Rorug02G0281400

DNA-directed RNA polymerases I and III subunit

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_rugosa
GWHBQTZ00000002
OG0004203
Physical Location & Seq
Forward (+)
30360820 .. 30361218
399 bp
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UTR
Exon/CDS
Intron
Rorug02G0281400.1

Sequence Viewer

Length: 399 bp
ATGCTAGTACCACATTTTGCATCAGATGATTGCATTGTAGGTGGATTTAATATACCACGTGACACATTGGTATTGGTCAATGCATGTGCTATACATAGAGACTCGAAGTTGTGGGATGATCCTGAAAGCTTCAAACCTGAGAGGTTTGAAACTGACAACAAGGACAAGGCACACAAATTTATGCAATTTGGAATGGGAAGAAGGGCATGCCCCGGAGCAGGATTGGCCCAACGTGAGGTCGGCTTGACTTTGGCCTCATTGATTCAATGCTTTGAGTGGGAGAGGGTCAGTAAGGAGGAGGTTGATATGACTGAAGGGACAGGACTCACCATGCCTAAACATGTGCCATTAGAGGCCATGTACAAACCACGCTCATTTTTGAACAAGGTTTTCCATTGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko00230 ko00240 ko01100 ko03020 ko04623 ko05169 map00230 map00240 map01100 map03020 map04623 map05169
Pfam Domains
Protein Families
RNA_pol_L_2

Protein Analysis

132

Amino Acids

14.98

Weight (kDa)

6.19

Isoelectric Point (pI)

39.4

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
p450 PF00067 1 - 113 3.7e-34 Cytochrome P450
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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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) 113
AcsI RAATTY 1 cut(s) 176
AcuI CTGAAG 1 cut(s) 333
AcvI CACGTG 1 cut(s) 59
AfaI GTAC 2 cut(s) 9, 362
AfiI CCNNNNNNNGG 2 cut(s) 218, 235
AflIII ACRYGT 1 cut(s) 340
AgsI TTSAA 4 cut(s) 133, 149, 266, 382
AluBI AGCT 1 cut(s) 129
AluI AGCT 1 cut(s) 129
Alw26I GTCTC 1 cut(s) 93
AlwI GGATC 1 cut(s) 113
AoxI GGCC 3 cut(s) 225, 252, 354
ApoI RAATTY 1 cut(s) 176
AspS9I GGNCC 1 cut(s) 226
AsuC2I CCSGG 1 cut(s) 213
AsuHPI GGTGA 1 cut(s) 319
BbrPI CACGTG 1 cut(s) 59
BcnI CCSGG 1 cut(s) 213
BcoDI GTCTC 1 cut(s) 93
BfaI CTAG 1 cut(s) 5
Bme1390I CCNGG 1 cut(s) 213
BmgT120I GGNCC 1 cut(s) 226
BmrFI CCNGG 1 cut(s) 213
BmsI GCATC 1 cut(s) 29
BpuMI CCSGG 1 cut(s) 213
BsaAI YACGTR 1 cut(s) 59
BsaJI CCNNGG 1 cut(s) 211
Bsc4I CCNNNNNNNGG 2 cut(s) 218, 235
BseDI CCNNGG 1 cut(s) 211
BseGI GGATG 1 cut(s) 121
BseLI CCNNNNNNNGG 2 cut(s) 218, 235
BseMII CTCAG 1 cut(s) 129
BseRI GAGGAG 1 cut(s) 311
BshFI GGCC 3 cut(s) 227, 254, 356
BsiSI CCGG 1 cut(s) 213
BslFI GGGAC 1 cut(s) 331
BslI CCNNNNNNNGG 2 cut(s) 218, 235
BsmAI GTCTC 1 cut(s) 93
BsmFI GGGAC 1 cut(s) 331
BsnI GGCC 3 cut(s) 227, 254, 356
Bsp1407I TGTACA 1 cut(s) 360
Bsp143I GATC 1 cut(s) 118
BspANI GGCC 3 cut(s) 227, 254, 356
BspCNI CTCAG 1 cut(s) 130
BspPI GGATC 1 cut(s) 113
BsrGI TGTACA 1 cut(s) 360
BssECI CCNNGG 1 cut(s) 211
BssMI GATC 1 cut(s) 118
BstAUI TGTACA 1 cut(s) 360
BstBAI YACGTR 1 cut(s) 59
BstC8I GCNNGC 1 cut(s) 208
BstDEI CTNAG 1 cut(s) 138
BstF5I GGATG 1 cut(s) 121
BstKTI GATC 1 cut(s) 121
BstMAI GTCTC 1 cut(s) 93
BstMBI GATC 1 cut(s) 118
BstMWI GCNNNNNNNGC 1 cut(s) 224
BstNSI RCATGY 3 cut(s) 87, 210, 344
BstSCI CCNGG 1 cut(s) 211
BsuRI GGCC 3 cut(s) 227, 254, 356
BtsCI GGATG 1 cut(s) 121
Cac8I GCNNGC 1 cut(s) 208
Cfr13I GGNCC 1 cut(s) 226
Csp6I GTAC 2 cut(s) 8, 361
CviAII CATG 5 cut(s) 84, 207, 331, 341, 358
CviJI RGCY 5 cut(s) 129, 227, 243, 254, 356
CviKI_1 RGCY 5 cut(s) 129, 227, 243, 254, 356
CviQI GTAC 2 cut(s) 8, 361
DdeI CTNAG 1 cut(s) 138
DpnI GATC 1 cut(s) 120
DpnII GATC 1 cut(s) 118
Eco57I CTGAAG 1 cut(s) 333
Eco72I CACGTG 1 cut(s) 59
EcoT22I ATGCAT 1 cut(s) 85
FaeI CATG 5 cut(s) 87, 210, 334, 344, 361
FaqI GGGAC 1 cut(s) 331
FatI CATG 5 cut(s) 83, 206, 330, 340, 357
FokI GGATG 1 cut(s) 128
FspBI CTAG 1 cut(s) 5
HaeIII GGCC 3 cut(s) 227, 254, 356
HapII CCGG 1 cut(s) 213
Hin1II CATG 5 cut(s) 87, 210, 334, 344, 361
HindIII AAGCTT 1 cut(s) 127
HinfI GANTC 3 cut(s) 101, 262, 324
HpaII CCGG 1 cut(s) 213
HphI GGTGA 1 cut(s) 319
Hpy188I TCNGA 1 cut(s) 25
Hpy188III TCNNGA 1 cut(s) 122
HpyAV CCTTC 2 cut(s) 195, 308
HpyCH4IV ACGT 2 cut(s) 58, 232
HpyCH4V TGCA 4 cut(s) 20, 33, 83, 184
HpyF10VI GCNNNNNNNGC 1 cut(s) 224
HpyF3I CTNAG 1 cut(s) 138
HpySE526I ACGT 2 cut(s) 58, 232
Hsp92II CATG 5 cut(s) 87, 210, 334, 344, 361
Kzo9I GATC 1 cut(s) 118
LmnI GCTCC 1 cut(s) 215
LpnPI CCDG 5 cut(s) 135, 150, 204, 226, 306
LweI GCATC 1 cut(s) 29
MaeI CTAG 1 cut(s) 5
MaeII ACGT 2 cut(s) 58, 232
MaeIII GTNAC 1 cut(s) 59
MalI GATC 1 cut(s) 120
MboI GATC 1 cut(s) 118
MboII GAAGA 1 cut(s) 210
MluCI AATT 2 cut(s) 176, 185
MlyI GAGTC 2 cut(s) 95, 318
MnlI CCTC 7 cut(s) 135, 229, 265, 276, 289, 292, 346
Mph1103I ATGCAT 1 cut(s) 85
MseI TTAA 1 cut(s) 48
MspI CCGG 1 cut(s) 213
MspR9I CCNGG 1 cut(s) 213
MwoI GCNNNNNNNGC 1 cut(s) 224
NciI CCSGG 1 cut(s) 213
NdeII GATC 1 cut(s) 118
NlaIII CATG 5 cut(s) 87, 210, 334, 344, 361
NmuCI GTSAC 1 cut(s) 59
NsiI ATGCAT 1 cut(s) 85
NspI RCATGY 3 cut(s) 87, 210, 344
PaeI GCATGC 1 cut(s) 210
PciI ACATGT 1 cut(s) 340
PfeI GAWTC 1 cut(s) 262
PleI GAGTC 2 cut(s) 95, 318
PmaCI CACGTG 1 cut(s) 59
PmlI CACGTG 1 cut(s) 59
PpsI GAGTC 2 cut(s) 95, 318
Ppu21I YACGTR 1 cut(s) 59
PscI ACATGT 1 cut(s) 340
PspCI CACGTG 1 cut(s) 59
PspPI GGNCC 1 cut(s) 226
RsaI GTAC 2 cut(s) 9, 362
RsaNI GTAC 2 cut(s) 8, 361
SaqAI TTAA 1 cut(s) 48
Sau3AI GATC 1 cut(s) 118
Sau96I GGNCC 1 cut(s) 226
SchI GAGTC 2 cut(s) 95, 318
ScrFI CCNGG 1 cut(s) 213
SetI ASST 9 cut(s) 43, 61, 131, 139, 146, 235, 240, 303, 390
SfaNI GCATC 1 cut(s) 29
SphI GCATGC 1 cut(s) 210
Sse9I AATT 2 cut(s) 176, 185
SspMI CTAG 1 cut(s) 5
StyD4I CCNGG 1 cut(s) 211
TaiI ACGT 2 cut(s) 61, 235
TaqI TCGA 1 cut(s) 104
TasI AATT 2 cut(s) 176, 185
TatI WGTACW 1 cut(s) 360
TfiI GAWTC 1 cut(s) 262
Tru1I TTAA 1 cut(s) 48
Tru9I TTAA 1 cut(s) 48
TseFI GTSAC 1 cut(s) 59
Tsp45I GTSAC 1 cut(s) 59
XapI RAATTY 1 cut(s) 176
XceI RCATGY 3 cut(s) 87, 210, 344
XspI CTAG 1 cut(s) 5
Zsp2I ATGCAT 1 cut(s) 85
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.