Rorug01G0278100

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_rugosa
GWHBQTZ00000001
OG0012267
Physical Location & Seq
Forward (+)
39134471 .. 39136224
1754 bp
Loading structure...
UTR
Exon/CDS
Intron
Rorug01G0278100.1

Sequence Viewer

Length: 654 bp
ATGCCAGAACTTCGCCGATTTGCGCCTAATGTTCCAATTGTCCTTGTTGGGACAAAGCTTGATCTTCGTGAGGACATGCGCTATCTAGCTGATCATATGGGATCGAACATCATAACTTCTGCTCAGGGAGAGGAGTTGAGAAAGCAAATAGGAGCCGCAGCTTATATTGAATGCAGCTCTAAGACCCAACAGAATGTCAAAGCGATGTTTGACACTGCCATCAAGGCTGTTCTTCAACCTCCAAGAAGGAAGGATATGGTTAAGCAGAAAAGGCACCGAAGGATAATAAACATGACAAGTATCCCCACCAGACTGATTTGTTTCATCAACCAGGTAAACTTGAAGGTCTTTCGTGGACCACTAGTCGATGAGATTCACCAAGAGTTCAGTTCATGGATCTATCAGGTCACTAGACTTTACAGGGACAAACAACACGCGGAAGTTGAGTTCACTATACTTTTCAAGAGCAAACGTGAAAGAAGAAAAGAAAACAAAGCTTTGACTATGGAATTGTTGGCTGTGGCATATTCGTCCCTTGTAGCCAAAATGATGGAGATTATATATAGGTTGGTCATGCTGGAATTTTCAGCCACACAGAAGTATTCTCTTGCACCTAATTCAACTTACAATGTGGAAGAGGCTGGTGATCTGTAA
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

217

Amino Acids

25.17

Weight (kDa)

9.64

Isoelectric Point (pI)

47.78

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Ras PF00071 2 - 78 1.8e-11 Ras family
Glyco_hydro_38C PF07748 111 - 159 8.9e-08 Glycosyl hydrolases family 38 C-terminal domain
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)
AccB1I GGYRCC 1 cut(s) 273
AccII CGCG 1 cut(s) 437
AciI CCGC 2 cut(s) 156, 437
AclWI GGATC 2 cut(s) 109, 404
AcsI RAATTY 1 cut(s) 581
AgsI TTSAA 5 cut(s) 170, 236, 343, 463, 621
AhdI GACNNNNNGTC 1 cut(s) 362
AhlI ACTAGT 1 cut(s) 361
AjnI CCWGG 1 cut(s) 330
AloI GAACNNNNNNTCC 2 cut(s) 431, 463
AluBI AGCT 5 cut(s) 58, 89, 161, 177, 497
AluI AGCT 5 cut(s) 58, 89, 161, 177, 497
AlwI GGATC 2 cut(s) 109, 404
ApeKI GCWGC 2 cut(s) 158, 174
ApoI RAATTY 1 cut(s) 581
AspLEI GCGC 2 cut(s) 25, 81
AspS9I GGNCC 1 cut(s) 356
AsuHPI GGTGA 1 cut(s) 368
AvaII GGWCC 1 cut(s) 356
BanI GGYRCC 1 cut(s) 273
BbvI GCAGC 2 cut(s) 170, 186
BccI CCATC 2 cut(s) 227, 544
BciT130I CCWGG 1 cut(s) 332
BciVI GTATCC 1 cut(s) 311
BclI TGATCA 1 cut(s) 91
BcuI ACTAGT 1 cut(s) 361
BfaI CTAG 3 cut(s) 86, 362, 411
BfuI GTATCC 1 cut(s) 311
BglI GCCNNNNNGGC 1 cut(s) 224
BisI GCNGC 3 cut(s) 156, 159, 175
BlsI GCNGC 3 cut(s) 157, 160, 176
Bme1390I CCNGG 1 cut(s) 332
Bme18I GGWCC 1 cut(s) 356
BmeRI GACNNNNNGTC 1 cut(s) 362
BmgT120I GGNCC 1 cut(s) 356
BmiI GGNNCC 2 cut(s) 154, 275
BmrFI CCNGG 1 cut(s) 332
Bpu10I CCTNAGC 1 cut(s) 123
BseBI CCWGG 1 cut(s) 332
BseMII CTCAG 1 cut(s) 137
BseRI GAGGAG 1 cut(s) 146
BseXI GCAGC 2 cut(s) 170, 186
Bsh1236I CGCG 1 cut(s) 437
BshNI GGYRCC 1 cut(s) 273
BslFI GGGAC 3 cut(s) 64, 437, 517
BsmFI GGGAC 3 cut(s) 64, 437, 517
BsmI GAATGC 1 cut(s) 176
Bsp143I GATC 5 cut(s) 61, 91, 101, 396, 646
BspACI CCGC 2 cut(s) 156, 437
BspCNI CTCAG 1 cut(s) 136
BspFNI CGCG 1 cut(s) 437
BspLI GGNNCC 2 cut(s) 154, 275
BspPI GGATC 2 cut(s) 109, 404
BspT107I GGYRCC 1 cut(s) 273
BssMI GATC 5 cut(s) 61, 91, 101, 396, 646
Bst2UI CCWGG 1 cut(s) 332
Bst6I CTCTTC 1 cut(s) 630
BstDEI CTNAG 2 cut(s) 123, 180
BstFNI CGCG 1 cut(s) 437
BstHHI GCGC 2 cut(s) 25, 81
BstKTI GATC 5 cut(s) 64, 94, 104, 399, 649
BstMBI GATC 5 cut(s) 61, 91, 101, 396, 646
BstMWI GCNNNNNNNGC 2 cut(s) 224, 271
BstNI CCWGG 1 cut(s) 332
BstNSI RCATGY 1 cut(s) 79
BstSCI CCNGG 1 cut(s) 330
BstUI CGCG 1 cut(s) 437
BstV1I GCAGC 2 cut(s) 170, 186
BstX2I RGATCY 1 cut(s) 396
BstXI CCANNNNNNTGG 1 cut(s) 550
BstYI RGATCY 1 cut(s) 396
BsuI GTATCC 1 cut(s) 311
BtgZI GCGATG 1 cut(s) 218
BtsI GCAGTG 1 cut(s) 213
BtsIMutI CAGTG 1 cut(s) 213
CfoI GCGC 2 cut(s) 25, 81
Cfr13I GGNCC 1 cut(s) 356
CsiI ACCWGGT 1 cut(s) 330
CviAII CATG 4 cut(s) 76, 292, 393, 574
DdeI CTNAG 2 cut(s) 123, 180
DpnI GATC 5 cut(s) 63, 93, 103, 398, 648
DpnII GATC 5 cut(s) 61, 91, 101, 396, 646
DriI GACNNNNNGTC 1 cut(s) 362
Eam1104I CTCTTC 1 cut(s) 630
Eam1105I GACNNNNNGTC 1 cut(s) 362
EarI CTCTTC 1 cut(s) 630
Eco47I GGWCC 1 cut(s) 356
EcoRII CCWGG 1 cut(s) 330
FaeI CATG 4 cut(s) 79, 295, 396, 577
FaqI GGGAC 3 cut(s) 64, 437, 517
FatI CATG 4 cut(s) 75, 291, 392, 573
FauNDI CATATG 1 cut(s) 96
FbaI TGATCA 1 cut(s) 91
Fnu4HI GCNGC 3 cut(s) 156, 159, 175
Fsp4HI GCNGC 3 cut(s) 156, 159, 175
FspBI CTAG 3 cut(s) 86, 362, 411
GlaI GCGC 2 cut(s) 24, 80
GluI GCNGC 3 cut(s) 156, 159, 175
HhaI GCGC 2 cut(s) 25, 81
Hin1II CATG 4 cut(s) 79, 295, 396, 577
Hin6I GCGC 2 cut(s) 23, 79
HinP1I GCGC 2 cut(s) 23, 79
HindIII AAGCTT 2 cut(s) 56, 495
HinfI GANTC 1 cut(s) 373
HphI GGTGA 1 cut(s) 368
Hpy166II GTNNAC 3 cut(s) 337, 356, 450
Hpy188III TCNNGA 2 cut(s) 68, 463
Hpy8I GTNNAC 3 cut(s) 337, 356, 450
HpyAV CCTTC 4 cut(s) 240, 244, 273, 337
HpyCH4IV ACGT 1 cut(s) 472
HpyCH4V TGCA 2 cut(s) 174, 611
HpyF10VI GCNNNNNNNGC 2 cut(s) 224, 271
HpyF3I CTNAG 2 cut(s) 123, 180
HpySE526I ACGT 1 cut(s) 472
Hsp92II CATG 4 cut(s) 79, 295, 396, 577
HspAI GCGC 2 cut(s) 23, 79
Ksp22I TGATCA 1 cut(s) 91
Kzo9I GATC 5 cut(s) 61, 91, 101, 396, 646
LmnI GCTCC 1 cut(s) 152
LpnPI CCDG 9 cut(s) 18, 110, 317, 322, 344, 389, 406, 563, 627
Lsp1109I GCAGC 2 cut(s) 170, 186
MabI ACCWGGT 1 cut(s) 330
MaeI CTAG 3 cut(s) 86, 362, 411
MaeII ACGT 1 cut(s) 472
MaeIII GTNAC 1 cut(s) 406
MalI GATC 5 cut(s) 63, 93, 103, 398, 648
MboI GATC 5 cut(s) 61, 91, 101, 396, 646
MboII GAAGA 4 cut(s) 56, 224, 492, 647
MfeI CAATTG 1 cut(s) 36
MflI RGATCY 1 cut(s) 396
MluCI AATT 4 cut(s) 36, 509, 581, 616
MnlI CCTC 4 cut(s) 64, 124, 249, 631
MseI TTAA 1 cut(s) 261
MspR9I CCNGG 1 cut(s) 332
MunI CAATTG 1 cut(s) 36
Mva1269I GAATGC 1 cut(s) 176
MvaI CCWGG 1 cut(s) 332
MvnI CGCG 1 cut(s) 437
MwoI GCNNNNNNNGC 2 cut(s) 224, 271
NdeI CATATG 1 cut(s) 96
NdeII GATC 5 cut(s) 61, 91, 101, 396, 646
NlaIII CATG 4 cut(s) 79, 295, 396, 577
NlaIV GGNNCC 2 cut(s) 154, 275
NmuCI GTSAC 1 cut(s) 406
NspI RCATGY 1 cut(s) 79
PctI GAATGC 1 cut(s) 176
PfeI GAWTC 1 cut(s) 373
PkrI GCNGC 3 cut(s) 157, 160, 176
Psp6I CCWGG 1 cut(s) 330
PspGI CCWGG 1 cut(s) 330
PspN4I GGNNCC 2 cut(s) 154, 275
PspPI GGNCC 1 cut(s) 356
PsuI RGATCY 1 cut(s) 396
SaqAI TTAA 1 cut(s) 261
SatI GCNGC 3 cut(s) 156, 159, 175
Sau3AI GATC 5 cut(s) 61, 91, 101, 396, 646
Sau96I GGNCC 1 cut(s) 356
ScrFI CCNGG 1 cut(s) 332
SexAI ACCWGGT 1 cut(s) 330
SinI GGWCC 1 cut(s) 356
SpeI ACTAGT 1 cut(s) 361
Sse9I AATT 4 cut(s) 36, 509, 581, 616
SsiI CCGC 2 cut(s) 156, 437
SspMI CTAG 3 cut(s) 86, 362, 411
StyD4I CCNGG 1 cut(s) 330
TaiI ACGT 1 cut(s) 475
TaqI TCGA 2 cut(s) 104, 366
TasI AATT 4 cut(s) 36, 509, 581, 616
TauI GCSGC 1 cut(s) 158
TfiI GAWTC 1 cut(s) 373
Tru1I TTAA 1 cut(s) 261
Tru9I TTAA 1 cut(s) 261
TscAI CASTG 1 cut(s) 220
TseFI GTSAC 1 cut(s) 406
TseI GCWGC 2 cut(s) 158, 174
Tsp45I GTSAC 1 cut(s) 406
TspDTI ATGAA 2 cut(s) 313, 381
TspRI CASTG 1 cut(s) 220
VpaK11BI GGWCC 1 cut(s) 356
XapI RAATTY 1 cut(s) 581
XceI RCATGY 1 cut(s) 79
XspI CTAG 3 cut(s) 86, 362, 411
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.