAGC 1 cut(s) 73
MaeII ACGT 1 cut(s) 318
MaeIII GTNAC 2 cut(s) 109, 319
MalI GATC 2 cut(s) 200, 230
MboI GATC 2 cut(s) 198, 228
MboII GAAGA 1 cut(s) 193
MhlI GDGCHC 2 cut(s) 12, 437
MnlI CCTC 8 cut(s) 140, 146, 161, 198, 203, 224, 274, 345
MroNI GCCGGC 1 cut(s) 155
MseI TTAA 1 cut(s) 472
MspA1I CMGCKG 1 cut(s) 444
MspI CCGG 7 cut(s) 117, 141, 156, 209, 221, 267, 339
MspR9I CCNGG 4 cut(s) 118, 221, 339, 388
MvaI CCWGG 1 cut(s) 388
MvnI CGCG 2 cut(s) 344, 444
MwoI GCNNNNNNNGC 9 cut(s) 16, 25, 98, 104, 113, 276, 383, 418, 441
NaeI GCCGGC 1 cut(s) 157
NciI CCSGG 3 cut(s) 118, 221, 339
NdeI CATATG 1 cut(s) 167
NdeII GATC 2 cut(s) 198, 228
NgoMIV GCCGGC 1 cut(s) 155
NlaIII CATG 3 cut(s) 61, 397, 433
NlaIV GGNNCC 1 cut(s) 329
NmuCI GTSAC 2 cut(s) 109, 319
NspI RCATGY 1 cut(s) 61
PaeI GCATGC 1 cut(s) 61
PdiI GCCGGC 1 cut(s) 157
PfeI GAWTC 1 cut(s) 356
PkrI GCNGC 3 cut(s) 63, 100, 286
Ppu21I YACGTR 1 cut(s) 319
PshAI GACNNNNGTC 1 cut(s) 444
Psp6I CCWGG 1 cut(s) 386
PspGI CCWGG 1 cut(s) 386
PspN4I GGNNCC 1 cut(s) 329
PspPI GGNCC 2 cut(s) 148, 211
RsaI GTAC 1 cut(s) 317
RsaNI GTAC 1 cut(s) 316
SacII CCGCGG 1 cut(s) 445
SaqAI TTAA 1 cut(s) 472
SatI GCNGC 3 cut(s) 62, 99, 285
Sau3AI GATC 2 cut(s) 198, 228
Sau96I GGNCC 2 cut(s) 148, 211
ScrFI CCNGG 4 cut(s) 118, 221, 339, 388
SduI GDGCHC 2 cut(s) 12, 437
SetI ASST 5 cut(s) 90, 321, 354, 375, 409
Sfr303I CCGCGG 1 cut(s) 445
SgrBI CCGCGG 1 cut(s) 445
SinI GGWCC 2 cut(s) 148, 211
SphI GCATGC 1 cut(s) 61
StyD4I CCNGG 4 cut(s) 116, 219, 337, 386
StyI CCWWGG 1 cut(s) 93
TaaI ACNGT 3 cut(s) 163, 235, 455
TaiI ACGT 1 cut(s) 321
TaqI TCGA 1 cut(s) 354
TauI GCSGC 2 cut(s) 101, 287
TfiI GAWTC 1 cut(s) 356
Tru1I TTAA 1 cut(s) 472
Tru9I TTAA 1 cut(s) 472
TscAI CASTG 1 cut(s) 298
TseFI GTSAC 2 cut(s) 109, 319
TseI GCWGC 1 cut(s) 61
Tsp45I GTSAC 2 cut(s) 109, 319
TspDTI ATGAA 1 cut(s) 410
TspRI CASTG 1 cut(s) 298
VpaK11BI GGWCC 2 cut(s) 148, 211
XceI RCATGY 1 cut(s) 61
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.