Rw1G025790

DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_wichuraiana
Chr1
OG0012267
Physical Location & Seq
Reverse (-)
52562439 .. 52564780
2342 bp
Loading structure...
UTR
Exon/CDS
Intron
Rw1G025790.1

Sequence Viewer

Length: 336 bp
ATGGAATTCTGCCCGGATTGTGGAGGCATGCTGCAGTATGAGCTTCCGAATATGCACGCTGCTAGATTCTTCTGTCCAACTTGTCCTTATGTAGCATACATGGAGAAACAGGGTGAAATTAGGAGGAGGCAGGCTCTAGTTAAGAAGGAGATCCAACCCATAATTAACTTGAATGACTTTACAAATGCACCCAAAACTGAAGAAACATGCCCAATCTGTGGTCATAAAGAGGCTGCTTTCCGGGAACAGCAAACACGATCTGCTGATGAAGCATCAACAAAATTTTATAGGTGTTTGAACGAAGACTGTAAACATGCTTGGATCGATTACTCTTAG
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
Nudix_N_2 RNA_POL_M_15KD TFIIS_C

Protein Analysis

111

Amino Acids

12.92

Weight (kDa)

5.9

Isoelectric Point (pI)

66.22

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Zn_ribbon_Nudix PF14803 3 - 33 4.9e-06 Nudix N-terminal
Zn_ribbon_TFIIS PF01096 69 - 107 3.7e-15 Transcription factor S-II (TFIIS)
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)
AccB7I CCANNNNNTGG 1 cut(s) 218
AclWI GGATC 2 cut(s) 145, 329
AcsI RAATTY 2 cut(s) 5, 281
AcuI CTGAAG 1 cut(s) 219
AfiI CCNNNNNNNGG 2 cut(s) 20, 218
AgsI TTSAA 2 cut(s) 172, 298
AluBI AGCT 1 cut(s) 43
AluI AGCT 1 cut(s) 43
AlwI GGATC 2 cut(s) 145, 329
ApeKI GCWGC 3 cut(s) 31, 59, 233
ApoI RAATTY 2 cut(s) 5, 281
AsuC2I CCSGG 2 cut(s) 14, 242
AsuHPI GGTGA 1 cut(s) 125
BbsI GAAGAC 1 cut(s) 309
BbvI GCAGC 3 cut(s) 18, 46, 220
BcnI CCSGG 2 cut(s) 14, 242
BfaI CTAG 2 cut(s) 63, 137
BfmI CTRYAG 1 cut(s) 32
BisI GCNGC 3 cut(s) 32, 60, 234
BlsI GCNGC 3 cut(s) 33, 61, 235
Bme1390I CCNGG 2 cut(s) 14, 242
BmrFI CCNGG 2 cut(s) 14, 242
BmsI GCATC 1 cut(s) 281
BpiI GAAGAC 1 cut(s) 309
BplI GAGNNNNNCTC 2 cut(s) 118, 150
BpuMI CCSGG 2 cut(s) 14, 242
Bsa29I ATCGAT 1 cut(s) 324
Bsc4I CCNNNNNNNGG 2 cut(s) 20, 218
BseCI ATCGAT 1 cut(s) 324
BseLI CCNNNNNNNGG 2 cut(s) 20, 218
BseRI GAGGAG 1 cut(s) 139
BseXI GCAGC 3 cut(s) 18, 46, 220
BshVI ATCGAT 1 cut(s) 324
BsiSI CCGG 2 cut(s) 14, 241
BslI CCNNNNNNNGG 2 cut(s) 20, 218
Bsp143I GATC 3 cut(s) 150, 257, 321
BspDI ATCGAT 1 cut(s) 324
BspMAI CTGCAG 1 cut(s) 36
BspPI GGATC 2 cut(s) 145, 329
BssMI GATC 3 cut(s) 150, 257, 321
Bst4CI ACNGT 1 cut(s) 308
BstC8I GCNNGC 3 cut(s) 29, 57, 132
BstDEI CTNAG 1 cut(s) 333
BstKTI GATC 3 cut(s) 153, 260, 324
BstMBI GATC 3 cut(s) 150, 257, 321
BstMWI GCNNNNNNNGC 2 cut(s) 40, 269
BstNSI RCATGY 3 cut(s) 31, 210, 317
BstSCI CCNGG 2 cut(s) 12, 240
BstSFI CTRYAG 1 cut(s) 32
BstV1I GCAGC 3 cut(s) 18, 46, 220
BstV2I GAAGAC 1 cut(s) 309
BstX2I RGATCY 1 cut(s) 150
BstYI RGATCY 1 cut(s) 150
Bsu15I ATCGAT 1 cut(s) 324
BsuTUI ATCGAT 1 cut(s) 324
Cac8I GCNNGC 3 cut(s) 29, 57, 132
ClaI ATCGAT 1 cut(s) 324
CviAII CATG 4 cut(s) 28, 100, 207, 314
CviJI RGCY 3 cut(s) 43, 134, 233
CviKI_1 RGCY 3 cut(s) 43, 134, 233
DdeI CTNAG 1 cut(s) 333
DpnI GATC 3 cut(s) 152, 259, 323
DpnII GATC 3 cut(s) 150, 257, 321
Eco57I CTGAAG 1 cut(s) 219
EcoRI GAATTC 1 cut(s) 5
FaeI CATG 4 cut(s) 31, 103, 210, 317
FatI CATG 4 cut(s) 27, 99, 206, 313
Fnu4HI GCNGC 3 cut(s) 32, 60, 234
Fsp4HI GCNGC 3 cut(s) 32, 60, 234
FspBI CTAG 2 cut(s) 63, 137
GluI GCNGC 3 cut(s) 32, 60, 234
HapII CCGG 2 cut(s) 14, 241
Hin1II CATG 4 cut(s) 31, 103, 210, 317
HinfI GANTC 1 cut(s) 66
HpaII CCGG 2 cut(s) 14, 241
HphI GGTGA 1 cut(s) 125
Hpy166II GTNNAC 1 cut(s) 311
Hpy188I TCNGA 1 cut(s) 48
Hpy8I GTNNAC 1 cut(s) 311
HpyAV CCTTC 1 cut(s) 139
HpyCH4III ACNGT 1 cut(s) 308
HpyCH4V TGCA 3 cut(s) 34, 55, 188
HpyF10VI GCNNNNNNNGC 2 cut(s) 40, 269
HpyF3I CTNAG 1 cut(s) 333
Hsp92II CATG 4 cut(s) 31, 103, 210, 317
Kzo9I GATC 3 cut(s) 150, 257, 321
LpnPI CCDG 4 cut(s) 27, 95, 116, 254
Lsp1109I GCAGC 3 cut(s) 18, 46, 220
LweI GCATC 1 cut(s) 281
MaeI CTAG 2 cut(s) 63, 137
MalI GATC 3 cut(s) 152, 259, 323
MboI GATC 3 cut(s) 150, 257, 321
MboII GAAGA 3 cut(s) 61, 212, 314
MflI RGATCY 1 cut(s) 150
MluCI AATT 4 cut(s) 5, 117, 162, 281
MmeI TCCRAC 2 cut(s) 101, 178
MnlI CCTC 4 cut(s) 17, 117, 120, 223
MseI TTAA 2 cut(s) 141, 165
MspI CCGG 2 cut(s) 14, 241
MspR9I CCNGG 2 cut(s) 14, 242
MwoI GCNNNNNNNGC 2 cut(s) 40, 269
NciI CCSGG 2 cut(s) 14, 242
NdeII GATC 3 cut(s) 150, 257, 321
NlaIII CATG 4 cut(s) 31, 103, 210, 317
NspI RCATGY 3 cut(s) 31, 210, 317
PaeI GCATGC 1 cut(s) 31
PfeI GAWTC 1 cut(s) 66
PflMI CCANNNNNTGG 1 cut(s) 218
PfoI TCCNGGA 1 cut(s) 240
PkrI GCNGC 3 cut(s) 33, 61, 235
PstI CTGCAG 1 cut(s) 36
PsuI RGATCY 1 cut(s) 150
SaqAI TTAA 2 cut(s) 141, 165
SatI GCNGC 3 cut(s) 32, 60, 234
Sau3AI GATC 3 cut(s) 150, 257, 321
ScrFI CCNGG 2 cut(s) 14, 242
SetI ASST 2 cut(s) 45, 293
SfaNI GCATC 1 cut(s) 281
SfcI CTRYAG 1 cut(s) 32
SphI GCATGC 1 cut(s) 31
Sse9I AATT 4 cut(s) 5, 117, 162, 281
SspMI CTAG 2 cut(s) 63, 137
StyD4I CCNGG 2 cut(s) 12, 240
TaaI ACNGT 1 cut(s) 308
TaqI TCGA 1 cut(s) 324
TasI AATT 4 cut(s) 5, 117, 162, 281
TfiI GAWTC 1 cut(s) 66
Tru1I TTAA 2 cut(s) 141, 165
Tru9I TTAA 2 cut(s) 141, 165
TseI GCWGC 3 cut(s) 31, 59, 233
TspDTI ATGAA 1 cut(s) 282
Van91I CCANNNNNTGG 1 cut(s) 218
XapI RAATTY 2 cut(s) 5, 281
XceI RCATGY 3 cut(s) 31, 210, 317
XspI CTAG 2 cut(s) 63, 137
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.