Rh1BG026700

RNA polymerase sigma factor sigE, chloroplastic

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr1B
OG0001198
Physical Location & Seq
Forward (+)
3557702 .. 3574788
17087 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh1BG026700.1

Sequence Viewer

Length: 537 bp
ATGTTCATACTTGCTCCTTTGAGTATGGGTTTTGGGATCGACAACCTAGACGGAGAAGTAACCGTGACCCTTTTCGATCTCCCAAGCCGTTTTCAGCGTGCTAAGTCTGCCAAGCTCCCCTCCAAGCCTCTCCCTCCTGCTCAACCTGATGGGAGACTCAGTGCAAGAGTGAAGTATGACTTGAGTGACAATTTCAGTTTGAAGGCTAATGCTCAGCTTACAAATGAGCCACATATGTCTCATGGCATTGTTAATGTTGATTACAAGGGTCTTCTTCAAGTGAAAGAGATTTTGCAGAAAGATTTGGGGAGAGACCCAAATAAGGGTGAACTAGCTGAGGCAATAAGTATGAGTATGGTTCAAGAGAAAAAACACTTGGAGGTTGGCCGAGCTGCCAGAACCAAAGTCATCAAGGTGTACCCATTAAGAAAGGTTTTCCGAAGTAAGGAAAGAAATAAGAGCAAAAGGAAGGAGATATGTGCAAATAATGGAGAATTGTGGACTCTTGATGAATCAAGGAAGCTTAAGGCAACATGA
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

178

Amino Acids

20.01

Weight (kDa)

9.81

Isoelectric Point (pI)

35.08

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)
AclWI GGATC 1 cut(s) 44
AcoI YGGCCR 1 cut(s) 385
AfaI GTAC 1 cut(s) 419
AfiI CCNNNNNNNGG 3 cut(s) 322, 323, 445
AflII CTTAAG 1 cut(s) 524
AgsI TTSAA 3 cut(s) 202, 278, 362
AjuI GAANNNNNNNTTGG 2 cut(s) 359, 391
AluBI AGCT 5 cut(s) 115, 217, 335, 392, 523
AluI AGCT 5 cut(s) 115, 217, 335, 392, 523
Alw26I GTCTC 3 cut(s) 148, 243, 306
AlwI GGATC 1 cut(s) 44
AoxI GGCC 1 cut(s) 385
ApeKI GCWGC 1 cut(s) 392
AsuHPI GGTGA 1 cut(s) 338
BbsI GAAGAC 1 cut(s) 263
BbvCI CCTCAGC 1 cut(s) 336
BbvI GCAGC 1 cut(s) 379
BccI CCATC 1 cut(s) 143
BceAI ACGGC 1 cut(s) 72
BcoDI GTCTC 3 cut(s) 148, 243, 306
BfaI CTAG 2 cut(s) 47, 332
BfrI CTTAAG 1 cut(s) 524
BisI GCNGC 1 cut(s) 393
BlpI GCTNAGC 1 cut(s) 213
BlsI GCNGC 1 cut(s) 394
BpiI GAAGAC 1 cut(s) 263
Bpu10I CCTNAGC 1 cut(s) 336
Bpu1102I GCTNAGC 1 cut(s) 213
BpuEI CTTGAG 1 cut(s) 202
BsaI GGTCTC 1 cut(s) 306
BsaXI ACNNNNNCTCC 2 cut(s) 145, 175
Bsc4I CCNNNNNNNGG 3 cut(s) 322, 323, 445
BseLI CCNNNNNNNGG 3 cut(s) 322, 323, 445
BseMII CTCAG 3 cut(s) 172, 227, 327
BseXI GCAGC 1 cut(s) 379
BshFI GGCC 1 cut(s) 387
BslI CCNNNNNNNGG 3 cut(s) 322, 323, 445
BsmAI GTCTC 3 cut(s) 148, 243, 306
BsnI GGCC 1 cut(s) 387
Bso31I GGTCTC 1 cut(s) 306
Bsp143I GATC 2 cut(s) 36, 76
Bsp1720I GCTNAGC 1 cut(s) 213
BspANI GGCC 1 cut(s) 387
BspCNI CTCAG 3 cut(s) 171, 226, 328
BspPI GGATC 1 cut(s) 44
BspTI CTTAAG 1 cut(s) 524
BspTNI GGTCTC 1 cut(s) 306
BssMI GATC 2 cut(s) 36, 76
Bst4CI ACNGT 1 cut(s) 64
BstAFI CTTAAG 1 cut(s) 524
BstC8I GCNNGC 1 cut(s) 99
BstDEI CTNAG 4 cut(s) 102, 158, 213, 336
BstKTI GATC 2 cut(s) 39, 79
BstMAI GTCTC 3 cut(s) 148, 243, 306
BstMBI GATC 2 cut(s) 36, 76
BstMWI GCNNNNNNNGC 1 cut(s) 107
BstV1I GCAGC 1 cut(s) 379
BstV2I GAAGAC 1 cut(s) 263
BsuRI GGCC 1 cut(s) 387
BtsIMutI CAGTG 1 cut(s) 166
Cac8I GCNNGC 1 cut(s) 99
Csp6I GTAC 1 cut(s) 418
CviAII CATG 2 cut(s) 242, 534
CviQI GTAC 1 cut(s) 418
DdeI CTNAG 4 cut(s) 102, 158, 213, 336
DpnI GATC 2 cut(s) 38, 78
DpnII GATC 2 cut(s) 36, 76
EaeI YGGCCR 1 cut(s) 385
Eco31I GGTCTC 1 cut(s) 306
FaeI CATG 2 cut(s) 245, 537
FalI AAGNNNNNCTT 2 cut(s) 164, 196
FatI CATG 2 cut(s) 241, 533
FauNDI CATATG 1 cut(s) 234
Fnu4HI GCNGC 1 cut(s) 393
Fsp4HI GCNGC 1 cut(s) 393
FspBI CTAG 2 cut(s) 47, 332
GluI GCNGC 1 cut(s) 393
HaeIII GGCC 1 cut(s) 387
Hin1II CATG 2 cut(s) 245, 537
HindIII AAGCTT 1 cut(s) 521
HinfI GANTC 3 cut(s) 156, 502, 512
HphI GGTGA 1 cut(s) 338
Hpy166II GTNNAC 3 cut(s) 329, 418, 501
Hpy188I TCNGA 1 cut(s) 440
Hpy188III TCNNGA 2 cut(s) 362, 506
Hpy8I GTNNAC 3 cut(s) 329, 418, 501
HpyAV CCTTC 2 cut(s) 196, 463
HpyCH4III ACNGT 1 cut(s) 64
HpyCH4V TGCA 3 cut(s) 164, 295, 482
HpyF10VI GCNNNNNNNGC 1 cut(s) 107
HpyF3I CTNAG 4 cut(s) 102, 158, 213, 336
Hsp92II CATG 2 cut(s) 245, 537
Kzo9I GATC 2 cut(s) 36, 76
LmnI GCTCC 2 cut(s) 19, 120
LpnPI CCDG 3 cut(s) 150, 159, 409
Lsp1109I GCAGC 1 cut(s) 379
MaeI CTAG 2 cut(s) 47, 332
MaeIII GTNAC 3 cut(s) 58, 64, 185
MalI GATC 2 cut(s) 38, 78
MboI GATC 2 cut(s) 36, 76
MboII GAAGA 2 cut(s) 263, 266
MluCI AATT 2 cut(s) 190, 494
MlyI GAGTC 2 cut(s) 150, 496
MnlI CCTC 5 cut(s) 130, 138, 144, 331, 373
MseI TTAA 3 cut(s) 252, 425, 525
MslI CAYNNNNRTG 1 cut(s) 413
MspCI CTTAAG 1 cut(s) 524
MwoI GCNNNNNNNGC 1 cut(s) 107
NdeI CATATG 1 cut(s) 234
NdeII GATC 2 cut(s) 36, 76
NlaIII CATG 2 cut(s) 245, 537
NmeAIII GCCGAG 1 cut(s) 413
NmuCI GTSAC 2 cut(s) 64, 185
PfeI GAWTC 1 cut(s) 512
PkrI GCNGC 1 cut(s) 394
PleI GAGTC 2 cut(s) 150, 496
PpsI GAGTC 2 cut(s) 150, 496
RsaI GTAC 1 cut(s) 419
RsaNI GTAC 1 cut(s) 418
RseI CAYNNNNRTG 1 cut(s) 413
SaqAI TTAA 3 cut(s) 252, 425, 525
SatI GCNGC 1 cut(s) 393
Sau3AI GATC 2 cut(s) 36, 76
SchI GAGTC 2 cut(s) 150, 496
SmiMI CAYNNNNRTG 1 cut(s) 413
SmlI CTYRAG 2 cut(s) 181, 524
SmoI CTYRAG 2 cut(s) 181, 524
Sse9I AATT 2 cut(s) 190, 494
SspMI CTAG 2 cut(s) 47, 332
TaaI ACNGT 1 cut(s) 64
TaqI TCGA 2 cut(s) 39, 75
TasI AATT 2 cut(s) 190, 494
TfiI GAWTC 1 cut(s) 512
Tru1I TTAA 3 cut(s) 252, 425, 525
Tru9I TTAA 3 cut(s) 252, 425, 525
TscAI CASTG 1 cut(s) 166
TseFI GTSAC 2 cut(s) 64, 185
TseI GCWGC 1 cut(s) 392
Tsp45I GTSAC 2 cut(s) 64, 185
TspDTI ATGAA 1 cut(s) 525
TspGWI ACGGA 1 cut(s) 66
TspRI CASTG 1 cut(s) 166
Vha464I CTTAAG 1 cut(s) 524
XspI CTAG 2 cut(s) 47, 332
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.