Rroxscaffold_2G00115240

DNA-directed RNA polymerases I and III subunit

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000002
OG0004203
Physical Location & Seq
Forward (+)
41451021 .. 41452735
1715 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_2G00115240.1

Sequence Viewer

Length: 378 bp
ATGCCAAAACAGATTGCAATACCTAAATTGAGTAATGGCAAGTTCTGTAAAGAAATGGAACTTGGGACCCTTTCTGATCCCAGCCAATCCACATTCTCTTTGGTTGATGAGGACCACACATTTGCAAATGCTATCAGATTTACTTTGAATCAGGATCCAAGGACGAAATTCTGTGGGTACAGCATTCCTCATCCATCAGATAACCGGGTTAATATTAGAATCCAGACTACAGGTGATCCAGCAAAAGATGTATTCAAAGATGCATGTCAGGATCTCATGGTGATGTGCCAGCATGTGAGCAACACTTTTGACAAGGCTGTGGTTGATTTCAAAATGAGCAAGTCTGTGGATGGCATGGATATTGAATCAAATAGTTAA
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

125

Amino Acids

13.97

Weight (kDa)

5.5

Isoelectric Point (pI)

35.51

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RNA_pol_L_2 PF13656 30 - 101 2.2e-27 RNA polymerase Rpb3/Rpb11 dimerisation domain
RNA_pol_L PF01193 31 - 93 3.6e-10 RNA polymerase Rpb3/Rpb11 dimerisation domain
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 5 cut(s) 71, 149, 162, 230, 279
AcsI RAATTY 1 cut(s) 167
AfaI GTAC 1 cut(s) 179
AgsI TTSAA 4 cut(s) 148, 256, 331, 365
AjuI GAANNNNNNNTTGG 2 cut(s) 45, 77
AlwI GGATC 5 cut(s) 71, 149, 162, 230, 279
ApoI RAATTY 1 cut(s) 167
ArsI GACNNNNNNTTYG 2 cut(s) 104, 136
AspS9I GGNCC 2 cut(s) 66, 112
AsuC2I CCSGG 1 cut(s) 206
AsuHPI GGTGA 2 cut(s) 245, 292
AvaII GGWCC 2 cut(s) 66, 112
BamHI GGATCC 1 cut(s) 154
BccI CCATC 2 cut(s) 202, 344
BcnI CCSGG 1 cut(s) 206
BfmI CTRYAG 1 cut(s) 228
Bme1390I CCNGG 1 cut(s) 206
Bme18I GGWCC 2 cut(s) 66, 112
BmgT120I GGNCC 2 cut(s) 66, 112
BmiI GGNNCC 3 cut(s) 67, 68, 156
BmrFI CCNGG 1 cut(s) 206
BmsI GCATC 1 cut(s) 250
BpuMI CCSGG 1 cut(s) 206
BsaJI CCNNGG 1 cut(s) 158
BseDI CCNNGG 1 cut(s) 158
BseGI GGATG 2 cut(s) 190, 355
BseYI CCCAGC 1 cut(s) 80
BsiSI CCGG 1 cut(s) 205
BslFI GGGAC 1 cut(s) 79
BsmFI GGGAC 1 cut(s) 79
BsmI GAATGC 1 cut(s) 183
Bsp143I GATC 4 cut(s) 76, 154, 235, 271
BspLI GGNNCC 3 cut(s) 67, 68, 156
BspPI GGATC 5 cut(s) 71, 149, 162, 230, 279
BssECI CCNNGG 1 cut(s) 158
BssMI GATC 4 cut(s) 76, 154, 235, 271
BssT1I CCWWGG 1 cut(s) 158
BstC8I GCNNGC 1 cut(s) 290
BstF5I GGATG 2 cut(s) 190, 355
BstKTI GATC 4 cut(s) 79, 157, 238, 274
BstMBI GATC 4 cut(s) 76, 154, 235, 271
BstNSI RCATGY 2 cut(s) 267, 296
BstSCI CCNGG 1 cut(s) 204
BstSFI CTRYAG 1 cut(s) 228
BstX2I RGATCY 2 cut(s) 154, 271
BstYI RGATCY 2 cut(s) 154, 271
BtsCI GGATG 2 cut(s) 190, 355
Cac8I GCNNGC 1 cut(s) 290
Cfr13I GGNCC 2 cut(s) 66, 112
Csp6I GTAC 1 cut(s) 178
CviAII CATG 4 cut(s) 264, 277, 293, 355
CviJI RGCY 2 cut(s) 84, 317
CviKI_1 RGCY 2 cut(s) 84, 317
CviQI GTAC 1 cut(s) 178
DpnI GATC 4 cut(s) 78, 156, 237, 273
DpnII GATC 4 cut(s) 76, 154, 235, 271
Eco130I CCWWGG 1 cut(s) 158
Eco47I GGWCC 2 cut(s) 66, 112
EcoO109I RGGNCCY 1 cut(s) 66
EcoT14I CCWWGG 1 cut(s) 158
EcoT22I ATGCAT 1 cut(s) 265
ErhI CCWWGG 1 cut(s) 158
FaeI CATG 4 cut(s) 267, 280, 296, 358
FaiI YATR 4 cut(s) 265, 278, 294, 356
FaqI GGGAC 1 cut(s) 79
FatI CATG 4 cut(s) 263, 276, 292, 354
FokI GGATG 2 cut(s) 177, 362
GsaI CCCAGC 1 cut(s) 84
HapII CCGG 1 cut(s) 205
Hin1II CATG 4 cut(s) 267, 280, 296, 358
HinfI GANTC 3 cut(s) 148, 219, 365
HpaII CCGG 1 cut(s) 205
HphI GGTGA 2 cut(s) 245, 292
Hpy188I TCNGA 3 cut(s) 76, 137, 199
Hpy188III TCNNGA 3 cut(s) 152, 223, 269
HpyCH4V TGCA 3 cut(s) 17, 125, 263
Hsp92II CATG 4 cut(s) 267, 280, 296, 358
KflI GGGWCCC 1 cut(s) 66
Kzo9I GATC 4 cut(s) 76, 154, 235, 271
LpnPI CCDG 8 cut(s) 94, 137, 216, 218, 236, 252, 254, 302
LweI GCATC 1 cut(s) 250
MalI GATC 4 cut(s) 78, 156, 237, 273
MboI GATC 4 cut(s) 76, 154, 235, 271
MflI RGATCY 2 cut(s) 154, 271
MluCI AATT 2 cut(s) 26, 167
MnlI CCTC 2 cut(s) 103, 198
Mph1103I ATGCAT 1 cut(s) 265
MseI TTAA 2 cut(s) 210, 376
MslI CAYNNNNRTG 1 cut(s) 281
MspI CCGG 1 cut(s) 205
MspR9I CCNGG 1 cut(s) 206
Mva1269I GAATGC 1 cut(s) 183
NciI CCSGG 1 cut(s) 206
NdeII GATC 4 cut(s) 76, 154, 235, 271
NlaIII CATG 4 cut(s) 267, 280, 296, 358
NlaIV GGNNCC 3 cut(s) 67, 68, 156
NsiI ATGCAT 1 cut(s) 265
NspI RCATGY 2 cut(s) 267, 296
PctI GAATGC 1 cut(s) 183
PfeI GAWTC 3 cut(s) 148, 219, 365
PpuMI RGGWCCY 1 cut(s) 66
Psp5II RGGWCCY 1 cut(s) 66
PspFI CCCAGC 1 cut(s) 80
PspN4I GGNNCC 3 cut(s) 67, 68, 156
PspPI GGNCC 2 cut(s) 66, 112
PspPPI RGGWCCY 1 cut(s) 66
PsuI RGATCY 2 cut(s) 154, 271
RsaI GTAC 1 cut(s) 179
RsaNI GTAC 1 cut(s) 178
RseI CAYNNNNRTG 1 cut(s) 281
SaqAI TTAA 2 cut(s) 210, 376
Sau3AI GATC 4 cut(s) 76, 154, 235, 271
Sau96I GGNCC 2 cut(s) 66, 112
ScrFI CCNGG 1 cut(s) 206
SetI ASST 2 cut(s) 25, 235
SfaNI GCATC 1 cut(s) 250
SfcI CTRYAG 1 cut(s) 228
SinI GGWCC 2 cut(s) 66, 112
SmiMI CAYNNNNRTG 1 cut(s) 281
Sse9I AATT 2 cut(s) 26, 167
SspI AATATT 1 cut(s) 214
StyD4I CCNGG 1 cut(s) 204
StyI CCWWGG 1 cut(s) 158
TasI AATT 2 cut(s) 26, 167
TfiI GAWTC 3 cut(s) 148, 219, 365
Tru1I TTAA 2 cut(s) 210, 376
Tru9I TTAA 2 cut(s) 210, 376
VpaK11BI GGWCC 2 cut(s) 66, 112
XapI RAATTY 1 cut(s) 167
XceI RCATGY 2 cut(s) 267, 296
XcmI CCANNNNNNNNNTGG 1 cut(s) 97
Zsp2I ATGCAT 1 cut(s) 265
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.