Rorug04G0179200

DNA-directed RNA polymerase III subunit

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_rugosa
GWHBQTZ00000004
OG0000459
Physical Location & Seq
Reverse (-)
31443173 .. 31446022
2850 bp
Loading structure...
UTR
Exon/CDS
Intron
Rorug04G0179200.1

Sequence Viewer

Length: 1128 bp
ATGGCTTCCTCCTCCACCCTTGTCCTCTCCACCCTCTTCTCTTCTTTCCCTCTCCAAAAAACCCTAAACCCAAAAACCAAGAACCCCTTCTCTCTCACTCCCCACAAACTCCCTAAACCTCCTTCTTCCCTGACCCTCAGTTGTTCGACGTTTCTGAAACCCAAAACCCATCACAATCAGATTCAACTGTGCAGGAGATTTCGAGCCCGCACCACCATCAGAGATGTCGATAAGGACGAGGAGGAGGAGCAGGCAGTTGTGGGAGAAGACTCGGCTGAGTTTCTCTTGTCAAAGCAGAAGCTGTCTTCCTGGCTTTATTTCTCTGCTATTCTGGGGACTGTTCTGTTTGTGCTCAACGTGGCTTGGATTGATAATTCCACCGGGTTTGGGAAGCCTTTCATCGAAGCGGTTTCGGAACTTTCGGATAGCCATGAGGTTGTAATGTTGCTCCTGATTCTCATATTTGCCATAGTCCATAGTGGTTTGGCTAGCCTACGAGACGCTGGTGAGAAGCTTATTGGAGAACGTGCTTTCCGCGTTTTGTTTGCAGGGACATCTTTACCATTGGCTGTTAGTACTGTTGTATATTTCATTAACCACAGATATGATGGAGTACAGTTATGGCAGCTCAAGGATGTATATGGTGTACATGAATTGGTGTGGTTGTCTAATTTTATTTCCTTCCTCTTCCTTTATCCATCGACTTTCAATCTACTAGAGGTAGCAGCTGTTGACAAGCCCAAAATGCATCTTTGGGAAACTGGGATTATGAGAATCACCAGGCATCCACAGCTTGTAGGGCAGGTGGTTTGGTGCTTGGCTCACACAATTTGGATCGGAAACTCGGTGACAGTGGCAGCTTCTATTGGTTTAATTGGGCACCACCTATTTGGTGCTTGGAATGGTGACAGGAGATTAGCTATAAGATATGGGGAAAACTTTGAAGTTGTGAAGAAGCGAACAAGTATTATACCTTTTGCAGCCATTATTGATGGCCGTCAAAAGTTGCCAAAAGATTACTACAAGGAATTTATTCGGTTGCCTTATTTTGTGATCACTGCATTGACGTTAGGTGCATACTTTGCACACCCCCTTATGCAGGCAGCCAGTTTTGGGCTCCATTGGTAG
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_3_Rpc31

Protein Analysis

375

Amino Acids

42.29

Weight (kDa)

9.2

Isoelectric Point (pI)

30.79

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
NnrU PF07298 147 - 366 6.8e-37 NnrU protein
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Publication-ready
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0000459)

Species Orthologous Gene IDs
arabidopsis_thaliana AT4G01590 AT4G01590 AT4G01590 AT4G35685
fragaria_vesca FvH4_2g26230 FvH4_3g43010 FvH4_3g43011 FvH4_4g18161 FvH4_4g18202 FvH4_5g23500 FvH4_6g36040 FvH4_6g36040 FvH4_6g36040
malus_domestica MD08G1165000.v1.1 MD08G1171800.v1.1 MD15G1357300.v1.1 MD15G1382800.v1.1
prunus_persica Prupe.1G504500_v2.0.a1 Prupe.1G504500_v2.0.a1 Prupe.1G504500_v2.0.a1 Prupe.1G504500_v2.0.a1 Prupe.1G504500_v2.0.a1 Prupe.1G504500_v2.0.a1 Prupe.1G582300_v2.0.a1 Prupe.6G034400_v2.0.a1 Prupe.6G034600_v2.0.a1
pyrus_communis pycom02g25390 pycom08g14650
rosa_chinensis RchiOBHm_Chr2g0143271 RchiOBHm_Chr4g0422341 RchiOBHm_Chr6g0253151 RchiOBHm_Chr6g0294801
rosa_laevigata RLG00000007621 RLG00000011839 RLG00000020015 RLG00000020019 RLG00000020023 RLG00000036652 RLG00000036658
rosa_multiflora Rmu_co8140216.1_g000001 Rmu_co8510555.1_g000002 Rmu_sc0003323.1_g000013 Rmu_sc0003323.1_g000024 Rmu_sc0003323.1_g000031 Rmu_sc0013245.1_g000016 Rmu_sc0030690.1_g000001
rosa_roxburghii Rroxscaffold_1G00005030 Rroxscaffold_2G00101900 Rroxscaffold_2G00102030 Rroxscaffold_4G00318680 Rroxscaffold_5G00364400 Rroxscaffold_5G00364410 Rroxscaffold_7G00173000 Rroxscaffold_7G00212110
rosa_rugosa Rorug04G0179200 Rorug05G0451000 Rorug05G0451400.1 Rorug05G0451500 Rorug06G0246900
rosa_samantha Rh1AG104900 Rh1CG244000 Rh1DG126500 Rh2AG432700 Rh2CG418500 Rh4AG238500 Rh4BG241700 Rh4BG242000 Rh4CG253500 Rh4CG253600 Rh4DG237400 Rh5AG505300 Rh5AG505500 Rh5BG527000 Rh5BG527200 Rh5BG527500 Rh5CG551000 Rh5CG551300 Rh5CG551800 Rh5DG539300 Rh5DG539900 Rh6AG057300 Rh6AG360500 Rh6BG051900 Rh6BG367200 Rh6CG049800 Rh6CG374200 Rh6DG046000
rosa_wichuraiana Rw1G009810 Rw5G047080 Rw5G047100 Rw6G031450

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AarI CACCTGC 1 cut(s) 793
Acc36I ACCTGC 1 cut(s) 793
AccB1I GGYRCC 1 cut(s) 879
AccII CGCG 1 cut(s) 537
AciI CCGC 3 cut(s) 208, 407, 535
AclWI GGATC 1 cut(s) 842
AcoI YGGCCR 1 cut(s) 994
AcsI RAATTY 1 cut(s) 1028
AfaI GTAC 3 cut(s) 577, 615, 648
AfiI CCNNNNNNNGG 3 cut(s) 387, 1099, 1113
AgsI TTSAA 3 cut(s) 185, 709, 944
AjnI CCWGG 2 cut(s) 308, 779
AjuI GAANNNNNNNTTGG 2 cut(s) 71, 103
AloI GAACNNNNNNTCC 2 cut(s) 516, 548
AluBI AGCT 7 cut(s) 301, 514, 628, 728, 793, 860, 920
AluI AGCT 7 cut(s) 301, 514, 628, 728, 793, 860, 920
Alw21I GWGCWC 1 cut(s) 354
Alw26I GTCTC 1 cut(s) 492
AlwI GGATC 1 cut(s) 842
AlwNI CAGNNNCTG 1 cut(s) 301
AoxI GGCC 1 cut(s) 994
ApeKI GCWGC 5 cut(s) 625, 725, 857, 980, 1103
ApoI RAATTY 1 cut(s) 1028
Asp700I GAANNNNTTC 3 cut(s) 86, 395, 1032
AsuC2I CCSGG 1 cut(s) 382
AsuHPI GGTGA 4 cut(s) 518, 769, 859, 917
AsuNHI GCTAGC 1 cut(s) 488
BaeGI GKGCMC 1 cut(s) 882
BanI GGYRCC 1 cut(s) 879
BanII GRGCYC 2 cut(s) 208, 1119
BbsI GAAGAC 2 cut(s) 273, 297
Bbv12I GWGCWC 1 cut(s) 354
BbvI GCAGC 5 cut(s) 637, 737, 869, 992, 1115
BccI CCATC 5 cut(s) 177, 224, 602, 706, 986
BceAI ACGGC 1 cut(s) 981
BciT130I CCWGG 2 cut(s) 310, 781
BclI TGATCA 1 cut(s) 1053
BcnI CCSGG 1 cut(s) 382
BcoDI GTCTC 1 cut(s) 492
BfaI CTAG 2 cut(s) 489, 716
BfuAI ACCTGC 1 cut(s) 793
BisI GCNGC 5 cut(s) 626, 726, 858, 981, 1104
BlsI GCNGC 5 cut(s) 627, 727, 859, 982, 1105
BmcAI AGTACT 1 cut(s) 577
Bme1390I CCNGG 3 cut(s) 310, 382, 781
BmiI GGNNCC 2 cut(s) 881, 1118
BmrFI CCNGG 3 cut(s) 310, 382, 781
BmrI ACTGGG 1 cut(s) 771
BmsI GCATC 2 cut(s) 757, 793
BmtI GCTAGC 1 cut(s) 492
BmuI ACTGGG 1 cut(s) 771
BpiI GAAGAC 2 cut(s) 273, 297
BpuEI CTTGAG 1 cut(s) 614
BpuMI CCSGG 1 cut(s) 382
Bsc4I CCNNNNNNNGG 3 cut(s) 387, 1099, 1113
Bse1I ACTGG 2 cut(s) 766, 1107
BseBI CCWGG 2 cut(s) 310, 781
BseGI GGATG 2 cut(s) 640, 784
BseLI CCNNNNNNNGG 3 cut(s) 387, 1099, 1113
BseMII CTCAG 2 cut(s) 151, 267
BseNI ACTGG 2 cut(s) 766, 1107
BseRI GAGGAG 3 cut(s) 254, 257, 260
BseSI GKGCMC 1 cut(s) 882
BseXI GCAGC 5 cut(s) 637, 737, 869, 992, 1115
BsgI GTGCAG 1 cut(s) 211
Bsh1236I CGCG 1 cut(s) 537
BshFI GGCC 1 cut(s) 996
BshNI GGYRCC 1 cut(s) 879
BsiHKAI GWGCWC 1 cut(s) 354
BsiSI CCGG 1 cut(s) 381
BslFI GGGAC 2 cut(s) 349, 565
BslI CCNNNNNNNGG 3 cut(s) 387, 1099, 1113
BsmAI GTCTC 1 cut(s) 492
BsmBI CGTCTC 1 cut(s) 492
BsmFI GGGAC 2 cut(s) 349, 565
BsnI GGCC 1 cut(s) 996
Bsp1286I GDGCHC 4 cut(s) 208, 354, 882, 1119
Bsp1407I TGTACA 1 cut(s) 646
Bsp143I GATC 2 cut(s) 834, 1053
BspACI CCGC 3 cut(s) 208, 407, 535
BspANI GGCC 1 cut(s) 996
BspCNI CTCAG 2 cut(s) 150, 268
BspFNI CGCG 1 cut(s) 537
BspLI GGNNCC 2 cut(s) 881, 1118
BspMI ACCTGC 1 cut(s) 793
BspOI GCTAGC 1 cut(s) 492
BspPI GGATC 1 cut(s) 842
BspT107I GGYRCC 1 cut(s) 879
BsrGI TGTACA 1 cut(s) 646
BsrI ACTGG 2 cut(s) 766, 1107
BssMI GATC 2 cut(s) 834, 1053
Bst2UI CCWGG 2 cut(s) 310, 781
Bst4CI ACNGT 5 cut(s) 189, 340, 580, 618, 853
Bst6I CTCTTC 3 cut(s) 41, 46, 692
BstAPI GCANNNNNTGC 1 cut(s) 1082
BstAUI TGTACA 1 cut(s) 646
BstC8I GCNNGC 4 cut(s) 208, 252, 490, 1101
BstDEI CTNAG 2 cut(s) 137, 276
BstENI CCTNNNNNAGG 1 cut(s) 1097
BstF5I GGATG 2 cut(s) 640, 784
BstFNI CGCG 1 cut(s) 537
BstKTI GATC 2 cut(s) 837, 1056
BstMAI GTCTC 1 cut(s) 492
BstMBI GATC 2 cut(s) 834, 1053
BstMWI GCNNNNNNNGC 4 cut(s) 745, 790, 799, 1082
BstNI CCWGG 2 cut(s) 310, 781
BstSCI CCNGG 3 cut(s) 308, 380, 779
BstSLI GKGCMC 1 cut(s) 882
BstUI CGCG 1 cut(s) 537
BstV1I GCAGC 5 cut(s) 637, 737, 869, 992, 1115
BstV2I GAAGAC 2 cut(s) 273, 297
BstXI CCANNNNNNTGG 1 cut(s) 890
BsuRI GGCC 1 cut(s) 996
BtsCI GGATG 2 cut(s) 640, 784
BtsI GCAGTG 1 cut(s) 1056
BtsIMutI CAGTG 2 cut(s) 858, 1056
BveI ACCTGC 1 cut(s) 793
Cac8I GCNNGC 4 cut(s) 208, 252, 490, 1101
CaiI CAGNNNCTG 1 cut(s) 301
CseI GACGC 1 cut(s) 509
Csp6I GTAC 3 cut(s) 576, 614, 647
CspCI CAANNNNNGTGG 2 cut(s) 367, 402
CviAII CATG 2 cut(s) 431, 650
CviQI GTAC 3 cut(s) 576, 614, 647
DdeI CTNAG 2 cut(s) 137, 276
DpnI GATC 2 cut(s) 836, 1055
DpnII GATC 2 cut(s) 834, 1053
EaeI YGGCCR 1 cut(s) 994
Eam1104I CTCTTC 3 cut(s) 41, 46, 692
EarI CTCTTC 3 cut(s) 41, 46, 692
Eco24I GRGCYC 2 cut(s) 208, 1119
EcoNI CCTNNNNNAGG 1 cut(s) 1097
EcoRII CCWGG 2 cut(s) 308, 779
EcoT22I ATGCAT 1 cut(s) 750
EcoT38I GRGCYC 2 cut(s) 208, 1119
Esp3I CGTCTC 1 cut(s) 492
FaeI CATG 2 cut(s) 434, 653
FalI AAGNNNNNCTT 2 cut(s) 71, 103
FaqI GGGAC 2 cut(s) 349, 565
FatI CATG 2 cut(s) 430, 649
FauI CCCGC 1 cut(s) 215
FbaI TGATCA 1 cut(s) 1053
Fnu4HI GCNGC 5 cut(s) 626, 726, 858, 981, 1104
FokI GGATG 2 cut(s) 647, 771
FriOI GRGCYC 2 cut(s) 208, 1119
Fsp4HI GCNGC 5 cut(s) 626, 726, 858, 981, 1104
FspBI CTAG 2 cut(s) 489, 716
GluI GCNGC 5 cut(s) 626, 726, 858, 981, 1104
HaeIII GGCC 1 cut(s) 996
HapII CCGG 1 cut(s) 381
HgaI GACGC 1 cut(s) 509
Hin1II CATG 2 cut(s) 434, 653
HincII GTYRAC 1 cut(s) 733
HindII GTYRAC 1 cut(s) 733
HindIII AAGCTT 1 cut(s) 512
HinfI GANTC 4 cut(s) 181, 269, 454, 774
HpaII CCGG 1 cut(s) 381
HphI GGTGA 4 cut(s) 518, 769, 859, 917
Hpy166II GTNNAC 2 cut(s) 647, 733
Hpy188I TCNGA 6 cut(s) 156, 180, 221, 415, 424, 839
Hpy188III TCNNGA 1 cut(s) 451
Hpy8I GTNNAC 2 cut(s) 647, 733
Hpy99I CGWCG 1 cut(s) 151
HpyAV CCTTC 3 cut(s) 97, 132, 691
HpyCH4III ACNGT 5 cut(s) 189, 340, 580, 618, 853
HpyCH4IV ACGT 4 cut(s) 149, 357, 526, 1067
HpyCH4V TGCA 8 cut(s) 192, 548, 748, 980, 1061, 1076, 1085, 1099
HpyF10VI GCNNNNNNNGC 4 cut(s) 745, 790, 799, 1082
HpyF3I CTNAG 2 cut(s) 137, 276
HpySE526I ACGT 4 cut(s) 149, 357, 526, 1067
Hsp92II CATG 2 cut(s) 434, 653
Ksp22I TGATCA 1 cut(s) 1053
Kzo9I GATC 2 cut(s) 834, 1053
LmnI GCTCC 3 cut(s) 247, 453, 1122
Lsp1109I GCAGC 5 cut(s) 637, 737, 869, 992, 1115
LweI GCATC 2 cut(s) 757, 793
MaeI CTAG 2 cut(s) 489, 716
MaeII ACGT 4 cut(s) 149, 357, 526, 1067
MaeIII GTNAC 2 cut(s) 847, 905
MalI GATC 2 cut(s) 836, 1055
MboI GATC 2 cut(s) 834, 1053
MboII GAAGA 7 cut(s) 28, 33, 117, 278, 297, 679, 964
MhlI GDGCHC 4 cut(s) 208, 354, 882, 1119
MluCI AATT 6 cut(s) 373, 653, 670, 828, 873, 1028
MlyI GAGTC 1 cut(s) 263
Mph1103I ATGCAT 1 cut(s) 750
MroXI GAANNNNTTC 3 cut(s) 86, 395, 1032
MseI TTAA 2 cut(s) 594, 872
MslI CAYNNNNRTG 1 cut(s) 603
MspA1I CMGCKG 1 cut(s) 728
MspI CCGG 1 cut(s) 381
MspR9I CCNGG 3 cut(s) 310, 382, 781
MvaI CCWGG 2 cut(s) 310, 781
MvnI CGCG 1 cut(s) 537
MwoI GCNNNNNNNGC 4 cut(s) 745, 790, 799, 1082
NciI CCSGG 1 cut(s) 382
NdeII GATC 2 cut(s) 834, 1053
NheI GCTAGC 1 cut(s) 488
NlaIII CATG 2 cut(s) 434, 653
NlaIV GGNNCC 2 cut(s) 881, 1118
NmeAIII GCCGAG 1 cut(s) 251
NmuCI GTSAC 2 cut(s) 847, 905
NsiI ATGCAT 1 cut(s) 750
PaqCI CACCTGC 1 cut(s) 793
PcsI WCGNNNNNNNCGW 1 cut(s) 234
PdmI GAANNNNTTC 3 cut(s) 86, 395, 1032
PfeI GAWTC 3 cut(s) 181, 454, 774
PkrI GCNGC 5 cut(s) 627, 727, 859, 982, 1105
PleI GAGTC 1 cut(s) 263
PpsI GAGTC 1 cut(s) 263
Psp6I CCWGG 2 cut(s) 308, 779
PspGI CCWGG 2 cut(s) 308, 779
PspN4I GGNNCC 2 cut(s) 881, 1118
PstNI CAGNNNCTG 1 cut(s) 301
PvuII CAGCTG 1 cut(s) 728
RsaI GTAC 3 cut(s) 577, 615, 648
RsaNI GTAC 3 cut(s) 576, 614, 647
RseI CAYNNNNRTG 1 cut(s) 603
SaqAI TTAA 2 cut(s) 594, 872
SatI GCNGC 5 cut(s) 626, 726, 858, 981, 1104
Sau3AI GATC 2 cut(s) 834, 1053
ScaI AGTACT 1 cut(s) 577
SchI GAGTC 1 cut(s) 263
ScrFI CCNGG 3 cut(s) 310, 382, 781
SduI GDGCHC 4 cut(s) 208, 354, 882, 1119
SfaNI GCATC 2 cut(s) 757, 793
SmiMI CAYNNNNRTG 1 cut(s) 603
SmlI CTYRAG 1 cut(s) 629
SmoI CTYRAG 1 cut(s) 629
Sse9I AATT 6 cut(s) 373, 653, 670, 828, 873, 1028
SsiI CCGC 3 cut(s) 208, 407, 535
SspMI CTAG 2 cut(s) 489, 716
StyD4I CCNGG 3 cut(s) 308, 380, 779
TaaI ACNGT 5 cut(s) 189, 340, 580, 618, 853
TaiI ACGT 4 cut(s) 152, 360, 529, 1070
TaqI TCGA 5 cut(s) 146, 202, 228, 402, 701
TasI AATT 6 cut(s) 373, 653, 670, 828, 873, 1028
TatI WGTACW 3 cut(s) 575, 613, 646
TfiI GAWTC 3 cut(s) 181, 454, 774
Tru1I TTAA 2 cut(s) 594, 872
Tru9I TTAA 2 cut(s) 594, 872
TscAI CASTG 2 cut(s) 858, 1063
TseFI GTSAC 2 cut(s) 847, 905
TseI GCWGC 5 cut(s) 625, 725, 857, 980, 1103
Tsp45I GTSAC 2 cut(s) 847, 905
TspDTI ATGAA 3 cut(s) 388, 580, 666
TspRI CASTG 2 cut(s) 858, 1063
XagI CCTNNNNNAGG 1 cut(s) 1097
XapI RAATTY 1 cut(s) 1028
XcmI CCANNNNNNNNNTGG 1 cut(s) 605
XmnI GAANNNNTTC 3 cut(s) 86, 395, 1032
XspI CTAG 2 cut(s) 489, 716
ZrmI AGTACT 1 cut(s) 577
Zsp2I ATGCAT 1 cut(s) 750
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.