Rmu_sc0002839.1_g000004

RNA polymerase sigma factor sigE, chloroplastic

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_multiflora
Rmu_sc0002839.1
OG0001198
Physical Location & Seq
Forward (+)
12756 .. 14407
1652 bp
Loading structure...
UTR
Exon/CDS
Intron
Rmu_sc0002839.1_g000004.1.cds

Sequence Viewer

Length: 429 bp
atgttcatacttgctcctccgagtataggttttgggatcaacaacctagaaggagaagcaactgcgaaccctttcgatttgttaggcgatgacgacaacgacgacttaagtcaacttgctgctatatggtggtggttcctgctgccgcccagcccaaggtgttttcagcgtgatatgtctgccaagttcccctccaagcctctccctcctactcaagctggttgtttaccaactttggccacaataccagtctggataggtctacaccaagctctttcgaatgtggtaaatgagggtcttcttcaagtgaaaaagactttgcagaaagatttggggagagaaccaaatatgggtgaactagctgaggcaacaagtatgagtgtggttcaagtgaaaaaaaatacttggagatcggtcgagctgccataa
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

142

Amino Acids

15.62

Weight (kDa)

4.86

Isoelectric Point (pI)

45.4

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) 262
AciI CCGC 1 cut(s) 146
AclWI GGATC 1 cut(s) 44
AcoI YGGCCR 1 cut(s) 237
AfiI CCNNNNNNNGG 3 cut(s) 26, 156, 350
AflII CTTAAG 1 cut(s) 106
AgsI TTSAA 2 cut(s) 305, 389
AluBI AGCT 4 cut(s) 218, 272, 362, 421
AluI AGCT 4 cut(s) 218, 272, 362, 421
AlwI GGATC 1 cut(s) 44
AoxI GGCC 1 cut(s) 237
ApeKI GCWGC 3 cut(s) 119, 142, 421
Asp700I GAANNNNTTC 1 cut(s) 71
AsuHPI GGTGA 1 cut(s) 365
AsuII TTCGAA 1 cut(s) 278
BalI TGGCCA 1 cut(s) 239
BbsI GAAGAC 1 cut(s) 290
BbvCI CCTCAGC 1 cut(s) 363
BbvI GCAGC 3 cut(s) 106, 129, 408
BfaI CTAG 2 cut(s) 47, 359
BfrI CTTAAG 1 cut(s) 106
BisI GCNGC 4 cut(s) 120, 143, 146, 422
BlsI GCNGC 4 cut(s) 121, 144, 147, 423
BmiI GGNNCC 1 cut(s) 137
BoxI GACNNNNGTC 1 cut(s) 108
BpiI GAAGAC 1 cut(s) 290
Bpu10I CCTNAGC 1 cut(s) 363
Bpu14I TTCGAA 1 cut(s) 278
BpuEI CTTGAG 1 cut(s) 198
BsaJI CCNNGG 1 cut(s) 155
Bsc4I CCNNNNNNNGG 3 cut(s) 26, 156, 350
Bse1I ACTGG 1 cut(s) 248
BseDI CCNNGG 1 cut(s) 155
BseLI CCNNNNNNNGG 3 cut(s) 26, 156, 350
BseMII CTCAG 1 cut(s) 354
BseNI ACTGG 1 cut(s) 248
BseRI GAGGAG 1 cut(s) 6
BseXI GCAGC 3 cut(s) 106, 129, 408
BseYI CCCAGC 1 cut(s) 149
Bsh1285I CGRYCG 1 cut(s) 417
BshFI GGCC 1 cut(s) 239
BsiEI CGRYCG 1 cut(s) 417
BslI CCNNNNNNNGG 3 cut(s) 26, 156, 350
BsnI GGCC 1 cut(s) 239
Bsp119I TTCGAA 1 cut(s) 278
Bsp143I GATC 2 cut(s) 36, 410
BspACI CCGC 1 cut(s) 146
BspANI GGCC 1 cut(s) 239
BspCNI CTCAG 1 cut(s) 355
BspLI GGNNCC 1 cut(s) 137
BspPI GGATC 1 cut(s) 44
BspT104I TTCGAA 1 cut(s) 278
BspTI CTTAAG 1 cut(s) 106
BsrI ACTGG 1 cut(s) 248
BssECI CCNNGG 1 cut(s) 155
BssMI GATC 2 cut(s) 36, 410
BssT1I CCWWGG 1 cut(s) 155
BstAFI CTTAAG 1 cut(s) 106
BstBI TTCGAA 1 cut(s) 278
BstDEI CTNAG 1 cut(s) 363
BstKTI GATC 2 cut(s) 39, 413
BstMBI GATC 2 cut(s) 36, 410
BstMCI CGRYCG 1 cut(s) 417
BstPAI GACNNNNGTC 1 cut(s) 108
BstV1I GCAGC 3 cut(s) 106, 129, 408
BstV2I GAAGAC 1 cut(s) 290
BsuRI GGCC 1 cut(s) 239
BtgZI GCGATG 1 cut(s) 102
CviJI RGCY 7 cut(s) 153, 199, 218, 239, 272, 362, 421
CviKI_1 RGCY 7 cut(s) 153, 199, 218, 239, 272, 362, 421
DdeI CTNAG 1 cut(s) 363
DpnI GATC 2 cut(s) 38, 412
DpnII GATC 2 cut(s) 36, 410
EaeI YGGCCR 1 cut(s) 237
Eco130I CCWWGG 1 cut(s) 155
EcoT14I CCWWGG 1 cut(s) 155
ErhI CCWWGG 1 cut(s) 155
FaiI YATR 8 cut(s) 8, 26, 125, 127, 176, 350, 377, 427
FblI GTMKAC 1 cut(s) 262
Fnu4HI GCNGC 4 cut(s) 120, 143, 146, 422
Fsp4HI GCNGC 4 cut(s) 120, 143, 146, 422
FspBI CTAG 2 cut(s) 47, 359
GluI GCNGC 4 cut(s) 120, 143, 146, 422
GsaI CCCAGC 1 cut(s) 153
HaeIII GGCC 1 cut(s) 239
HincII GTYRAC 1 cut(s) 113
HindII GTYRAC 1 cut(s) 113
HphI GGTGA 1 cut(s) 365
Hpy166II GTNNAC 4 cut(s) 113, 227, 263, 356
Hpy188I TCNGA 1 cut(s) 21
Hpy188III TCNNGA 1 cut(s) 253
Hpy8I GTNNAC 4 cut(s) 113, 227, 263, 356
Hpy99I CGWCG 1 cut(s) 104
HpyAV CCTTC 1 cut(s) 44
HpyCH4V TGCA 1 cut(s) 322
HpyF3I CTNAG 1 cut(s) 363
Kzo9I GATC 2 cut(s) 36, 410
LmnI GCTCC 1 cut(s) 19
LpnPI CCDG 5 cut(s) 152, 163, 204, 238, 261
Lsp1109I GCAGC 3 cut(s) 106, 129, 408
MaeI CTAG 2 cut(s) 47, 359
MalI GATC 2 cut(s) 38, 412
MboI GATC 2 cut(s) 36, 410
MboII GAAGA 2 cut(s) 290, 293
MlsI TGGCCA 1 cut(s) 239
MluNI TGGCCA 1 cut(s) 239
MnlI CCTC 6 cut(s) 27, 202, 210, 216, 286, 358
Mox20I TGGCCA 1 cut(s) 239
MroXI GAANNNNTTC 1 cut(s) 71
MscI TGGCCA 1 cut(s) 239
MseI TTAA 1 cut(s) 107
Msp20I TGGCCA 1 cut(s) 239
MspCI CTTAAG 1 cut(s) 106
NdeII GATC 2 cut(s) 36, 410
NlaIV GGNNCC 1 cut(s) 137
NspV TTCGAA 1 cut(s) 278
PcsI WCGNNNNNNNCGW 1 cut(s) 99
PdmI GAANNNNTTC 1 cut(s) 71
PkrI GCNGC 4 cut(s) 121, 144, 147, 423
PshAI GACNNNNGTC 1 cut(s) 108
PspFI CCCAGC 1 cut(s) 149
PspN4I GGNNCC 1 cut(s) 137
SaqAI TTAA 1 cut(s) 107
SatI GCNGC 4 cut(s) 120, 143, 146, 422
Sau3AI GATC 2 cut(s) 36, 410
SetI ASST 8 cut(s) 31, 48, 161, 220, 262, 274, 364, 423
SfuI TTCGAA 1 cut(s) 278
SmlI CTYRAG 2 cut(s) 106, 213
SmoI CTYRAG 2 cut(s) 106, 213
SsiI CCGC 1 cut(s) 146
SspMI CTAG 2 cut(s) 47, 359
StyI CCWWGG 1 cut(s) 155
TaqI TCGA 3 cut(s) 75, 278, 417
TaqII GACCGA 1 cut(s) 403
TauI GCSGC 1 cut(s) 148
Tru1I TTAA 1 cut(s) 107
Tru9I TTAA 1 cut(s) 107
TseI GCWGC 3 cut(s) 119, 142, 421
Vha464I CTTAAG 1 cut(s) 106
XmiI GTMKAC 1 cut(s) 262
XmnI GAANNNNTTC 1 cut(s) 71
XspI CTAG 2 cut(s) 47, 359
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.