Rh7CG509000

RNA polymerase sigma factor sigE, chloroplastic

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr7C
OG0001198
Physical Location & Seq
Reverse (-)
68798317 .. 68804804
6488 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh7CG509000.1

Sequence Viewer

Length: 534 bp
ATGGTGGTGGTTCCTGCTGCCGCCCAGCCCAAGGTGTTTTCAGCGTGCTATGTCTGCCAAGTTCCCCTCCAAGCCTCTCCCTCCTGCTCAAGCTGGTTGTTTACCAACTTTTGCCACAATACCAGTCTAGATAGGTCTACACCAAGCTCTTTCGAATGTGATGGGAGACTCAGTGCAAGAGCGAAGTATGACTTGAGTGACAATTTTAATTTGAAGGCTAATGCTCAGAAAGATTTGGGGAGAGAACCAAATAAGGGTGAACTAGCTGAGGCAACAAGTATGAGTGTGGTTCAAGTGAAAAAACACTTGGAGGTCGGTCGAGCTGCCATAAACAAAGTCATCAAGGTACGTATCATACGTTCCATGACACTATCAAGCTTTACTCGTGTCGCCTTTGGCATTGAGTCGGATGCATTTGGGTTTCATGATGATACGACCATGCCTGCATCCTCTTCAGAGCCAGTTGGAGGTCCTGACTCTGGCCATTGTTCTGTTGCCCAGTTATGGTTTTTCAAACATCTCACTTTTCCCTAA
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

177

Amino Acids

19.28

Weight (kDa)

8.24

Isoelectric Point (pI)

53.95

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) 137
AciI CCGC 1 cut(s) 21
AcoI YGGCCR 1 cut(s) 481
AcuI CTGAAG 1 cut(s) 438
AfaI GTAC 1 cut(s) 348
AfiI CCNNNNNNNGG 5 cut(s) 31, 254, 467, 479, 504
AgsI TTSAA 3 cut(s) 214, 293, 514
AjuI GAANNNNNNNTTGG 2 cut(s) 290, 322
AluBI AGCT 5 cut(s) 93, 147, 266, 323, 378
AluI AGCT 5 cut(s) 93, 147, 266, 323, 378
Alw26I GTCTC 1 cut(s) 160
AoxI GGCC 1 cut(s) 481
ApeKI GCWGC 2 cut(s) 17, 323
AspS9I GGNCC 1 cut(s) 470
AsuHPI GGTGA 1 cut(s) 269
AsuII TTCGAA 1 cut(s) 153
AvaII GGWCC 1 cut(s) 470
BalI TGGCCA 1 cut(s) 483
BauI CACGAG 1 cut(s) 384
BbvCI CCTCAGC 1 cut(s) 267
BbvI GCAGC 2 cut(s) 4, 310
BccI CCATC 1 cut(s) 155
BcoDI GTCTC 1 cut(s) 160
BfaI CTAG 2 cut(s) 128, 263
BisI GCNGC 3 cut(s) 18, 21, 324
BlsI GCNGC 3 cut(s) 19, 22, 325
Bme18I GGWCC 1 cut(s) 470
BmgT120I GGNCC 1 cut(s) 470
BmiI GGNNCC 1 cut(s) 12
BmrI ACTGGG 1 cut(s) 493
BmsI GCATC 2 cut(s) 400, 455
BmuI ACTGGG 1 cut(s) 493
Bpu10I CCTNAGC 1 cut(s) 267
Bpu14I TTCGAA 1 cut(s) 153
BpuEI CTTGAG 2 cut(s) 73, 214
BsaAI YACGTR 1 cut(s) 350
BsaJI CCNNGG 1 cut(s) 30
BsaXI ACNNNNNCTCC 2 cut(s) 157, 187
Bsc4I CCNNNNNNNGG 5 cut(s) 31, 254, 467, 479, 504
Bse1I ACTGG 3 cut(s) 123, 461, 499
BseDI CCNNGG 1 cut(s) 30
BseGI GGATG 2 cut(s) 415, 446
BseLI CCNNNNNNNGG 5 cut(s) 31, 254, 467, 479, 504
BseMII CTCAG 3 cut(s) 184, 239, 258
BseNI ACTGG 3 cut(s) 123, 461, 499
BseXI GCAGC 2 cut(s) 4, 310
BseYI CCCAGC 1 cut(s) 24
Bsh1285I CGRYCG 1 cut(s) 319
BshFI GGCC 1 cut(s) 483
BsiEI CGRYCG 1 cut(s) 319
BslI CCNNNNNNNGG 5 cut(s) 31, 254, 467, 479, 504
BsmAI GTCTC 1 cut(s) 160
BsnI GGCC 1 cut(s) 483
Bsp119I TTCGAA 1 cut(s) 153
BspACI CCGC 1 cut(s) 21
BspANI GGCC 1 cut(s) 483
BspCNI CTCAG 3 cut(s) 183, 238, 259
BspHI TCATGA 1 cut(s) 424
BspLI GGNNCC 1 cut(s) 12
BspT104I TTCGAA 1 cut(s) 153
BsrI ACTGG 3 cut(s) 123, 461, 499
BssECI CCNNGG 1 cut(s) 30
BssSI CACGAG 1 cut(s) 384
BssT1I CCWWGG 1 cut(s) 30
Bst2BI CACGAG 1 cut(s) 384
Bst6I CTCTTC 1 cut(s) 457
BstBAI YACGTR 1 cut(s) 350
BstBI TTCGAA 1 cut(s) 153
BstC8I GCNNGC 2 cut(s) 46, 444
BstDEI CTNAG 3 cut(s) 170, 225, 267
BstF5I GGATG 2 cut(s) 415, 446
BstMAI GTCTC 1 cut(s) 160
BstMCI CGRYCG 1 cut(s) 319
BstMWI GCNNNNNNNGC 1 cut(s) 54
BstSNI TACGTA 1 cut(s) 350
BstV1I GCAGC 2 cut(s) 4, 310
BsuRI GGCC 1 cut(s) 483
BtsCI GGATG 2 cut(s) 415, 446
BtsIMutI CAGTG 1 cut(s) 178
Cac8I GCNNGC 2 cut(s) 46, 444
CciI TCATGA 1 cut(s) 424
Cfr13I GGNCC 1 cut(s) 470
Csp6I GTAC 1 cut(s) 347
CviAII CATG 3 cut(s) 364, 425, 439
CviQI GTAC 1 cut(s) 347
DdeI CTNAG 3 cut(s) 170, 225, 267
EaeI YGGCCR 1 cut(s) 481
Eam1104I CTCTTC 1 cut(s) 457
EarI CTCTTC 1 cut(s) 457
Eco105I TACGTA 1 cut(s) 350
Eco130I CCWWGG 1 cut(s) 30
Eco47I GGWCC 1 cut(s) 470
Eco57I CTGAAG 1 cut(s) 438
EcoO109I RGGNCCY 1 cut(s) 470
EcoT14I CCWWGG 1 cut(s) 30
EcoT22I ATGCAT 1 cut(s) 415
ErhI CCWWGG 1 cut(s) 30
FaeI CATG 3 cut(s) 367, 428, 442
FaiI YATR 9 cut(s) 51, 189, 281, 329, 356, 365, 426, 440, 505
FalI AAGNNNNNCTT 2 cut(s) 176, 208
FatI CATG 3 cut(s) 363, 424, 438
FblI GTMKAC 1 cut(s) 137
Fnu4HI GCNGC 3 cut(s) 18, 21, 324
FokI GGATG 2 cut(s) 422, 433
Fsp4HI GCNGC 3 cut(s) 18, 21, 324
FspBI CTAG 2 cut(s) 128, 263
GluI GCNGC 3 cut(s) 18, 21, 324
GsaI CCCAGC 1 cut(s) 28
HaeIII GGCC 1 cut(s) 483
Hin1II CATG 3 cut(s) 367, 428, 442
HindIII AAGCTT 1 cut(s) 376
HinfI GANTC 3 cut(s) 168, 404, 476
HphI GGTGA 1 cut(s) 269
Hpy166II GTNNAC 3 cut(s) 102, 138, 260
Hpy188I TCNGA 3 cut(s) 228, 409, 457
Hpy188III TCNNGA 3 cut(s) 128, 425, 473
Hpy8I GTNNAC 3 cut(s) 102, 138, 260
HpyAV CCTTC 1 cut(s) 208
HpyCH4IV ACGT 2 cut(s) 349, 358
HpyCH4V TGCA 3 cut(s) 176, 413, 446
HpyF10VI GCNNNNNNNGC 1 cut(s) 54
HpyF3I CTNAG 3 cut(s) 170, 225, 267
HpySE526I ACGT 2 cut(s) 349, 358
Hsp92II CATG 3 cut(s) 367, 428, 442
Lsp1109I GCAGC 2 cut(s) 4, 310
LweI GCATC 2 cut(s) 400, 455
MaeI CTAG 2 cut(s) 128, 263
MaeII ACGT 2 cut(s) 349, 358
MaeIII GTNAC 1 cut(s) 197
MboII GAAGA 1 cut(s) 444
MlsI TGGCCA 1 cut(s) 483
MluCI AATT 2 cut(s) 202, 208
MluNI TGGCCA 1 cut(s) 483
MlyI GAGTC 3 cut(s) 162, 413, 470
MmeI TCCRAC 2 cut(s) 387, 445
MnlI CCTC 7 cut(s) 77, 85, 91, 262, 304, 460, 461
Mox20I TGGCCA 1 cut(s) 483
Mph1103I ATGCAT 1 cut(s) 415
MscI TGGCCA 1 cut(s) 483
MseI TTAA 1 cut(s) 207
Msp20I TGGCCA 1 cut(s) 483
MwoI GCNNNNNNNGC 1 cut(s) 54
NlaIII CATG 3 cut(s) 367, 428, 442
NlaIV GGNNCC 1 cut(s) 12
NmuCI GTSAC 1 cut(s) 197
NsiI ATGCAT 1 cut(s) 415
NspV TTCGAA 1 cut(s) 153
PagI TCATGA 1 cut(s) 424
PcsI WCGNNNNNNNCGW 1 cut(s) 355
PkrI GCNGC 3 cut(s) 19, 22, 325
PleI GAGTC 3 cut(s) 162, 412, 470
PpsI GAGTC 3 cut(s) 162, 412, 470
Ppu21I YACGTR 1 cut(s) 350
PpuMI RGGWCCY 1 cut(s) 470
Psp5II RGGWCCY 1 cut(s) 470
PspFI CCCAGC 1 cut(s) 24
PspN4I GGNNCC 1 cut(s) 12
PspPI GGNCC 1 cut(s) 470
PspPPI RGGWCCY 1 cut(s) 470
PsrI GAACNNNNNNTAC 2 cut(s) 343, 375
RsaI GTAC 1 cut(s) 348
RsaNI GTAC 1 cut(s) 347
SaqAI TTAA 1 cut(s) 207
SatI GCNGC 3 cut(s) 18, 21, 324
Sau96I GGNCC 1 cut(s) 470
SchI GAGTC 3 cut(s) 162, 413, 470
SfaNI GCATC 2 cut(s) 400, 455
SfuI TTCGAA 1 cut(s) 153
SinI GGWCC 1 cut(s) 470
SmlI CTYRAG 2 cut(s) 88, 193
SmoI CTYRAG 2 cut(s) 88, 193
SnaBI TACGTA 1 cut(s) 350
Sse9I AATT 2 cut(s) 202, 208
SsiI CCGC 1 cut(s) 21
SspMI CTAG 2 cut(s) 128, 263
StyI CCWWGG 1 cut(s) 30
TaiI ACGT 2 cut(s) 352, 361
TaqI TCGA 2 cut(s) 153, 319
TaqII GACCGA 1 cut(s) 305
TasI AATT 2 cut(s) 202, 208
TauI GCSGC 1 cut(s) 23
Tru1I TTAA 1 cut(s) 207
Tru9I TTAA 1 cut(s) 207
TscAI CASTG 1 cut(s) 178
TseFI GTSAC 1 cut(s) 197
TseI GCWGC 2 cut(s) 17, 323
Tsp45I GTSAC 1 cut(s) 197
TspDTI ATGAA 1 cut(s) 413
TspRI CASTG 1 cut(s) 178
VpaK11BI GGWCC 1 cut(s) 470
XbaI TCTAGA 1 cut(s) 127
XmiI GTMKAC 1 cut(s) 137
XspI CTAG 2 cut(s) 128, 263
Zsp2I ATGCAT 1 cut(s) 415
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.