Rorug01G0043200

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
OG0006658
Physical Location & Seq
Forward (+)
7161825 .. 7162835
1011 bp
Loading structure...
UTR
Exon/CDS
Intron
Rorug01G0043200.1

Sequence Viewer

Length: 1011 bp
ATGGGCTTTTCACCATTCTTCCCAAACCCTCTGTTTCCTCCTGTCAAAAACCCTAACAAGCGTCGTGCTTCACCGCCACCAAGTAAGAAGCAAAAGGTAGCTGATGATGAGATCGACACAGATCAAGAAGGCATTGAGCAACTCCGCGACGTCGTTTCGGTCAGTGGAGTCGATCTTGTGGAAGAGCAAGAGCGCATGCTGTTGCTTTCGGGGCCCAAGAAGCAGCAAGCATCTCGAAAACTTCTGCTTCAAGAAAACCAAGAAGGGCTGGTTTTGCAGACGATTCCCCTGCAGAAAAAGTTGGCGGGAATCATGGGGAGGTGTGGTTTGAGAATTGGTGTTGACAAAGATGTGGAGAGATGCTTGTCAATGTGTGTGGAGGAGAGAATGAGGCGGATCATATGCAATTTGATTAGACAGTCGAAGCAGCGGGTTGATTGCGAAAAATCGAGACACCACACTGTTTCTACATCTGATGTGAAGCAAGAAATTATGATTCTCAACAAGAAAGCTAGGGAAGAGTTGCTGGAAAAGGCTCAGAAGCTTAATGAAGCTAAGGTTAGCACTAACGGATTTGAGGGTGTTCAGGATAAACATGACGATGCAGATGACAGAATGAGGAGAAGTACAGCAGCAGCAAATGTTGCTGCCCTTGCTGCTCTTGGAGGACATGACATATTGGCGAAATGGAAACTTAAGGCGGATCAGCTATCCCGGGAGAAGCGTCGAGGTAAAGATGTAAACCCCCAGGCTACATCAACTGTTGGAAGAACAATGAATGGCAATGTAGAAGCAGAGAAAAGGGGCGGTGTAGAAGCTTTGGTGTCTGCAGCTGGGAGTGCTGTTGGAAAGTATGGGAGGAATGCCCAAGTTATGATGATGCCTCAAACAAAGGTGGCTAGTACTCGTAGTATATCTGTCAAGGATGTGATTGCTGTTCTGGAAAAGGAATCTCAGACGTCCAAGTCTACTTTAATATATTTGCTAATGAACACTGCAGCCGGTGAATAA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
GO:0000419 GO:0000428 GO:0003674 GO:0003824 GO:0003899 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005666 GO:0005730 GO:0006139 GO:0006259 GO:0006304 GO:0006305 GO:0006306 GO:0006396 GO:0006725 GO:0006807 GO:0006950 GO:0006952 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009605 GO:0009607 GO:0009620 GO:0009892 GO:0009987 GO:0010033 GO:0010467 GO:0010468 GO:0010605 GO:0010608 GO:0010629 GO:0014070 GO:0016070 GO:0016246 GO:0016441 GO:0016458 GO:0016604 GO:0016740 GO:0016772 GO:0016779 GO:0018130 GO:0019222 GO:0019438 GO:0030422 GO:0030880 GO:0031047 GO:0031050 GO:0031974 GO:0031981 GO:0032259 GO:0032774 GO:0032991 GO:0034062 GO:0034641 GO:0034654 GO:0035194 GO:0040029 GO:0042221 GO:0043170 GO:0043207 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0043331 GO:0043412 GO:0043414 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044271 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044451 GO:0044464 GO:0044728 GO:0046483 GO:0048519 GO:0050789 GO:0050832 GO:0050896 GO:0051704 GO:0051707 GO:0051716 GO:0055029 GO:0060255 GO:0061695 GO:0065007 GO:0070013 GO:0070887 GO:0070918 GO:0071310 GO:0071359 GO:0071407 GO:0071704 GO:0090304 GO:0097747 GO:0098542 GO:0140098 GO:1901360 GO:1901362 GO:1901576 GO:1901698 GO:1901699 GO:1902494 GO:1990234
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
DUF3223 RNA_pol_Rpb1_1 RNA_pol_Rpb1_2 RNA_pol_Rpb1_3 RNA_pol_Rpb1_5

Protein Analysis

336

Amino Acids

37.13

Weight (kDa)

9.45

Isoelectric Point (pI)

47.16

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
TAF4 PF05236 48 - 327 9e-46 Transcription initiation factor TFIID component TAF4 family
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)
AasI GACNNNNNNGTC 1 cut(s) 964
AatII GACGTC 2 cut(s) 153, 962
AccI GTMKAC 1 cut(s) 968
AccII CGCG 1 cut(s) 147
AciI CCGC 7 cut(s) 74, 145, 305, 394, 430, 701, 807
AclWI GGATC 2 cut(s) 404, 711
AcyI GRCGYC 2 cut(s) 150, 959
AfaI GTAC 2 cut(s) 628, 904
AflII CTTAAG 1 cut(s) 695
AgsI TTSAA 1 cut(s) 251
AjnI CCWGG 1 cut(s) 747
AluBI AGCT 7 cut(s) 101, 512, 544, 554, 709, 818, 833
AluI AGCT 7 cut(s) 101, 512, 544, 554, 709, 818, 833
Alw26I GTCTC 1 cut(s) 445
AlwI GGATC 2 cut(s) 404, 711
Ama87I CYCGRG 1 cut(s) 714
AoxI GGCC 1 cut(s) 212
ApaI GGGCCC 1 cut(s) 216
ApeKI GCWGC 8 cut(s) 223, 427, 632, 635, 647, 656, 830, 998
AspLEI GCGC 1 cut(s) 195
AspS9I GGNCC 2 cut(s) 212, 213
AsuC2I CCSGG 2 cut(s) 715, 716
AsuHPI GGTGA 2 cut(s) 3, 63
AvaI CYCGRG 1 cut(s) 714
BaeGI GKGCMC 1 cut(s) 216
BanII GRGCYC 1 cut(s) 216
BbvI GCAGC 7 cut(s) 235, 439, 634, 643, 644, 647, 842
BcgI CGANNNNNNTGC 4 cut(s) 215, 249, 271, 305
BciT130I CCWGG 1 cut(s) 749
BcnI CCSGG 2 cut(s) 715, 716
BcoDI GTCTC 1 cut(s) 445
BfaI CTAG 2 cut(s) 513, 900
BfmI CTRYAG 3 cut(s) 290, 828, 996
BfrI CTTAAG 1 cut(s) 695
BisI GCNGC 8 cut(s) 224, 428, 633, 636, 648, 657, 831, 999
BlsI GCNGC 8 cut(s) 225, 429, 634, 637, 649, 658, 832, 1000
BmcAI AGTACT 1 cut(s) 904
Bme1390I CCNGG 3 cut(s) 715, 716, 749
BmeT110I CYCGRG 1 cut(s) 714
BmgT120I GGNCC 2 cut(s) 212, 213
BmiI GGNNCC 2 cut(s) 213, 214
BmrFI CCNGG 3 cut(s) 715, 716, 749
BmsI GCATC 4 cut(s) 239, 350, 592, 870
Bpu10I CCTNAGC 1 cut(s) 555
BpuMI CCSGG 2 cut(s) 715, 716
BsaHI GRCGYC 2 cut(s) 150, 959
BsaJI CCNNGG 2 cut(s) 714, 747
BsaXI ACNNNNNCTCC 2 cut(s) 310, 340
Bse118I RCCGGY 1 cut(s) 1001
Bse3DI GCAATG 1 cut(s) 790
BseBI CCWGG 1 cut(s) 749
BseDI CCNNGG 2 cut(s) 714, 747
BseGI GGATG 1 cut(s) 931
BseMI GCAATG 1 cut(s) 790
BseMII CTCAG 2 cut(s) 551, 968
BseRI GAGGAG 2 cut(s) 395, 634
BseSI GKGCMC 1 cut(s) 216
BseXI GCAGC 7 cut(s) 235, 439, 634, 643, 644, 647, 842
BseYI CCCAGC 1 cut(s) 833
Bsh1236I CGCG 1 cut(s) 147
BshFI GGCC 1 cut(s) 214
BsiHKCI CYCGRG 1 cut(s) 714
BsiSI CCGG 2 cut(s) 715, 1002
BsmAI GTCTC 1 cut(s) 445
BsmI GAATGC 1 cut(s) 868
BsnI GGCC 1 cut(s) 214
BsoBI CYCGRG 1 cut(s) 714
Bsp120I GGGCCC 1 cut(s) 212
Bsp1286I GDGCHC 1 cut(s) 216
Bsp143I GATC 5 cut(s) 111, 121, 172, 396, 703
BspACI CCGC 7 cut(s) 74, 145, 305, 394, 430, 701, 807
BspANI GGCC 1 cut(s) 214
BspCNI CTCAG 2 cut(s) 550, 967
BspFNI CGCG 1 cut(s) 147
BspLI GGNNCC 2 cut(s) 213, 214
BspMAI CTGCAG 3 cut(s) 294, 832, 1000
BspPI GGATC 2 cut(s) 404, 711
BspQI GCTCTTC 1 cut(s) 177
BspTI CTTAAG 1 cut(s) 695
BsrDI GCAATG 1 cut(s) 790
BsrFI RCCGGY 1 cut(s) 1001
BssAI RCCGGY 1 cut(s) 1001
BssECI CCNNGG 2 cut(s) 714, 747
BssMI GATC 5 cut(s) 111, 121, 172, 396, 703
BssNI GRCGYC 2 cut(s) 150, 959
Bst2UI CCWGG 1 cut(s) 749
Bst4CI ACNGT 3 cut(s) 420, 463, 763
Bst6I CTCTTC 2 cut(s) 177, 513
BstACI GRCGYC 2 cut(s) 150, 959
BstAFI CTTAAG 1 cut(s) 695
BstAPI GCANNNNNTGC 1 cut(s) 644
BstC8I GCNNGC 2 cut(s) 197, 228
BstDEI CTNAG 3 cut(s) 537, 555, 954
BstF5I GGATG 1 cut(s) 931
BstFNI CGCG 1 cut(s) 147
BstHHI GCGC 1 cut(s) 195
BstKTI GATC 5 cut(s) 114, 124, 175, 399, 706
BstMAI GTCTC 1 cut(s) 445
BstMBI GATC 5 cut(s) 111, 121, 172, 396, 703
BstMWI GCNNNNNNNGC 7 cut(s) 211, 220, 274, 644, 653, 656, 839
BstNI CCWGG 1 cut(s) 749
BstNSI RCATGY 1 cut(s) 199
BstSCI CCNGG 3 cut(s) 713, 714, 747
BstSFI CTRYAG 3 cut(s) 290, 828, 996
BstSLI GKGCMC 1 cut(s) 216
BstUI CGCG 1 cut(s) 147
BstV1I GCAGC 7 cut(s) 235, 439, 634, 643, 644, 647, 842
BsuRI GGCC 1 cut(s) 214
BtsCI GGATG 1 cut(s) 931
BtsI GCAGTG 1 cut(s) 993
BtsIMutI CAGTG 3 cut(s) 169, 459, 993
Cac8I GCNNGC 2 cut(s) 197, 228
CfoI GCGC 1 cut(s) 195
Cfr10I RCCGGY 1 cut(s) 1001
Cfr13I GGNCC 2 cut(s) 212, 213
Cfr9I CCCGGG 1 cut(s) 714
CseI GACGC 2 cut(s) 50, 713
Csp6I GTAC 2 cut(s) 627, 903
CspCI CAANNNNNGTGG 2 cut(s) 357, 392
CviAII CATG 4 cut(s) 196, 313, 596, 671
CviQI GTAC 2 cut(s) 627, 903
DdeI CTNAG 3 cut(s) 537, 555, 954
DpnI GATC 5 cut(s) 113, 123, 174, 398, 705
DpnII GATC 5 cut(s) 111, 121, 172, 396, 703
DrdI GACNNNNNNGTC 1 cut(s) 964
DseDI GACNNNNNNGTC 1 cut(s) 964
Eam1104I CTCTTC 2 cut(s) 177, 513
EarI CTCTTC 2 cut(s) 177, 513
EciI GGCGGA 2 cut(s) 409, 716
Eco24I GRGCYC 1 cut(s) 216
Eco88I CYCGRG 1 cut(s) 714
EcoO109I RGGNCCY 1 cut(s) 212
EcoRII CCWGG 1 cut(s) 747
EcoT38I GRGCYC 1 cut(s) 216
FaeI CATG 4 cut(s) 199, 316, 599, 674
FatI CATG 4 cut(s) 195, 312, 595, 670
FauI CCCGC 2 cut(s) 298, 423
FauNDI CATATG 1 cut(s) 401
FblI GTMKAC 1 cut(s) 968
Fnu4HI GCNGC 8 cut(s) 224, 428, 633, 636, 648, 657, 831, 999
FokI GGATG 1 cut(s) 938
FriOI GRGCYC 1 cut(s) 216
Fsp4HI GCNGC 8 cut(s) 224, 428, 633, 636, 648, 657, 831, 999
FspBI CTAG 2 cut(s) 513, 900
GlaI GCGC 1 cut(s) 194
GluI GCNGC 8 cut(s) 224, 428, 633, 636, 648, 657, 831, 999
GsaI CCCAGC 1 cut(s) 837
HaeIII GGCC 1 cut(s) 214
HapII CCGG 2 cut(s) 715, 1002
HgaI GACGC 2 cut(s) 50, 713
HhaI GCGC 1 cut(s) 195
Hin1I GRCGYC 2 cut(s) 150, 959
Hin1II CATG 4 cut(s) 199, 316, 599, 674
Hin6I GCGC 1 cut(s) 193
HinP1I GCGC 1 cut(s) 193
HincII GTYRAC 1 cut(s) 343
HindII GTYRAC 1 cut(s) 343
HindIII AAGCTT 2 cut(s) 542, 816
HinfI GANTC 5 cut(s) 168, 283, 309, 496, 950
HpaII CCGG 2 cut(s) 715, 1002
HphI GGTGA 2 cut(s) 3, 63
Hpy166II GTNNAC 3 cut(s) 343, 742, 969
Hpy188I TCNGA 3 cut(s) 475, 540, 957
Hpy188III TCNNGA 6 cut(s) 125, 234, 251, 450, 587, 941
Hpy8I GTNNAC 3 cut(s) 343, 742, 969
Hpy99I CGWCG 4 cut(s) 66, 152, 155, 729
HpyAV CCTTC 2 cut(s) 122, 257
HpyCH4III ACNGT 3 cut(s) 420, 463, 763
HpyCH4IV ACGT 2 cut(s) 150, 959
HpyCH4V TGCA 6 cut(s) 277, 292, 405, 605, 830, 998
HpyF10VI GCNNNNNNNGC 7 cut(s) 211, 220, 274, 644, 653, 656, 839
HpyF3I CTNAG 3 cut(s) 537, 555, 954
HpySE526I ACGT 2 cut(s) 150, 959
Hsp92I GRCGYC 2 cut(s) 150, 959
Hsp92II CATG 4 cut(s) 199, 316, 599, 674
HspAI GCGC 1 cut(s) 193
Kzo9I GATC 5 cut(s) 111, 121, 172, 396, 703
LguI GCTCTTC 1 cut(s) 177
Lsp1109I GCAGC 7 cut(s) 235, 439, 634, 643, 644, 647, 842
LweI GCATC 4 cut(s) 239, 350, 592, 870
MaeI CTAG 2 cut(s) 513, 900
MaeII ACGT 2 cut(s) 150, 959
MalI GATC 5 cut(s) 113, 123, 174, 398, 705
MboI GATC 5 cut(s) 111, 121, 172, 396, 703
MboII GAAGA 4 cut(s) 10, 194, 530, 780
MhlI GDGCHC 1 cut(s) 216
MluCI AATT 3 cut(s) 333, 406, 489
MlyI GAGTC 1 cut(s) 177
MmeI TCCRAC 2 cut(s) 745, 826
MseI TTAA 3 cut(s) 546, 696, 974
MslI CAYNNNNRTG 1 cut(s) 600
MspA1I CMGCKG 2 cut(s) 430, 833
MspCI CTTAAG 1 cut(s) 695
MspI CCGG 2 cut(s) 715, 1002
MspR9I CCNGG 3 cut(s) 715, 716, 749
Mva1269I GAATGC 1 cut(s) 868
MvaI CCWGG 1 cut(s) 749
MvnI CGCG 1 cut(s) 147
MwoI GCNNNNNNNGC 7 cut(s) 211, 220, 274, 644, 653, 656, 839
NciI CCSGG 2 cut(s) 715, 716
NdeI CATATG 1 cut(s) 401
NdeII GATC 5 cut(s) 111, 121, 172, 396, 703
NlaIII CATG 4 cut(s) 199, 316, 599, 674
NlaIV GGNNCC 2 cut(s) 213, 214
NspI RCATGY 1 cut(s) 199
PaeI GCATGC 1 cut(s) 199
PciSI GCTCTTC 1 cut(s) 177
PctI GAATGC 1 cut(s) 868
PfeI GAWTC 4 cut(s) 283, 309, 496, 950
PkrI GCNGC 8 cut(s) 225, 429, 634, 637, 649, 658, 832, 1000
PleI GAGTC 1 cut(s) 176
PpsI GAGTC 1 cut(s) 176
Psp6I CCWGG 1 cut(s) 747
PspFI CCCAGC 1 cut(s) 833
PspGI CCWGG 1 cut(s) 747
PspN4I GGNNCC 2 cut(s) 213, 214
PspOMI GGGCCC 1 cut(s) 212
PspPI GGNCC 2 cut(s) 212, 213
PstI CTGCAG 3 cut(s) 294, 832, 1000
PvuII CAGCTG 1 cut(s) 833
RsaI GTAC 2 cut(s) 628, 904
RsaNI GTAC 2 cut(s) 627, 903
RseI CAYNNNNRTG 1 cut(s) 600
SapI GCTCTTC 1 cut(s) 177
SaqAI TTAA 3 cut(s) 546, 696, 974
SatI GCNGC 8 cut(s) 224, 428, 633, 636, 648, 657, 831, 999
Sau3AI GATC 5 cut(s) 111, 121, 172, 396, 703
Sau96I GGNCC 2 cut(s) 212, 213
ScaI AGTACT 1 cut(s) 904
SchI GAGTC 1 cut(s) 177
ScrFI CCNGG 3 cut(s) 715, 716, 749
SduI GDGCHC 1 cut(s) 216
SfaNI GCATC 4 cut(s) 239, 350, 592, 870
SfcI CTRYAG 3 cut(s) 290, 828, 996
SmaI CCCGGG 1 cut(s) 716
SmiMI CAYNNNNRTG 1 cut(s) 600
SmlI CTYRAG 1 cut(s) 695
SmoI CTYRAG 1 cut(s) 695
SphI GCATGC 1 cut(s) 199
Sse9I AATT 3 cut(s) 333, 406, 489
SsiI CCGC 7 cut(s) 74, 145, 305, 394, 430, 701, 807
SspMI CTAG 2 cut(s) 513, 900
StyD4I CCNGG 3 cut(s) 713, 714, 747
TaaI ACNGT 3 cut(s) 420, 463, 763
TaiI ACGT 2 cut(s) 153, 962
TaqI TCGA 6 cut(s) 114, 171, 235, 422, 449, 727
TaqII GACCGA 1 cut(s) 148
TasI AATT 3 cut(s) 333, 406, 489
TatI WGTACW 2 cut(s) 626, 902
TfiI GAWTC 4 cut(s) 283, 309, 496, 950
Tru1I TTAA 3 cut(s) 546, 696, 974
Tru9I TTAA 3 cut(s) 546, 696, 974
TscAI CASTG 3 cut(s) 169, 466, 1000
TseI GCWGC 8 cut(s) 223, 427, 632, 635, 647, 656, 830, 998
TspDTI ATGAA 3 cut(s) 564, 791, 1004
TspGWI ACGGA 1 cut(s) 585
TspMI CCCGGG 1 cut(s) 714
TspRI CASTG 3 cut(s) 169, 466, 1000
Vha464I CTTAAG 1 cut(s) 695
XceI RCATGY 1 cut(s) 199
XmaI CCCGGG 1 cut(s) 714
XmiI GTMKAC 1 cut(s) 968
XspI CTAG 2 cut(s) 513, 900
ZraI GACGTC 2 cut(s) 151, 960
ZrmI AGTACT 1 cut(s) 904
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.