Rh4DG237400

DNA-directed RNA polymerase III subunit

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr4D
OG0000459
Physical Location & Seq
Reverse (-)
44490351 .. 44494077
3727 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh4DG237400.1

Sequence Viewer

Length: 495 bp
ATGTTTTGGAAAAAGCACAAAAGTGAACGGCGCCATAAAAACAACAAGTGGTTCCCTGTTTACACAATCGCGCGTACTCGATCTCTAGCCCTAAGTTACGTCGCCGGCCACGATTCGAAGCCAGCAATCCGTTACCCAATTTGCCGGAATCTCCGACCGTCACAAGCCCCTGAAATGGCGTTTAGAGGGCGTGGAGGCGGTTTCGGAGGCTATCAATGTCATGGTAAAGAAGAACCCTTTGTGCTGTTCCCTGATATTAACCTACCTGATGCCACAGATGTTTTGTCCATCTCCGATCAGAAGAAAAACAAGGAAGAGATGTTGTTGATCAAAGAAAGTTTGGAGTGGCTGAACAAAACAGGGTATTATCTTGAACAGACTGACAAAGACAAGCAGCGAAAGGATGGTTATTCAAGGTTTCATTTACTGAGGCTGGAAACCAGTAAACTGGAGTCCCTCATCACAACTGCCTTGCGGAGGCTGAGTTGGAAGTAA
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

164

Amino Acids

19.25

Weight (kDa)

9.79

Isoelectric Point (pI)

55.45

Instability Index
Protein Domains (Pfam)
No Pfam domains detected for this 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)
AccB1I GGYRCC 1 cut(s) 30
AccII CGCG 2 cut(s) 71, 73
AciI CCGC 2 cut(s) 198, 475
AcoI YGGCCR 1 cut(s) 106
AcyI GRCGYC 1 cut(s) 31
AfaI GTAC 1 cut(s) 76
AfiI CCNNNNNNNGG 2 cut(s) 175, 477
AgsI TTSAA 2 cut(s) 374, 414
AleI CACNNNNGTG 1 cut(s) 21
AoxI GGCC 1 cut(s) 106
ApeKI GCWGC 1 cut(s) 394
AspLEI GCGC 2 cut(s) 33, 73
AsuII TTCGAA 1 cut(s) 116
BanI GGYRCC 1 cut(s) 30
BbvI GCAGC 1 cut(s) 406
BccI CCATC 2 cut(s) 296, 398
BceAI ACGGC 1 cut(s) 44
BclI TGATCA 1 cut(s) 327
BfaI CTAG 1 cut(s) 86
BfoI RGCGCY 1 cut(s) 34
BisI GCNGC 1 cut(s) 395
BlsI GCNGC 1 cut(s) 396
BmiI GGNNCC 2 cut(s) 32, 53
BmsI GCATC 1 cut(s) 259
BpmI CTGGAG 1 cut(s) 470
Bpu14I TTCGAA 1 cut(s) 116
BsaHI GRCGYC 1 cut(s) 31
BsaXI ACNNNNNCTCC 1 cut(s) 469
Bsc4I CCNNNNNNNGG 2 cut(s) 175, 477
Bse118I RCCGGY 1 cut(s) 104
Bse1I ACTGG 2 cut(s) 441, 453
BseGI GGATG 1 cut(s) 409
BseLI CCNNNNNNNGG 2 cut(s) 175, 477
BseMII CTCAG 2 cut(s) 419, 473
BseNI ACTGG 2 cut(s) 441, 453
BseXI GCAGC 1 cut(s) 406
Bsh1236I CGCG 2 cut(s) 71, 73
Bsh1285I CGRYCG 1 cut(s) 158
BshFI GGCC 1 cut(s) 108
BshNI GGYRCC 1 cut(s) 30
BsiEI CGRYCG 1 cut(s) 158
BsiSI CCGG 2 cut(s) 105, 145
BslFI GGGAC 1 cut(s) 439
BslI CCNNNNNNNGG 2 cut(s) 175, 477
BsmFI GGGAC 1 cut(s) 439
BsnI GGCC 1 cut(s) 108
Bsp119I TTCGAA 1 cut(s) 116
Bsp143I GATC 3 cut(s) 80, 295, 327
BspACI CCGC 2 cut(s) 198, 475
BspANI GGCC 1 cut(s) 108
BspCNI CTCAG 2 cut(s) 420, 474
BspFNI CGCG 2 cut(s) 71, 73
BspLI GGNNCC 2 cut(s) 32, 53
BspT104I TTCGAA 1 cut(s) 116
BspT107I GGYRCC 1 cut(s) 30
BsrFI RCCGGY 1 cut(s) 104
BsrI ACTGG 2 cut(s) 441, 453
BssAI RCCGGY 1 cut(s) 104
BssMI GATC 3 cut(s) 80, 295, 327
BssNI GRCGYC 1 cut(s) 31
Bst4CI ACNGT 1 cut(s) 159
Bst6I CTCTTC 1 cut(s) 309
BstACI GRCGYC 1 cut(s) 31
BstBI TTCGAA 1 cut(s) 116
BstC8I GCNNGC 2 cut(s) 106, 123
BstDEI CTNAG 3 cut(s) 92, 428, 482
BstENI CCTNNNNNAGG 1 cut(s) 475
BstF5I GGATG 1 cut(s) 409
BstFNI CGCG 2 cut(s) 71, 73
BstH2I RGCGCY 1 cut(s) 34
BstHHI GCGC 2 cut(s) 33, 73
BstKTI GATC 3 cut(s) 83, 298, 330
BstMBI GATC 3 cut(s) 80, 295, 327
BstMCI CGRYCG 1 cut(s) 158
BstUI CGCG 2 cut(s) 71, 73
BstV1I GCAGC 1 cut(s) 406
BstXI CCANNNNNNTGG 1 cut(s) 448
BsuRI GGCC 1 cut(s) 108
BtsCI GGATG 1 cut(s) 409
Cac8I GCNNGC 2 cut(s) 106, 123
CfoI GCGC 2 cut(s) 33, 73
Cfr10I RCCGGY 1 cut(s) 104
Csp6I GTAC 1 cut(s) 75
CviAII CATG 1 cut(s) 221
CviJI RGCY 8 cut(s) 89, 108, 121, 167, 210, 349, 433, 481
CviKI_1 RGCY 8 cut(s) 89, 108, 121, 167, 210, 349, 433, 481
CviQI GTAC 1 cut(s) 75
DdeI CTNAG 3 cut(s) 92, 428, 482
DinI GGCGCC 1 cut(s) 32
DpnI GATC 3 cut(s) 82, 297, 329
DpnII GATC 3 cut(s) 80, 295, 327
EaeI YGGCCR 1 cut(s) 106
Eam1104I CTCTTC 1 cut(s) 309
EarI CTCTTC 1 cut(s) 309
EcoNI CCTNNNNNAGG 1 cut(s) 475
EgeI GGCGCC 1 cut(s) 32
EheI GGCGCC 1 cut(s) 32
FaeI CATG 1 cut(s) 224
FaiI YATR 2 cut(s) 36, 222
FaqI GGGAC 1 cut(s) 439
FatI CATG 1 cut(s) 220
FbaI TGATCA 1 cut(s) 327
Fnu4HI GCNGC 1 cut(s) 395
FokI GGATG 1 cut(s) 416
Fsp4HI GCNGC 1 cut(s) 395
FspBI CTAG 1 cut(s) 86
GlaI GCGC 2 cut(s) 32, 72
GluI GCNGC 1 cut(s) 395
GsuI CTGGAG 1 cut(s) 470
HaeII RGCGCY 1 cut(s) 34
HaeIII GGCC 1 cut(s) 108
HapII CCGG 2 cut(s) 105, 145
HhaI GCGC 2 cut(s) 33, 73
Hin1I GRCGYC 1 cut(s) 31
Hin1II CATG 1 cut(s) 224
Hin6I GCGC 2 cut(s) 31, 71
HinP1I GCGC 2 cut(s) 31, 71
HinfI GANTC 3 cut(s) 113, 148, 452
HpaII CCGG 2 cut(s) 105, 145
Hpy166II GTNNAC 3 cut(s) 26, 61, 446
Hpy188I TCNGA 4 cut(s) 155, 206, 295, 300
Hpy188III TCNNGA 1 cut(s) 371
Hpy8I GTNNAC 3 cut(s) 26, 61, 446
Hpy99I CGWCG 1 cut(s) 104
HpyCH4III ACNGT 1 cut(s) 159
HpyCH4IV ACGT 1 cut(s) 99
HpyF3I CTNAG 3 cut(s) 92, 428, 482
HpySE526I ACGT 1 cut(s) 99
Hsp92I GRCGYC 1 cut(s) 31
Hsp92II CATG 1 cut(s) 224
HspAI GCGC 2 cut(s) 31, 71
KasI GGCGCC 1 cut(s) 30
KroI GCCGGC 1 cut(s) 104
KroNI GCCGGC 1 cut(s) 106
Ksp22I TGATCA 1 cut(s) 327
Kzo9I GATC 3 cut(s) 80, 295, 327
Lsp1109I GCAGC 1 cut(s) 406
LweI GCATC 1 cut(s) 259
MaeI CTAG 1 cut(s) 86
MaeII ACGT 1 cut(s) 99
MaeIII GTNAC 3 cut(s) 95, 131, 159
MalI GATC 3 cut(s) 82, 297, 329
MboI GATC 3 cut(s) 80, 295, 327
MboII GAAGA 3 cut(s) 242, 313, 326
MluCI AATT 1 cut(s) 138
Mly113I GGCGCC 1 cut(s) 31
MlyI GAGTC 1 cut(s) 461
MmeI TCCRAC 2 cut(s) 178, 467
MnlI CCTC 6 cut(s) 179, 188, 200, 423, 467, 471
MroNI GCCGGC 1 cut(s) 104
MseI TTAA 1 cut(s) 258
MslI CAYNNNNRTG 1 cut(s) 21
MspI CCGG 2 cut(s) 105, 145
MvnI CGCG 2 cut(s) 71, 73
NaeI GCCGGC 1 cut(s) 106
NarI GGCGCC 1 cut(s) 31
NdeII GATC 3 cut(s) 80, 295, 327
NgoMIV GCCGGC 1 cut(s) 104
NlaIII CATG 1 cut(s) 224
NlaIV GGNNCC 2 cut(s) 32, 53
NmuCI GTSAC 1 cut(s) 159
NspV TTCGAA 1 cut(s) 116
OliI CACNNNNGTG 1 cut(s) 21
PcsI WCGNNNNNNNCGW 1 cut(s) 108
PdiI GCCGGC 1 cut(s) 106
PfeI GAWTC 2 cut(s) 113, 148
PkrI GCNGC 1 cut(s) 396
PleI GAGTC 1 cut(s) 460
PluTI GGCGCC 1 cut(s) 34
PpsI GAGTC 1 cut(s) 460
PspN4I GGNNCC 2 cut(s) 32, 53
RsaI GTAC 1 cut(s) 76
RsaNI GTAC 1 cut(s) 75
RseI CAYNNNNRTG 1 cut(s) 21
SaqAI TTAA 1 cut(s) 258
SatI GCNGC 1 cut(s) 395
Sau3AI GATC 3 cut(s) 80, 295, 327
SchI GAGTC 1 cut(s) 461
SetI ASST 4 cut(s) 102, 264, 268, 419
SfaNI GCATC 1 cut(s) 259
SfoI GGCGCC 1 cut(s) 32
SfuI TTCGAA 1 cut(s) 116
SmiMI CAYNNNNRTG 1 cut(s) 21
Sse9I AATT 1 cut(s) 138
SsiI CCGC 2 cut(s) 198, 475
SspDI GGCGCC 1 cut(s) 30
SspMI CTAG 1 cut(s) 86
TaaI ACNGT 1 cut(s) 159
TaiI ACGT 1 cut(s) 102
TaqI TCGA 2 cut(s) 79, 116
TasI AATT 1 cut(s) 138
TfiI GAWTC 2 cut(s) 113, 148
Tru1I TTAA 1 cut(s) 258
Tru9I TTAA 1 cut(s) 258
TseFI GTSAC 1 cut(s) 159
TseI GCWGC 1 cut(s) 394
Tsp45I GTSAC 1 cut(s) 159
TspDTI ATGAA 1 cut(s) 410
TspGWI ACGGA 1 cut(s) 119
XagI CCTNNNNNAGG 1 cut(s) 475
XspI CTAG 1 cut(s) 86
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.