Rorug01G0417700

RNA polymerase sigma factor sigE, chloroplastic

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_rugosa
GWHBQTZ00000001
OG0008760
Physical Location & Seq
Forward (+)
52011077 .. 52013881
2805 bp
Loading structure...
UTR
Exon/CDS
Intron
Rorug01G0417700.1

Sequence Viewer

Length: 492 bp
ATGAGTGGAGGGCAAAAGCAAAGGATTCAGCTGGCTCGAGCTGTCTATAGTGATGCTGATATCTACCTCCTAGATGACCCATTCAGTGCAGTAGATGCACACACTGCAGCAATTCTGTTTCATGATTGTGTCATGGATGCTCTAGCAAAGAAGACTGTGATTCTTGTGACTCATCAAGTAGAATTTCTGTCAGAAGTTGACAAAATTCTGGTAATGGAGAGCGGACAAGTTACTCAATCCGGAATCATCGATTTGTATGGAACAAAAATCTTTTGGATGAACTTATCAAGTTCAAGAGTCATGTTCCGTGGCATTGGTGTTCTGAAGTTTGCTGCTTTGTTAGTTACTATTCTATGTATGGACATTTCAAGAAGCTGGATGAAGAGATTAAAAGGGGAGCTGCATCTTTGGAAGCAGAAGCCCAACTATCTCAGGTTTGCAATTGTCGATCACTTCAAAGTGGGACAGTTCGTGATAACATACTCTACTTGA
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

163

Amino Acids

18.48

Weight (kDa)

8.89

Isoelectric Point (pI)

25.84

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
ABC_tran PF00005 1 - 28 1.9e-06 ABC transporter
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccBSI CCGCTC 1 cut(s) 222
AccIII TCCGGA 1 cut(s) 239
AciI CCGC 1 cut(s) 222
AcsI RAATTY 2 cut(s) 182, 204
AcuI CTGAAG 1 cut(s) 344
AgsI TTSAA 3 cut(s) 294, 369, 457
AluBI AGCT 4 cut(s) 31, 41, 375, 400
AluI AGCT 4 cut(s) 31, 41, 375, 400
Ama87I CYCGRG 1 cut(s) 36
Aor13HI TCCGGA 1 cut(s) 239
ApeKI GCWGC 3 cut(s) 107, 332, 400
ApoI RAATTY 2 cut(s) 182, 204
AvaI CYCGRG 1 cut(s) 36
BbsI GAAGAC 1 cut(s) 158
BbvI GCAGC 3 cut(s) 119, 319, 387
BfaI CTAG 2 cut(s) 71, 143
BfmI CTRYAG 2 cut(s) 46, 105
BisI GCNGC 3 cut(s) 108, 333, 401
BlsI GCNGC 3 cut(s) 109, 334, 402
BmeT110I CYCGRG 1 cut(s) 36
BmsI GCATC 4 cut(s) 43, 85, 127, 412
BpiI GAAGAC 1 cut(s) 158
Bsa29I ATCGAT 1 cut(s) 249
BsaJI CCNNGG 1 cut(s) 307
BsaWI WCCGGW 1 cut(s) 239
BseAI TCCGGA 1 cut(s) 239
BseCI ATCGAT 1 cut(s) 249
BseDI CCNNGG 1 cut(s) 307
BseGI GGATG 3 cut(s) 142, 282, 384
BseMII CTCAG 1 cut(s) 445
BseXI GCAGC 3 cut(s) 119, 319, 387
BsgI GTGCAG 1 cut(s) 108
BshVI ATCGAT 1 cut(s) 249
BsiHKCI CYCGRG 1 cut(s) 36
BsiSI CCGG 1 cut(s) 240
BslFI GGGAC 1 cut(s) 477
BsmFI GGGAC 1 cut(s) 477
BsoBI CYCGRG 1 cut(s) 36
Bsp13I TCCGGA 1 cut(s) 239
Bsp143I GATC 1 cut(s) 448
BspACI CCGC 1 cut(s) 222
BspCNI CTCAG 1 cut(s) 444
BspDI ATCGAT 1 cut(s) 249
BspEI TCCGGA 1 cut(s) 239
BspHI TCATGA 1 cut(s) 121
BspMAI CTGCAG 1 cut(s) 109
BsrBI CCGCTC 1 cut(s) 222
BssECI CCNNGG 1 cut(s) 307
BssMI GATC 1 cut(s) 448
Bst4CI ACNGT 2 cut(s) 157, 468
Bst6I CTCTTC 1 cut(s) 377
BstAPI GCANNNNNTGC 2 cut(s) 95, 104
BstC8I GCNNGC 1 cut(s) 33
BstDEI CTNAG 1 cut(s) 431
BstDSI CCRYGG 1 cut(s) 307
BstF5I GGATG 3 cut(s) 142, 282, 384
BstKTI GATC 1 cut(s) 451
BstMBI GATC 1 cut(s) 448
BstMWI GCNNNNNNNGC 2 cut(s) 95, 104
BstSFI CTRYAG 2 cut(s) 46, 105
BstV1I GCAGC 3 cut(s) 119, 319, 387
BstV2I GAAGAC 1 cut(s) 158
Bsu15I ATCGAT 1 cut(s) 249
BsuTUI ATCGAT 1 cut(s) 249
BtgI CCRYGG 1 cut(s) 307
BtsCI GGATG 3 cut(s) 142, 282, 384
BtsI GCAGTG 1 cut(s) 102
BtsIMutI CAGTG 2 cut(s) 91, 102
Cac8I GCNNGC 1 cut(s) 33
CciI TCATGA 1 cut(s) 121
ClaI ATCGAT 1 cut(s) 249
CviAII CATG 3 cut(s) 122, 133, 301
CviJI RGCY 6 cut(s) 31, 35, 41, 375, 400, 421
CviKI_1 RGCY 6 cut(s) 31, 35, 41, 375, 400, 421
DdeI CTNAG 1 cut(s) 431
DpnI GATC 1 cut(s) 450
DpnII GATC 1 cut(s) 448
Eam1104I CTCTTC 1 cut(s) 377
EarI CTCTTC 1 cut(s) 377
Eco32I GATATC 1 cut(s) 61
Eco57I CTGAAG 1 cut(s) 344
Eco88I CYCGRG 1 cut(s) 36
EcoRV GATATC 1 cut(s) 61
FaeI CATG 3 cut(s) 125, 136, 304
FaiI YATR 8 cut(s) 48, 123, 134, 258, 302, 355, 359, 481
FaqI GGGAC 1 cut(s) 477
FatI CATG 3 cut(s) 121, 132, 300
Fnu4HI GCNGC 3 cut(s) 108, 333, 401
FokI GGATG 3 cut(s) 149, 289, 391
Fsp4HI GCNGC 3 cut(s) 108, 333, 401
FspBI CTAG 2 cut(s) 71, 143
GluI GCNGC 3 cut(s) 108, 333, 401
HapII CCGG 1 cut(s) 240
Hin1II CATG 3 cut(s) 125, 136, 304
HincII GTYRAC 1 cut(s) 199
HindII GTYRAC 1 cut(s) 199
HinfI GANTC 5 cut(s) 25, 160, 169, 243, 297
HpaII CCGG 1 cut(s) 240
Hpy166II GTNNAC 1 cut(s) 199
Hpy188I TCNGA 2 cut(s) 193, 324
Hpy188III TCNNGA 5 cut(s) 122, 240, 294, 369, 472
Hpy8I GTNNAC 1 cut(s) 199
HpyCH4III ACNGT 2 cut(s) 157, 468
HpyCH4V TGCA 5 cut(s) 89, 98, 107, 403, 440
HpyF10VI GCNNNNNNNGC 2 cut(s) 95, 104
HpyF3I CTNAG 1 cut(s) 431
Hsp92II CATG 3 cut(s) 125, 136, 304
Kpn2I TCCGGA 1 cut(s) 239
Kzo9I GATC 1 cut(s) 448
LmnI GCTCC 1 cut(s) 397
LpnPI CCDG 5 cut(s) 17, 194, 253, 361, 418
Lsp1109I GCAGC 3 cut(s) 119, 319, 387
LweI GCATC 4 cut(s) 43, 85, 127, 412
MaeI CTAG 2 cut(s) 71, 143
MaeIII GTNAC 3 cut(s) 166, 229, 343
MalI GATC 1 cut(s) 450
MbiI CCGCTC 1 cut(s) 222
MboI GATC 1 cut(s) 448
MboII GAAGA 2 cut(s) 163, 394
MfeI CAATTG 1 cut(s) 441
MluCI AATT 4 cut(s) 111, 182, 204, 441
MlyI GAGTC 2 cut(s) 163, 306
MnlI CCTC 1 cut(s) 77
MroI TCCGGA 1 cut(s) 239
MseI TTAA 1 cut(s) 389
MslI CAYNNNNRTG 1 cut(s) 126
MspA1I CMGCKG 1 cut(s) 31
MspI CCGG 1 cut(s) 240
MunI CAATTG 1 cut(s) 441
MwoI GCNNNNNNNGC 2 cut(s) 95, 104
NdeII GATC 1 cut(s) 448
NlaIII CATG 3 cut(s) 125, 136, 304
NmuCI GTSAC 1 cut(s) 166
PaeR7I CTCGAG 1 cut(s) 36
PagI TCATGA 1 cut(s) 121
PfeI GAWTC 3 cut(s) 25, 160, 243
PkrI GCNGC 3 cut(s) 109, 334, 402
PleI GAGTC 2 cut(s) 163, 305
PpsI GAGTC 2 cut(s) 163, 305
PspXI VCTCGAGB 1 cut(s) 36
PstI CTGCAG 1 cut(s) 109
PvuII CAGCTG 1 cut(s) 31
RseI CAYNNNNRTG 1 cut(s) 126
SaqAI TTAA 1 cut(s) 389
SatI GCNGC 3 cut(s) 108, 333, 401
Sau3AI GATC 1 cut(s) 448
SchI GAGTC 2 cut(s) 163, 306
SetI ASST 6 cut(s) 33, 43, 69, 377, 402, 437
SfaNI GCATC 4 cut(s) 43, 85, 127, 412
SfcI CTRYAG 2 cut(s) 46, 105
Sfr274I CTCGAG 1 cut(s) 36
SlaI CTCGAG 1 cut(s) 36
SmiMI CAYNNNNRTG 1 cut(s) 126
SmlI CTYRAG 1 cut(s) 36
SmoI CTYRAG 1 cut(s) 36
Sse9I AATT 4 cut(s) 111, 182, 204, 441
SsiI CCGC 1 cut(s) 222
SspMI CTAG 2 cut(s) 71, 143
TaaI ACNGT 2 cut(s) 157, 468
TaqI TCGA 3 cut(s) 37, 249, 447
TasI AATT 4 cut(s) 111, 182, 204, 441
TfiI GAWTC 3 cut(s) 25, 160, 243
Tru1I TTAA 1 cut(s) 389
Tru9I TTAA 1 cut(s) 389
TscAI CASTG 2 cut(s) 91, 109
TseFI GTSAC 1 cut(s) 166
TseI GCWGC 3 cut(s) 107, 332, 400
Tsp45I GTSAC 1 cut(s) 166
TspDTI ATGAA 3 cut(s) 110, 293, 395
TspGWI ACGGA 1 cut(s) 296
TspRI CASTG 2 cut(s) 91, 109
XapI RAATTY 2 cut(s) 182, 204
XhoI CTCGAG 1 cut(s) 36
XspI CTAG 2 cut(s) 71, 143
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.