Rh6AG360500

DNA-directed RNA polymerase III subunit

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr6A
OG0000459
Physical Location & Seq
Forward (+)
55926509 .. 55930511
4003 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh6AG360500.1

Sequence Viewer

Length: 603 bp
ATGGCATATAGAGGTCGTGGAGGATTTGGACGTGCTAACTTTGCTAAGGAAGAGCCCTTTGTGCCATTTCCTGATATTCATTTACCTGATGCCGGAGGTATTTTGTCTGAGCTAGATCAAAAGAAAAACAAAGGTTTGAAGGAGGAAGAAACATTAATCAGAGATACTCTGAATTGGCTAATGAAATCCGAATATAATCTTGACAAGACTGATAGACAAGACAAGGATGTTGAAATATCTGAGAGAACCAAGCGAAAGGCTAAGAGAGAAATTGATTCTTTCTCACAGTATTTGGTGCCCAGTATGTTTCCTAGAGAACTGACTAGAGGTTCAAACGTGCGGCAGGTGAGCAGAGAAAATGTTAAATGGGACAAACGGAACACAGAAAAGAACTCTGAGATATACTGGAATCAAATTGAAAAGCGAGAACAGAATTCGGATGCAAAGAAACAGAAAGAAGGTGAAAATGATGAGGAAGAGGACGAAGATGCGGATGCGGAAGAGGAGGAAGATGAGGACCCTAGTGATGATGATTATGCTCAGGTTTGTACAGAAAATTTTGATCTTATATGTTCTTTGGGCCTTGAAATTCAATTGATTTAG
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

200

Amino Acids

23.39

Weight (kDa)

4.59

Isoelectric Point (pI)

60.3

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
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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) 334
Acc36I ACCTGC 1 cut(s) 334
AccB1I GGYRCC 1 cut(s) 295
AciI CCGC 3 cut(s) 340, 491, 497
AcsI RAATTY 3 cut(s) 433, 556, 588
AfaI GTAC 1 cut(s) 550
AfiI CCNNNNNNNGG 1 cut(s) 92
AgsI TTSAA 6 cut(s) 139, 233, 333, 419, 587, 593
AjiI CACGTC 1 cut(s) 32
AluBI AGCT 1 cut(s) 112
AluI AGCT 1 cut(s) 112
AoxI GGCC 1 cut(s) 580
ApoI RAATTY 3 cut(s) 433, 556, 588
AseI ATTAAT 1 cut(s) 155
AspS9I GGNCC 2 cut(s) 517, 580
AsuHPI GGTGA 2 cut(s) 358, 473
AvaII GGWCC 1 cut(s) 517
BaeGI GKGCMC 1 cut(s) 300
BanI GGYRCC 1 cut(s) 295
BanII GRGCYC 1 cut(s) 57
BfaI CTAG 4 cut(s) 113, 312, 324, 522
BfuAI ACCTGC 1 cut(s) 334
BisI GCNGC 1 cut(s) 341
BlsI GCNGC 1 cut(s) 342
Bme18I GGWCC 1 cut(s) 517
BmgBI CACGTC 1 cut(s) 32
BmgT120I GGNCC 2 cut(s) 517, 580
BmiI GGNNCC 2 cut(s) 297, 519
BmrI ACTGGG 1 cut(s) 294
BmsI GCATC 4 cut(s) 79, 430, 478, 484
BmuI ACTGGG 1 cut(s) 294
Bpu10I CCTNAGC 2 cut(s) 45, 540
Bsc4I CCNNNNNNNGG 1 cut(s) 92
Bse1I ACTGG 2 cut(s) 300, 410
BseGI GGATG 3 cut(s) 232, 445, 499
BseLI CCNNNNNNNGG 1 cut(s) 92
BseMII CTCAG 4 cut(s) 99, 231, 387, 554
BseNI ACTGG 2 cut(s) 300, 410
BseRI GAGGAG 1 cut(s) 518
BseSI GKGCMC 1 cut(s) 300
BshFI GGCC 1 cut(s) 582
BshNI GGYRCC 1 cut(s) 295
BsiSI CCGG 1 cut(s) 93
BslFI GGGAC 1 cut(s) 383
BslI CCNNNNNNNGG 1 cut(s) 92
BsmFI GGGAC 1 cut(s) 383
BsnI GGCC 1 cut(s) 582
Bsp1286I GDGCHC 2 cut(s) 57, 300
Bsp1407I TGTACA 1 cut(s) 548
Bsp143I GATC 2 cut(s) 115, 562
BspACI CCGC 3 cut(s) 340, 491, 497
BspANI GGCC 1 cut(s) 582
BspCNI CTCAG 4 cut(s) 100, 232, 388, 553
BspLI GGNNCC 2 cut(s) 297, 519
BspMI ACCTGC 1 cut(s) 334
BspQI GCTCTTC 1 cut(s) 45
BspT107I GGYRCC 1 cut(s) 295
BsrGI TGTACA 1 cut(s) 548
BsrI ACTGG 2 cut(s) 300, 410
BssMI GATC 2 cut(s) 115, 562
Bst4CI ACNGT 1 cut(s) 288
Bst6I CTCTTC 3 cut(s) 45, 471, 495
BstAUI TGTACA 1 cut(s) 548
BstDEI CTNAG 6 cut(s) 45, 108, 240, 261, 396, 540
BstF5I GGATG 3 cut(s) 232, 445, 499
BstKTI GATC 2 cut(s) 118, 565
BstMBI GATC 2 cut(s) 115, 562
BstMWI GCNNNNNNNGC 2 cut(s) 41, 61
BstSLI GKGCMC 1 cut(s) 300
BsuRI GGCC 1 cut(s) 582
BtrI CACGTC 1 cut(s) 32
BtsCI GGATG 3 cut(s) 232, 445, 499
BveI ACCTGC 1 cut(s) 334
Cfr13I GGNCC 2 cut(s) 517, 580
Csp6I GTAC 1 cut(s) 549
CviJI RGCY 5 cut(s) 55, 112, 178, 260, 582
CviKI_1 RGCY 5 cut(s) 55, 112, 178, 260, 582
CviQI GTAC 1 cut(s) 549
DdeI CTNAG 6 cut(s) 45, 108, 240, 261, 396, 540
DpnI GATC 2 cut(s) 117, 564
DpnII GATC 2 cut(s) 115, 562
Eam1104I CTCTTC 3 cut(s) 45, 471, 495
EarI CTCTTC 3 cut(s) 45, 471, 495
Eco24I GRGCYC 1 cut(s) 57
Eco47I GGWCC 1 cut(s) 517
EcoO109I RGGNCCY 1 cut(s) 517
EcoRI GAATTC 1 cut(s) 433
EcoT38I GRGCYC 1 cut(s) 57
FaiI YATR 8 cut(s) 7, 9, 195, 305, 403, 537, 569, 571
FaqI GGGAC 1 cut(s) 383
Fnu4HI GCNGC 1 cut(s) 341
FokI GGATG 3 cut(s) 239, 452, 506
FriOI GRGCYC 1 cut(s) 57
Fsp4HI GCNGC 1 cut(s) 341
FspBI CTAG 4 cut(s) 113, 312, 324, 522
GluI GCNGC 1 cut(s) 341
HaeIII GGCC 1 cut(s) 582
HapII CCGG 1 cut(s) 93
HinfI GANTC 2 cut(s) 275, 409
HpaII CCGG 1 cut(s) 93
HphI GGTGA 2 cut(s) 358, 473
Hpy188I TCNGA 7 cut(s) 109, 161, 171, 190, 241, 397, 439
Hpy188III TCNNGA 2 cut(s) 71, 200
HpyAV CCTTC 2 cut(s) 133, 452
HpyCH4III ACNGT 1 cut(s) 288
HpyCH4IV ACGT 2 cut(s) 31, 336
HpyCH4V TGCA 1 cut(s) 443
HpyF10VI GCNNNNNNNGC 2 cut(s) 41, 61
HpyF3I CTNAG 6 cut(s) 45, 108, 240, 261, 396, 540
HpySE526I ACGT 2 cut(s) 31, 336
Kzo9I GATC 2 cut(s) 115, 562
LguI GCTCTTC 1 cut(s) 45
LpnPI CCDG 7 cut(s) 84, 99, 106, 313, 329, 391, 527
LweI GCATC 4 cut(s) 79, 430, 478, 484
MaeI CTAG 4 cut(s) 113, 312, 324, 522
MaeII ACGT 2 cut(s) 31, 336
MalI GATC 2 cut(s) 117, 564
MboI GATC 2 cut(s) 115, 562
MboII GAAGA 6 cut(s) 62, 158, 488, 497, 512, 521
MfeI CAATTG 1 cut(s) 593
MhlI GDGCHC 2 cut(s) 57, 300
MluCI AATT 7 cut(s) 172, 270, 414, 433, 556, 588, 593
MseI TTAA 2 cut(s) 155, 363
MspI CCGG 1 cut(s) 93
MunI CAATTG 1 cut(s) 593
MwoI GCNNNNNNNGC 2 cut(s) 41, 61
NdeII GATC 2 cut(s) 115, 562
NlaIV GGNNCC 2 cut(s) 297, 519
PaqCI CACCTGC 1 cut(s) 334
PciSI GCTCTTC 1 cut(s) 45
PfeI GAWTC 2 cut(s) 275, 409
PkrI GCNGC 1 cut(s) 342
PpuMI RGGWCCY 1 cut(s) 517
PshBI ATTAAT 1 cut(s) 155
Psp5II RGGWCCY 1 cut(s) 517
PspN4I GGNNCC 2 cut(s) 297, 519
PspPI GGNCC 2 cut(s) 517, 580
PspPPI RGGWCCY 1 cut(s) 517
RsaI GTAC 1 cut(s) 550
RsaNI GTAC 1 cut(s) 549
SapI GCTCTTC 1 cut(s) 45
SaqAI TTAA 2 cut(s) 155, 363
SatI GCNGC 1 cut(s) 341
Sau3AI GATC 2 cut(s) 115, 562
Sau96I GGNCC 2 cut(s) 517, 580
SduI GDGCHC 2 cut(s) 57, 300
SfaNI GCATC 4 cut(s) 79, 430, 478, 484
SinI GGWCC 1 cut(s) 517
Sse9I AATT 7 cut(s) 172, 270, 414, 433, 556, 588, 593
SsiI CCGC 3 cut(s) 340, 491, 497
SspMI CTAG 4 cut(s) 113, 312, 324, 522
TaaI ACNGT 1 cut(s) 288
TaiI ACGT 2 cut(s) 34, 339
TasI AATT 7 cut(s) 172, 270, 414, 433, 556, 588, 593
TatI WGTACW 1 cut(s) 548
TauI GCSGC 1 cut(s) 343
TfiI GAWTC 2 cut(s) 275, 409
Tru1I TTAA 2 cut(s) 155, 363
Tru9I TTAA 2 cut(s) 155, 363
TspDTI ATGAA 2 cut(s) 68, 197
TspGWI ACGGA 1 cut(s) 391
VpaK11BI GGWCC 1 cut(s) 517
VspI ATTAAT 1 cut(s) 155
XapI RAATTY 3 cut(s) 433, 556, 588
XspI CTAG 4 cut(s) 113, 312, 324, 522
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.