MD01G1215400.v1.1

RNA polymerase sigma factor sigE, chloroplastic

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr01
OG0001198
Physical Location & Seq
Forward (+)
30866921 .. 30867336
416 bp
Loading structure...
UTR
Exon/CDS
Intron
MD01G1215400.v1.1.491

Sequence Viewer

Length: 288 bp
ATGAAGATTCCTCCGGTTCTAACTTCTTCAGAGCATGCTTGGTTGTTTAAGCTAATGCAACCTATGAAGTGTCTTCATGAAGTGAGAGAGAAATTACAAAAGGATTTGGGGACAAAACCAACTAACGGCAAATTGGCTGAGGCGACAAATATGAGTGTGGTTCAAGTGAAAAAACATTTCGAAGTTGGTCGAGCTGCACGAAACAAGCTCATCAAGGCAAGCATTGTCTGGCTTAAGCCTTCAATACTGATTATATTAGTTTTAAATGTGAAGCAGAGAAACTGGTAA
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

96

Amino Acids

10.9

Weight (kDa)

10.35

Isoelectric Point (pI)

22.36

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)
AcuI CTGAAG 1 cut(s) 12
AfiI CCNNNNNNNGG 1 cut(s) 125
AflII CTTAAG 1 cut(s) 233
AgsI TTSAA 2 cut(s) 164, 243
AluBI AGCT 3 cut(s) 52, 194, 208
AluI AGCT 3 cut(s) 52, 194, 208
ApeKI GCWGC 1 cut(s) 194
AsuII TTCGAA 1 cut(s) 180
BbsI GAAGAC 1 cut(s) 65
BbvCI CCTCAGC 1 cut(s) 138
BbvI GCAGC 1 cut(s) 181
BceAI ACGGC 1 cut(s) 142
BfrI CTTAAG 1 cut(s) 233
BisI GCNGC 1 cut(s) 195
BlsI GCNGC 1 cut(s) 196
BpiI GAAGAC 1 cut(s) 65
Bpu10I CCTNAGC 1 cut(s) 138
Bpu14I TTCGAA 1 cut(s) 180
BsaWI WCCGGW 1 cut(s) 13
Bsc4I CCNNNNNNNGG 1 cut(s) 125
Bse1I ACTGG 1 cut(s) 287
BseLI CCNNNNNNNGG 1 cut(s) 125
BseMII CTCAG 1 cut(s) 129
BseNI ACTGG 1 cut(s) 287
BseXI GCAGC 1 cut(s) 181
BsgI GTGCAG 1 cut(s) 180
BsiSI CCGG 1 cut(s) 14
BslFI GGGAC 1 cut(s) 124
BslI CCNNNNNNNGG 1 cut(s) 125
BsmFI GGGAC 1 cut(s) 124
Bsp119I TTCGAA 1 cut(s) 180
BspCNI CTCAG 1 cut(s) 130
BspHI TCATGA 1 cut(s) 76
BspT104I TTCGAA 1 cut(s) 180
BspTI CTTAAG 1 cut(s) 233
BsrI ACTGG 1 cut(s) 287
BstAFI CTTAAG 1 cut(s) 233
BstBI TTCGAA 1 cut(s) 180
BstC8I GCNNGC 2 cut(s) 36, 220
BstDEI CTNAG 1 cut(s) 138
BstNSI RCATGY 1 cut(s) 38
BstV1I GCAGC 1 cut(s) 181
BstV2I GAAGAC 1 cut(s) 65
Cac8I GCNNGC 2 cut(s) 36, 220
CciI TCATGA 1 cut(s) 76
CviAII CATG 2 cut(s) 35, 77
CviJI RGCY 6 cut(s) 52, 137, 194, 208, 232, 238
CviKI_1 RGCY 6 cut(s) 52, 137, 194, 208, 232, 238
DdeI CTNAG 1 cut(s) 138
DraI TTTAAA 1 cut(s) 264
Eco57I CTGAAG 1 cut(s) 12
FaeI CATG 2 cut(s) 38, 80
FaiI YATR 5 cut(s) 36, 65, 78, 152, 254
FaqI GGGAC 1 cut(s) 124
FatI CATG 2 cut(s) 34, 76
Fnu4HI GCNGC 1 cut(s) 195
Fsp4HI GCNGC 1 cut(s) 195
GluI GCNGC 1 cut(s) 195
HapII CCGG 1 cut(s) 14
Hin1II CATG 2 cut(s) 38, 80
HinfI GANTC 1 cut(s) 7
HpaII CCGG 1 cut(s) 14
Hpy188I TCNGA 1 cut(s) 31
Hpy188III TCNNGA 1 cut(s) 77
HpyAV CCTTC 1 cut(s) 249
HpyCH4V TGCA 2 cut(s) 58, 197
HpyF3I CTNAG 1 cut(s) 138
Hsp92II CATG 2 cut(s) 38, 80
LpnPI CCDG 3 cut(s) 27, 214, 268
Lsp1109I GCAGC 1 cut(s) 181
MboII GAAGA 3 cut(s) 16, 18, 65
MluCI AATT 2 cut(s) 92, 131
MnlI CCTC 2 cut(s) 21, 133
MseI TTAA 3 cut(s) 48, 234, 263
MspCI CTTAAG 1 cut(s) 233
MspI CCGG 1 cut(s) 14
NlaIII CATG 2 cut(s) 38, 80
NspI RCATGY 1 cut(s) 38
NspV TTCGAA 1 cut(s) 180
PaeI GCATGC 1 cut(s) 38
PagI TCATGA 1 cut(s) 76
PcsI WCGNNNNNNNCGW 1 cut(s) 196
PfeI GAWTC 1 cut(s) 7
PkrI GCNGC 1 cut(s) 196
SaqAI TTAA 3 cut(s) 48, 234, 263
SatI GCNGC 1 cut(s) 195
SetI ASST 4 cut(s) 54, 64, 196, 210
SfuI TTCGAA 1 cut(s) 180
SmlI CTYRAG 1 cut(s) 233
SmoI CTYRAG 1 cut(s) 233
SphI GCATGC 1 cut(s) 38
Sse9I AATT 2 cut(s) 92, 131
TaqI TCGA 2 cut(s) 180, 190
TasI AATT 2 cut(s) 92, 131
TfiI GAWTC 1 cut(s) 7
Tru1I TTAA 3 cut(s) 48, 234, 263
Tru9I TTAA 3 cut(s) 48, 234, 263
TseI GCWGC 1 cut(s) 194
TspDTI ATGAA 4 cut(s) 17, 65, 80, 93
Vha464I CTTAAG 1 cut(s) 233
XceI RCATGY 1 cut(s) 38
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.