RLG00000005500

DNA-directed RNA-polymerase II subunit

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_laevigata
Chr1
OG0002628
Physical Location & Seq
Forward (+)
68110709 .. 68112484
1776 bp
Loading structure...
UTR
Exon/CDS
Intron
RLM00000005500

Sequence Viewer

Length: 414 bp
ATGCTTAGAGGAGAAGACGAAGACGCTTCAGAGCTCAAAATCGGAGAGGATTTTCTGAAGGCAAAATGTCTGATGAACAGTGAGGTAGCCATTCTTCTTGAGCATAGATATGACCAGATGAAGCAAATGTCTGGCGATTCAACTCCACTTCCCCAAGTGTTAGAGAAATCGCTGCAGTATGTCAAGCGCTTCAGTCGGTTCACGAATCAAGGCTCCGTAAAGCAAGTTCGAGAAGTCCTCAGTAGATACCAGTTGGCTGAATTCGAGCTGGCTGTGATCGGGAATCTTTGCCCTGAAACTGTGGAGGAGGCTAAGGCAATTGTGCCCTCACTCAAGACCAAAGGACGTGGGCATGATGATGAAGCCGTTGAGAGATTGTTGAATGACCTATTAATGATTAAAAAGTTTGAGTGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko00230 ko00240 ko01100 ko03020 ko05016 ko05169 map00230 map00240 map01100 map03020 map05016 map05169
Pfam Domains
Protein Families
RNA_pol_Rpb4

Protein Analysis

138

Amino Acids

15.65

Weight (kDa)

5.34

Isoelectric Point (pI)

36.0

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RNA_pol_Rpb4 PF03874 23 - 130 7.2e-26 RNA polymerase Rpb4
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)
AcsI RAATTY 1 cut(s) 260
AcuI CTGAAG 3 cut(s) 12, 77, 175
AfeI AGCGCT 1 cut(s) 188
AgsI TTSAA 2 cut(s) 141, 382
AjiI CACGTC 1 cut(s) 347
AluBI AGCT 2 cut(s) 34, 268
AluI AGCT 2 cut(s) 34, 268
Alw21I GWGCWC 1 cut(s) 36
Aor51HI AGCGCT 1 cut(s) 188
ApeKI GCWGC 1 cut(s) 172
ApoI RAATTY 1 cut(s) 260
AseI ATTAAT 1 cut(s) 392
AspLEI GCGC 1 cut(s) 189
BaeGI GKGCMC 1 cut(s) 327
BanII GRGCYC 1 cut(s) 36
BarI GAAGNNNNNNTAC 2 cut(s) 78, 110
BbsI GAAGAC 2 cut(s) 21, 27
Bbv12I GWGCWC 1 cut(s) 36
BbvI GCAGC 1 cut(s) 159
BceAI ACGGC 1 cut(s) 350
BfmI CTRYAG 1 cut(s) 173
BfoI RGCGCY 1 cut(s) 190
BisI GCNGC 1 cut(s) 173
BlsI GCNGC 1 cut(s) 174
BmgBI CACGTC 1 cut(s) 347
BmiI GGNNCC 1 cut(s) 214
BpiI GAAGAC 2 cut(s) 21, 27
BplI GAGNNNNNCTC 2 cut(s) 222, 254
Bpu10I CCTNAGC 1 cut(s) 312
BpuEI CTTGAG 2 cut(s) 119, 317
Bse1I ACTGG 1 cut(s) 250
BseMII CTCAG 1 cut(s) 253
BseNI ACTGG 1 cut(s) 250
BseRI GAGGAG 2 cut(s) 24, 320
BseSI GKGCMC 1 cut(s) 327
BseXI GCAGC 1 cut(s) 159
BsiHKAI GWGCWC 1 cut(s) 36
Bsp1286I GDGCHC 2 cut(s) 36, 327
Bsp143I GATC 1 cut(s) 276
BspCNI CTCAG 1 cut(s) 252
BspLI GGNNCC 1 cut(s) 214
BspMAI CTGCAG 1 cut(s) 177
BsrI ACTGG 1 cut(s) 250
BssMI GATC 1 cut(s) 276
Bst4CI ACNGT 2 cut(s) 80, 301
BstC8I GCNNGC 1 cut(s) 270
BstDEI CTNAG 3 cut(s) 5, 239, 312
BstH2I RGCGCY 1 cut(s) 190
BstHHI GCGC 1 cut(s) 189
BstKTI GATC 1 cut(s) 279
BstMBI GATC 1 cut(s) 276
BstSFI CTRYAG 1 cut(s) 173
BstSLI GKGCMC 1 cut(s) 327
BstV1I GCAGC 1 cut(s) 159
BstV2I GAAGAC 2 cut(s) 21, 27
BtrI CACGTC 1 cut(s) 347
BtsIMutI CAGTG 1 cut(s) 85
Cac8I GCNNGC 1 cut(s) 270
CfoI GCGC 1 cut(s) 189
CseI GACGC 1 cut(s) 32
CspCI CAANNNNNGTGG 2 cut(s) 328, 363
CviAII CATG 1 cut(s) 353
CviJI RGCY 8 cut(s) 34, 89, 213, 257, 268, 272, 311, 365
CviKI_1 RGCY 8 cut(s) 34, 89, 213, 257, 268, 272, 311, 365
DdeI CTNAG 3 cut(s) 5, 239, 312
DpnI GATC 1 cut(s) 278
DpnII GATC 1 cut(s) 276
Ecl136II GAGCTC 1 cut(s) 34
Eco24I GRGCYC 1 cut(s) 36
Eco47III AGCGCT 1 cut(s) 188
Eco53kI GAGCTC 1 cut(s) 34
Eco57I CTGAAG 3 cut(s) 12, 77, 175
EcoICRI GAGCTC 1 cut(s) 34
EcoRI GAATTC 1 cut(s) 260
EcoT38I GRGCYC 1 cut(s) 36
FaeI CATG 1 cut(s) 356
FaiI YATR 4 cut(s) 105, 111, 180, 354
FatI CATG 1 cut(s) 352
Fnu4HI GCNGC 1 cut(s) 173
FriOI GRGCYC 1 cut(s) 36
Fsp4HI GCNGC 1 cut(s) 173
GlaI GCGC 1 cut(s) 188
GluI GCNGC 1 cut(s) 173
HaeII RGCGCY 1 cut(s) 190
HgaI GACGC 1 cut(s) 32
HhaI GCGC 1 cut(s) 189
Hin1II CATG 1 cut(s) 356
Hin6I GCGC 1 cut(s) 187
HinP1I GCGC 1 cut(s) 187
HinfI GANTC 3 cut(s) 137, 205, 283
Hpy166II GTNNAC 1 cut(s) 201
Hpy188I TCNGA 4 cut(s) 31, 44, 57, 72
Hpy188III TCNNGA 5 cut(s) 98, 202, 230, 280, 334
Hpy8I GTNNAC 1 cut(s) 201
HpyAV CCTTC 1 cut(s) 52
HpyCH4III ACNGT 2 cut(s) 80, 301
HpyCH4IV ACGT 1 cut(s) 346
HpyCH4V TGCA 1 cut(s) 175
HpyF3I CTNAG 3 cut(s) 5, 239, 312
HpySE526I ACGT 1 cut(s) 346
Hsp92II CATG 1 cut(s) 356
HspAI GCGC 1 cut(s) 187
Kzo9I GATC 1 cut(s) 276
LmnI GCTCC 1 cut(s) 218
LpnPI CCDG 5 cut(s) 117, 128, 254, 263, 306
Lsp1109I GCAGC 1 cut(s) 159
MaeII ACGT 1 cut(s) 346
MalI GATC 1 cut(s) 278
MboI GATC 1 cut(s) 276
MboII GAAGA 3 cut(s) 26, 32, 86
MfeI CAATTG 1 cut(s) 318
MhlI GDGCHC 2 cut(s) 36, 327
MluCI AATT 2 cut(s) 260, 318
MnlI CCTC 6 cut(s) 40, 76, 248, 298, 301, 337
MseI TTAA 2 cut(s) 392, 399
MslI CAYNNNNRTG 2 cut(s) 108, 357
MunI CAATTG 1 cut(s) 318
NdeII GATC 1 cut(s) 276
NlaIII CATG 1 cut(s) 356
NlaIV GGNNCC 1 cut(s) 214
PfeI GAWTC 3 cut(s) 137, 205, 283
PkrI GCNGC 1 cut(s) 174
PshBI ATTAAT 1 cut(s) 392
Psp124BI GAGCTC 1 cut(s) 36
PspN4I GGNNCC 1 cut(s) 214
PsrI GAACNNNNNNTAC 2 cut(s) 210, 242
PstI CTGCAG 1 cut(s) 177
RseI CAYNNNNRTG 2 cut(s) 108, 357
SacI GAGCTC 1 cut(s) 36
SaqAI TTAA 2 cut(s) 392, 399
SatI GCNGC 1 cut(s) 173
Sau3AI GATC 1 cut(s) 276
SduI GDGCHC 2 cut(s) 36, 327
SetI ASST 5 cut(s) 36, 87, 270, 349, 390
SfcI CTRYAG 1 cut(s) 173
SmiMI CAYNNNNRTG 2 cut(s) 108, 357
SmlI CTYRAG 2 cut(s) 98, 332
SmoI CTYRAG 2 cut(s) 98, 332
Sse9I AATT 2 cut(s) 260, 318
SstI GAGCTC 1 cut(s) 36
TaaI ACNGT 2 cut(s) 80, 301
TaiI ACGT 1 cut(s) 349
TaqI TCGA 2 cut(s) 229, 264
TasI AATT 2 cut(s) 260, 318
TfiI GAWTC 3 cut(s) 137, 205, 283
Tru1I TTAA 2 cut(s) 392, 399
Tru9I TTAA 2 cut(s) 392, 399
TscAI CASTG 1 cut(s) 85
TseI GCWGC 1 cut(s) 172
TspDTI ATGAA 3 cut(s) 89, 134, 375
TspGWI ACGGA 1 cut(s) 205
TspRI CASTG 1 cut(s) 85
VspI ATTAAT 1 cut(s) 392
XapI RAATTY 1 cut(s) 260
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.