Rorug06G0246900

DNA-directed RNA polymerase III subunit

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_rugosa
GWHBQTZ00000006
OG0000459
Physical Location & Seq
Reverse (-)
39333507 .. 39338588
5082 bp
Loading structure...
UTR
Exon/CDS
Intron
Rorug06G0246900.1

Sequence Viewer

Length: 474 bp
ATGAAGATACTAAAGGCTGATGTCGGAGCACTTGACAATTTTGAAGTGCTCGAATTCCTAAAATCTAAAGGGGCCTCAAAGAATGATCTATCACGGGTGGCAAGAGTTACACAATCAGAGTATAAGGTTTTCGATTATTTGGCTGATACTCCTGCTGGTACTCACACAAGAGAGAGTGTTGAAGAGTTCAAGGAGAAGTGTAGACAATATGACCTTGGGAATGATAAGATCCTCAATATTATTAACACTAGGCCAGCTTCAGTGGTTGAAATATATGCGATCGTGGAGGATAATGCTGATGAGCTAGTAGAGCTGGTTGCAGAGGTCTTGACTCCTCCAACTGTACCATCCCCTAAACCTGAAGCCGATACTAATGAGATTGATGCAGAGACCATGAACGTGGAACAAATTGAACAAAATGATGGCAATAAAGAAAAACCTGAATTTGGGGAAGCACCAATGGAGACTAGTTGA
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

157

Amino Acids

17.49

Weight (kDa)

4.39

Isoelectric Point (pI)

33.85

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RNA_pol_Rpb4 PF03874 11 - 100 9.5e-11 RNA polymerase Rpb4
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
Loading...
Style Settings
Image
Tree File
Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

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)
AccI GTMKAC 1 cut(s) 202
AclWI GGATC 1 cut(s) 223
AcsI RAATTY 2 cut(s) 53, 443
AcuI CTGAAG 2 cut(s) 243, 381
AfaI GTAC 2 cut(s) 160, 345
AfiI CCNNNNNNNGG 1 cut(s) 446
AgsI TTSAA 5 cut(s) 44, 182, 190, 269, 413
AhlI ACTAGT 1 cut(s) 467
AluBI AGCT 3 cut(s) 257, 304, 313
AluI AGCT 3 cut(s) 257, 304, 313
Alw21I GWGCWC 2 cut(s) 31, 51
Alw26I GTCTC 2 cut(s) 383, 458
AlwI GGATC 1 cut(s) 223
AoxI GGCC 2 cut(s) 72, 251
ApoI RAATTY 2 cut(s) 53, 443
AspS9I GGNCC 1 cut(s) 72
Bbv12I GWGCWC 2 cut(s) 31, 51
BccI CCATC 2 cut(s) 355, 416
BcoDI GTCTC 2 cut(s) 383, 458
BcuI ACTAGT 1 cut(s) 467
BfaI CTAG 3 cut(s) 249, 305, 468
BmgT120I GGNCC 1 cut(s) 72
BmiI GGNNCC 1 cut(s) 73
BmsI GCATC 1 cut(s) 373
BsaI GGTCTC 1 cut(s) 383
BsaJI CCNNGG 1 cut(s) 214
Bsc4I CCNNNNNNNGG 1 cut(s) 446
BseDI CCNNGG 1 cut(s) 214
BseGI GGATG 1 cut(s) 347
BseLI CCNNNNNNNGG 1 cut(s) 446
BseRI GAGGAG 1 cut(s) 324
Bsh1285I CGRYCG 1 cut(s) 282
BshFI GGCC 2 cut(s) 74, 253
BsiEI CGRYCG 1 cut(s) 282
BsiHKAI GWGCWC 2 cut(s) 31, 51
BslI CCNNNNNNNGG 1 cut(s) 446
BsmAI GTCTC 2 cut(s) 383, 458
BsnI GGCC 2 cut(s) 74, 253
Bso31I GGTCTC 1 cut(s) 383
Bsp1286I GDGCHC 2 cut(s) 31, 51
Bsp143I GATC 3 cut(s) 85, 228, 279
BspANI GGCC 2 cut(s) 74, 253
BspLI GGNNCC 1 cut(s) 73
BspPI GGATC 1 cut(s) 223
BspTNI GGTCTC 1 cut(s) 383
BssECI CCNNGG 1 cut(s) 214
BssMI GATC 3 cut(s) 85, 228, 279
BssT1I CCWWGG 1 cut(s) 214
Bst4CI ACNGT 1 cut(s) 343
Bst6I CTCTTC 1 cut(s) 177
BstC8I GCNNGC 1 cut(s) 255
BstF5I GGATG 1 cut(s) 347
BstKTI GATC 3 cut(s) 88, 231, 282
BstMAI GTCTC 2 cut(s) 383, 458
BstMBI GATC 3 cut(s) 85, 228, 279
BstMCI CGRYCG 1 cut(s) 282
BstMWI GCNNNNNNNGC 1 cut(s) 310
BstX2I RGATCY 1 cut(s) 228
BstXI CCANNNNNNTGG 1 cut(s) 400
BstYI RGATCY 1 cut(s) 228
BsuRI GGCC 2 cut(s) 74, 253
BtsCI GGATG 1 cut(s) 347
BtsIMutI CAGTG 1 cut(s) 267
Cac8I GCNNGC 1 cut(s) 255
Cfr13I GGNCC 1 cut(s) 72
Csp6I GTAC 2 cut(s) 159, 344
CviAII CATG 1 cut(s) 394
CviJI RGCY 8 cut(s) 17, 74, 143, 253, 257, 304, 313, 365
CviKI_1 RGCY 8 cut(s) 17, 74, 143, 253, 257, 304, 313, 365
CviQI GTAC 2 cut(s) 159, 344
DpnI GATC 3 cut(s) 87, 230, 281
DpnII GATC 3 cut(s) 85, 228, 279
Eam1104I CTCTTC 1 cut(s) 177
EarI CTCTTC 1 cut(s) 177
Eco130I CCWWGG 1 cut(s) 214
Eco31I GGTCTC 1 cut(s) 383
Eco57I CTGAAG 2 cut(s) 243, 381
EcoO109I RGGNCCY 1 cut(s) 72
EcoRI GAATTC 1 cut(s) 53
EcoT14I CCWWGG 1 cut(s) 214
ErhI CCWWGG 1 cut(s) 214
FaeI CATG 1 cut(s) 397
FaiI YATR 5 cut(s) 123, 210, 274, 276, 395
FatI CATG 1 cut(s) 393
FblI GTMKAC 1 cut(s) 202
FokI GGATG 1 cut(s) 334
FspBI CTAG 3 cut(s) 249, 305, 468
HaeIII GGCC 2 cut(s) 74, 253
Hin1II CATG 1 cut(s) 397
HinfI GANTC 1 cut(s) 331
Hpy166II GTNNAC 1 cut(s) 203
Hpy188I TCNGA 2 cut(s) 26, 118
Hpy188III TCNNGA 1 cut(s) 328
Hpy8I GTNNAC 1 cut(s) 203
HpyCH4III ACNGT 1 cut(s) 343
HpyCH4IV ACGT 1 cut(s) 399
HpyCH4V TGCA 2 cut(s) 320, 386
HpyF10VI GCNNNNNNNGC 1 cut(s) 310
HpySE526I ACGT 1 cut(s) 399
Hsp92II CATG 1 cut(s) 397
Kzo9I GATC 3 cut(s) 85, 228, 279
LmnI GCTCC 1 cut(s) 26
LpnPI CCDG 6 cut(s) 141, 165, 267, 299, 372, 453
LweI GCATC 1 cut(s) 373
MaeI CTAG 3 cut(s) 249, 305, 468
MaeII ACGT 1 cut(s) 399
MaeIII GTNAC 1 cut(s) 106
MalI GATC 3 cut(s) 87, 230, 281
MboI GATC 3 cut(s) 85, 228, 279
MboII GAAGA 2 cut(s) 16, 194
MflI RGATCY 1 cut(s) 228
MhlI GDGCHC 2 cut(s) 31, 51
MluCI AATT 4 cut(s) 37, 53, 408, 443
MlyI GAGTC 1 cut(s) 325
MmeI TCCRAC 2 cut(s) 4, 362
MnlI CCTC 5 cut(s) 85, 242, 280, 316, 345
MseI TTAA 1 cut(s) 243
MslI CAYNNNNRTG 1 cut(s) 398
MwoI GCNNNNNNNGC 1 cut(s) 310
NdeII GATC 3 cut(s) 85, 228, 279
NlaIII CATG 1 cut(s) 397
NlaIV GGNNCC 1 cut(s) 73
Ple19I CGATCG 1 cut(s) 282
PleI GAGTC 1 cut(s) 325
PpsI GAGTC 1 cut(s) 325
PspN4I GGNNCC 1 cut(s) 73
PspPI GGNCC 1 cut(s) 72
PsuI RGATCY 1 cut(s) 228
PvuI CGATCG 1 cut(s) 282
RsaI GTAC 2 cut(s) 160, 345
RsaNI GTAC 2 cut(s) 159, 344
RseI CAYNNNNRTG 1 cut(s) 398
SaqAI TTAA 1 cut(s) 243
Sau3AI GATC 3 cut(s) 85, 228, 279
Sau96I GGNCC 1 cut(s) 72
SchI GAGTC 1 cut(s) 325
SduI GDGCHC 2 cut(s) 31, 51
SetI ASST 9 cut(s) 129, 216, 259, 306, 315, 327, 361, 402, 442
SfaNI GCATC 1 cut(s) 373
SmiMI CAYNNNNRTG 1 cut(s) 398
SpeI ACTAGT 1 cut(s) 467
Sse9I AATT 4 cut(s) 37, 53, 408, 443
SspI AATATT 1 cut(s) 238
SspMI CTAG 3 cut(s) 249, 305, 468
StyI CCWWGG 1 cut(s) 214
TaaI ACNGT 1 cut(s) 343
TaiI ACGT 1 cut(s) 402
TaqI TCGA 2 cut(s) 51, 132
TasI AATT 4 cut(s) 37, 53, 408, 443
Tru1I TTAA 1 cut(s) 243
Tru9I TTAA 1 cut(s) 243
TscAI CASTG 1 cut(s) 267
TspDTI ATGAA 2 cut(s) 17, 410
TspRI CASTG 1 cut(s) 267
XapI RAATTY 2 cut(s) 53, 443
XmiI GTMKAC 1 cut(s) 202
XspI CTAG 3 cut(s) 249, 305, 468
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.