Rmu_co8234937.1_g000001

Sigma factors are initiation factors that promote the attachment of plastid-encoded RNA polymerase (PEP) to specific initiation sites and are then released

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_multiflora
Rmu_co8234937.1
OG0004828
Physical Location & Seq
Reverse (-)
1 .. 672
672 bp
Loading structure...
UTR
Exon/CDS
Intron
Rmu_co8234937.1_g000001.1.cds

Sequence Viewer

Length: 489 bp
atgggtttggggtgggaagaggaaactgtaaggtcaacccgacttctagagaggcggcgcaagcgacttaagaaaaggaatttgcttaactcaaaagttccaattcatgagactagcagttatagaagttcagatgtacggagaaaatctagtgacggattaaatcctaatgatcccctgcgattattcttgtggggacctgaaacgagacaacttttgacacttaaagaagagactgagttgattgcccgagttcaggatgtattcgagttagaagcggtgaagagtagacttcaatctcaatatggccgtgaaccaactttggttgaatgggctgaagctgttggtattagttgtcggatgttgcaatcacaacttcgctctggtacgagcagccgtgaaaagttgatatatgccaacttacgtatggtggtgcacattgctaaacaatatcaagggagaggtcttggccttcaggatttactgcag
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
Sigma70_r2 Sigma70_r3 Sigma70_r4

Protein Analysis

163

Amino Acids

18.92

Weight (kDa)

10.05

Isoelectric Point (pI)

74.95

Instability Index
Protein Domains (Pfam)
No Pfam domains detected for this protein.
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)
AccI GTMKAC 1 cut(s) 289
AciI CCGC 2 cut(s) 55, 278
AclWI GGATC 1 cut(s) 167
AcoI YGGCCR 1 cut(s) 307
AcsI RAATTY 1 cut(s) 79
AcuI CTGAAG 2 cut(s) 357, 458
AfaI GTAC 2 cut(s) 138, 388
AfiI CCNNNNNNNGG 1 cut(s) 256
AflII CTTAAG 1 cut(s) 68
AgsI TTSAA 2 cut(s) 296, 329
AluBI AGCT 1 cut(s) 341
AluI AGCT 1 cut(s) 341
Alw21I GWGCWC 1 cut(s) 438
Alw26I GTCTC 3 cut(s) 104, 202, 227
Alw44I GTGCAC 1 cut(s) 434
AlwI GGATC 1 cut(s) 167
Ama87I CYCGRG 1 cut(s) 249
AoxI GGCC 2 cut(s) 307, 469
ApaLI GTGCAC 1 cut(s) 434
ApeKI GCWGC 1 cut(s) 393
ApoI RAATTY 1 cut(s) 79
AspLEI GCGC 1 cut(s) 60
AspS9I GGNCC 1 cut(s) 197
AsuHPI GGTGA 1 cut(s) 292
AvaI CYCGRG 1 cut(s) 249
AvaII GGWCC 1 cut(s) 197
BaeGI GKGCMC 1 cut(s) 438
Bbv12I GWGCWC 1 cut(s) 438
BbvI GCAGC 1 cut(s) 405
BceAI ACGGC 2 cut(s) 294, 381
BcoDI GTCTC 3 cut(s) 104, 202, 227
BfaI CTAG 3 cut(s) 47, 114, 150
BfmI CTRYAG 1 cut(s) 485
BfrI CTTAAG 1 cut(s) 68
BisI GCNGC 2 cut(s) 56, 394
BlsI GCNGC 2 cut(s) 57, 395
Bme18I GGWCC 1 cut(s) 197
BmeT110I CYCGRG 1 cut(s) 249
BmgT120I GGNCC 1 cut(s) 197
BmiI GGNNCC 1 cut(s) 198
BsaAI YACGTR 1 cut(s) 425
Bsc4I CCNNNNNNNGG 1 cut(s) 256
Bse3DI GCAATG 1 cut(s) 438
BseGI GGATG 2 cut(s) 265, 366
BseLI CCNNNNNNNGG 1 cut(s) 256
BseMI GCAATG 1 cut(s) 438
BseMII CTCAG 1 cut(s) 228
BseSI GKGCMC 1 cut(s) 438
BseXI GCAGC 1 cut(s) 405
BshFI GGCC 2 cut(s) 309, 471
BsiHKAI GWGCWC 1 cut(s) 438
BsiHKCI CYCGRG 1 cut(s) 249
BslFI GGGAC 1 cut(s) 210
BslI CCNNNNNNNGG 1 cut(s) 256
BsmAI GTCTC 3 cut(s) 104, 202, 227
BsmFI GGGAC 1 cut(s) 210
BsnI GGCC 2 cut(s) 309, 471
BsoBI CYCGRG 1 cut(s) 249
Bsp1286I GDGCHC 1 cut(s) 438
Bsp143I GATC 1 cut(s) 172
BspACI CCGC 2 cut(s) 55, 278
BspANI GGCC 2 cut(s) 309, 471
BspCNI CTCAG 1 cut(s) 229
BspHI TCATGA 1 cut(s) 106
BspLI GGNNCC 1 cut(s) 198
BspMAI CTGCAG 1 cut(s) 489
BspPI GGATC 1 cut(s) 167
BspTI CTTAAG 1 cut(s) 68
BsrDI GCAATG 1 cut(s) 438
BssMI GATC 1 cut(s) 172
Bst4CI ACNGT 1 cut(s) 28
Bst6I CTCTTC 3 cut(s) 12, 225, 278
BstAFI CTTAAG 1 cut(s) 68
BstBAI YACGTR 1 cut(s) 425
BstC8I GCNNGC 1 cut(s) 62
BstDEI CTNAG 1 cut(s) 237
BstF5I GGATG 2 cut(s) 265, 366
BstHHI GCGC 1 cut(s) 60
BstKTI GATC 1 cut(s) 175
BstMAI GTCTC 3 cut(s) 104, 202, 227
BstMBI GATC 1 cut(s) 172
BstMWI GCNNNNNNNGC 1 cut(s) 61
BstSFI CTRYAG 1 cut(s) 485
BstSLI GKGCMC 1 cut(s) 438
BstSNI TACGTA 1 cut(s) 425
BstV1I GCAGC 1 cut(s) 405
BsuRI GGCC 2 cut(s) 309, 471
BtsCI GGATG 2 cut(s) 265, 366
Cac8I GCNNGC 1 cut(s) 62
CciI TCATGA 1 cut(s) 106
CfoI GCGC 1 cut(s) 60
Cfr13I GGNCC 1 cut(s) 197
Csp6I GTAC 2 cut(s) 137, 387
CviAII CATG 1 cut(s) 107
CviJI RGCY 5 cut(s) 309, 335, 341, 396, 471
CviKI_1 RGCY 5 cut(s) 309, 335, 341, 396, 471
CviQI GTAC 2 cut(s) 137, 387
DdeI CTNAG 1 cut(s) 237
DpnI GATC 1 cut(s) 174
DpnII GATC 1 cut(s) 172
EaeI YGGCCR 1 cut(s) 307
Eam1104I CTCTTC 3 cut(s) 12, 225, 278
EarI CTCTTC 3 cut(s) 12, 225, 278
Eco105I TACGTA 1 cut(s) 425
Eco47I GGWCC 1 cut(s) 197
Eco57I CTGAAG 2 cut(s) 357, 458
Eco88I CYCGRG 1 cut(s) 249
EcoO109I RGGNCCY 1 cut(s) 197
FaeI CATG 1 cut(s) 110
FaiI YATR 6 cut(s) 108, 123, 306, 412, 414, 428
FaqI GGGAC 1 cut(s) 210
FatI CATG 1 cut(s) 106
FblI GTMKAC 1 cut(s) 289
Fnu4HI GCNGC 2 cut(s) 56, 394
FokI GGATG 2 cut(s) 272, 373
Fsp4HI GCNGC 2 cut(s) 56, 394
FspBI CTAG 3 cut(s) 47, 114, 150
GlaI GCGC 1 cut(s) 59
GluI GCNGC 2 cut(s) 56, 394
HaeIII GGCC 2 cut(s) 309, 471
HhaI GCGC 1 cut(s) 60
Hin1II CATG 1 cut(s) 110
Hin6I GCGC 1 cut(s) 58
HinP1I GCGC 1 cut(s) 58
HincII GTYRAC 1 cut(s) 36
HindII GTYRAC 1 cut(s) 36
HphI GGTGA 1 cut(s) 292
Hpy166II GTNNAC 4 cut(s) 36, 290, 314, 436
Hpy188I TCNGA 2 cut(s) 133, 360
Hpy188III TCNNGA 4 cut(s) 47, 107, 257, 476
Hpy8I GTNNAC 4 cut(s) 36, 290, 314, 436
HpyAV CCTTC 1 cut(s) 482
HpyCH4III ACNGT 1 cut(s) 28
HpyCH4IV ACGT 1 cut(s) 424
HpyCH4V TGCA 3 cut(s) 367, 436, 487
HpyF10VI GCNNNNNNNGC 1 cut(s) 61
HpyF3I CTNAG 1 cut(s) 237
HpySE526I ACGT 1 cut(s) 424
Hsp92II CATG 1 cut(s) 110
HspAI GCGC 1 cut(s) 58
Kzo9I GATC 1 cut(s) 172
LpnPI CCDG 5 cut(s) 191, 213, 242, 369, 461
Lsp1109I GCAGC 1 cut(s) 405
MaeI CTAG 3 cut(s) 47, 114, 150
MaeII ACGT 1 cut(s) 424
MaeIII GTNAC 1 cut(s) 152
MalI GATC 1 cut(s) 174
MboI GATC 1 cut(s) 172
MboII GAAGA 3 cut(s) 29, 242, 295
MhlI GDGCHC 1 cut(s) 438
MluCI AATT 2 cut(s) 79, 102
MmeI TCCRAC 1 cut(s) 338
MnlI CCTC 3 cut(s) 13, 45, 455
MseI TTAA 4 cut(s) 69, 87, 161, 225
MspCI CTTAAG 1 cut(s) 68
MwoI GCNNNNNNNGC 1 cut(s) 61
NdeII GATC 1 cut(s) 172
NlaIII CATG 1 cut(s) 110
NlaIV GGNNCC 1 cut(s) 198
NmuCI GTSAC 1 cut(s) 152
PagI TCATGA 1 cut(s) 106
PkrI GCNGC 2 cut(s) 57, 395
Ppu21I YACGTR 1 cut(s) 425
PpuMI RGGWCCY 1 cut(s) 197
Psp5II RGGWCCY 1 cut(s) 197
PspN4I GGNNCC 1 cut(s) 198
PspPI GGNCC 1 cut(s) 197
PspPPI RGGWCCY 1 cut(s) 197
PstI CTGCAG 1 cut(s) 489
RsaI GTAC 2 cut(s) 138, 388
RsaNI GTAC 2 cut(s) 137, 387
SaqAI TTAA 4 cut(s) 69, 87, 161, 225
SatI GCNGC 2 cut(s) 56, 394
Sau3AI GATC 1 cut(s) 172
Sau96I GGNCC 1 cut(s) 197
SduI GDGCHC 1 cut(s) 438
SetI ASST 5 cut(s) 35, 202, 343, 427, 466
SfcI CTRYAG 1 cut(s) 485
SinI GGWCC 1 cut(s) 197
SmlI CTYRAG 1 cut(s) 68
SmoI CTYRAG 1 cut(s) 68
SnaBI TACGTA 1 cut(s) 425
Sse9I AATT 2 cut(s) 79, 102
SsiI CCGC 2 cut(s) 55, 278
SspMI CTAG 3 cut(s) 47, 114, 150
TaaI ACNGT 1 cut(s) 28
TaiI ACGT 1 cut(s) 427
TaqI TCGA 1 cut(s) 267
TasI AATT 2 cut(s) 79, 102
TauI GCSGC 1 cut(s) 58
Tru1I TTAA 4 cut(s) 69, 87, 161, 225
Tru9I TTAA 4 cut(s) 69, 87, 161, 225
TseFI GTSAC 1 cut(s) 152
TseI GCWGC 1 cut(s) 393
Tsp45I GTSAC 1 cut(s) 152
TspDTI ATGAA 1 cut(s) 95
TspGWI ACGGA 2 cut(s) 154, 171
Vha464I CTTAAG 1 cut(s) 68
VneI GTGCAC 1 cut(s) 434
VpaK11BI GGWCC 1 cut(s) 197
XapI RAATTY 1 cut(s) 79
XbaI TCTAGA 1 cut(s) 46
XcmI CCANNNNNNNNNTGG 1 cut(s) 424
XmiI GTMKAC 1 cut(s) 289
XspI CTAG 3 cut(s) 47, 114, 150
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.