Prupe.1G504500_v2.0.a1

DNA-directed RNA polymerase III subunit

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
prunus_persica
Pp01
OG0000459
Physical Location & Seq
Reverse (-)
41703005 .. 41706278
3274 bp
Loading structure...
UTR
Exon/CDS
Intron
Prupe.1G504500.6

Sequence Viewer

Length: 639 bp
ATGGCGTATAGAGGTCGTGGACGCGGTGGATTTGGAGGAGGTGGCGGTTTTGGCTATGCCACTCAAGTTCCCTTTGAGCTTTTTCCTGATGTTGATTTGCCTAATGTCAAAGGTATACTTGATCCAGATAAAAAGATAAACCAGGGTAAGAGTGAGGAAGAAAACTTAGTCAATCAAAGTCGCAAGTTTCAAAAAATTTGGAAAGGCTCTCCTTTTTATCTTGAGCAGACCACTTCAAAGGAGAGGCAAAACACAGAAGTAGAAAGATATTCTGACAGGTTGAAGCCAAAAACCACGATAAGACGCGGTGCTCTTTTTGATATATTGGAGCTCAAGGGATTTCCCCAAGAACTGACTGGAGGTTCAAGGGCGCAGGAACCAGGCCGAAAGAGAGTTCGATGGAATCCTGACTCAGAGCTGCAGAAGTTAGATTTATTTGAAAAGCTTGAACAGCGTCAGGGTAATAATGATGGAAAAGAAAAGAAAGAAGGTGAAGGTGAGGATGAAGATGAAGAAGAGGAGGAGGAGGAGCCAGAAGAAGACTTCAGTGATGATGATTATCAGAAGAACCAAGATTTCGATGATGATGATGATGATTTTAATATGGAAGATGATGGTGATGATGAACCTCTTTTGTAG
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

213

Amino Acids

24.44

Weight (kDa)

4.4

Isoelectric Point (pI)

55.78

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)
AccI GTMKAC 1 cut(s) 115
AccII CGCG 2 cut(s) 24, 306
AciI CCGC 3 cut(s) 24, 45, 306
AclWI GGATC 1 cut(s) 116
AcsI RAATTY 1 cut(s) 195
AcuI CTGAAG 1 cut(s) 529
AgsI TTSAA 6 cut(s) 191, 237, 283, 366, 440, 449
AjnI CCWGG 2 cut(s) 141, 379
AluBI AGCT 4 cut(s) 79, 331, 418, 445
AluI AGCT 4 cut(s) 79, 331, 418, 445
Alw21I GWGCWC 2 cut(s) 313, 333
AlwI GGATC 1 cut(s) 116
AoxI GGCC 1 cut(s) 382
ApeKI GCWGC 1 cut(s) 418
ApoI RAATTY 1 cut(s) 195
AspLEI GCGC 1 cut(s) 373
AsuHPI GGTGA 3 cut(s) 503, 509, 629
BanII GRGCYC 1 cut(s) 333
BbsI GAAGAC 1 cut(s) 546
Bbv12I GWGCWC 2 cut(s) 313, 333
BbvI GCAGC 1 cut(s) 405
BccI CCATC 3 cut(s) 393, 464, 608
BciT130I CCWGG 2 cut(s) 143, 381
BfmI CTRYAG 1 cut(s) 419
BisI GCNGC 1 cut(s) 419
BlsI GCNGC 1 cut(s) 420
Bme1390I CCNGG 2 cut(s) 143, 381
BmiI GGNNCC 2 cut(s) 378, 531
BmrFI CCNGG 2 cut(s) 143, 381
BpiI GAAGAC 1 cut(s) 546
BpmI CTGGAG 1 cut(s) 378
BpuEI CTTGAG 3 cut(s) 48, 242, 317
BsaBI GATNNNNATC 1 cut(s) 558
BsaJI CCNNGG 1 cut(s) 142
Bse1I ACTGG 1 cut(s) 361
Bse8I GATNNNNATC 1 cut(s) 558
BseBI CCWGG 2 cut(s) 143, 381
BseDI CCNNGG 1 cut(s) 142
BseGI GGATG 1 cut(s) 508
BseJI GATNNNNATC 1 cut(s) 558
BseMII CTCAG 1 cut(s) 426
BseNI ACTGG 1 cut(s) 361
BseRI GAGGAG 5 cut(s) 51, 533, 536, 539, 542
BseXI GCAGC 1 cut(s) 405
Bsh1236I CGCG 2 cut(s) 24, 306
BshFI GGCC 1 cut(s) 384
BsiHKAI GWGCWC 2 cut(s) 313, 333
BsnI GGCC 1 cut(s) 384
Bsp1286I GDGCHC 2 cut(s) 313, 333
Bsp143I GATC 1 cut(s) 121
BspACI CCGC 3 cut(s) 24, 45, 306
BspANI GGCC 1 cut(s) 384
BspCNI CTCAG 1 cut(s) 425
BspFNI CGCG 2 cut(s) 24, 306
BspLI GGNNCC 2 cut(s) 378, 531
BspMAI CTGCAG 1 cut(s) 423
BspPI GGATC 1 cut(s) 116
BsrI ACTGG 1 cut(s) 361
BssECI CCNNGG 1 cut(s) 142
BssMI GATC 1 cut(s) 121
BssNAI GTATAC 1 cut(s) 116
Bst1107I GTATAC 1 cut(s) 116
Bst2UI CCWGG 2 cut(s) 143, 381
Bst6I CTCTTC 1 cut(s) 510
BstDEI CTNAG 2 cut(s) 166, 412
BstF5I GGATG 1 cut(s) 508
BstFNI CGCG 2 cut(s) 24, 306
BstHHI GCGC 1 cut(s) 373
BstKTI GATC 1 cut(s) 124
BstMBI GATC 1 cut(s) 121
BstMWI GCNNNNNNNGC 2 cut(s) 51, 451
BstNI CCWGG 2 cut(s) 143, 381
BstSCI CCNGG 2 cut(s) 141, 379
BstSFI CTRYAG 1 cut(s) 419
BstUI CGCG 2 cut(s) 24, 306
BstV1I GCAGC 1 cut(s) 405
BstV2I GAAGAC 1 cut(s) 546
BstZ17I GTATAC 1 cut(s) 116
BsuRI GGCC 1 cut(s) 384
BtsCI GGATG 1 cut(s) 508
BtsIMutI CAGTG 1 cut(s) 553
CfoI GCGC 1 cut(s) 373
CseI GACGC 3 cut(s) 30, 312, 443
CviJI RGCY 9 cut(s) 54, 79, 207, 286, 331, 384, 418, 445, 532
CviKI_1 RGCY 9 cut(s) 54, 79, 207, 286, 331, 384, 418, 445, 532
DdeI CTNAG 2 cut(s) 166, 412
DpnI GATC 1 cut(s) 123
DpnII GATC 1 cut(s) 121
Eam1104I CTCTTC 1 cut(s) 510
EarI CTCTTC 1 cut(s) 510
Ecl136II GAGCTC 1 cut(s) 331
Eco24I GRGCYC 1 cut(s) 333
Eco53kI GAGCTC 1 cut(s) 331
Eco57I CTGAAG 1 cut(s) 529
EcoICRI GAGCTC 1 cut(s) 331
EcoRII CCWGG 2 cut(s) 141, 379
EcoT38I GRGCYC 1 cut(s) 333
FaiI YATR 5 cut(s) 9, 57, 116, 323, 605
FalI AAGNNNNNCTT 2 cut(s) 102, 134
FblI GTMKAC 1 cut(s) 115
Fnu4HI GCNGC 1 cut(s) 419
FokI GGATG 1 cut(s) 515
FriOI GRGCYC 1 cut(s) 333
Fsp4HI GCNGC 1 cut(s) 419
GlaI GCGC 1 cut(s) 372
GluI GCNGC 1 cut(s) 419
GsuI CTGGAG 1 cut(s) 378
HaeIII GGCC 1 cut(s) 384
HgaI GACGC 3 cut(s) 30, 312, 443
HhaI GCGC 1 cut(s) 373
Hin6I GCGC 1 cut(s) 371
HinP1I GCGC 1 cut(s) 371
HindIII AAGCTT 1 cut(s) 443
HinfI GANTC 2 cut(s) 403, 410
HphI GGTGA 3 cut(s) 503, 509, 629
Hpy166II GTNNAC 2 cut(s) 20, 116
Hpy188I TCNGA 3 cut(s) 274, 415, 564
Hpy188III TCNNGA 4 cut(s) 86, 125, 221, 407
Hpy8I GTNNAC 2 cut(s) 20, 116
HpyAV CCTTC 2 cut(s) 482, 488
HpyCH4V TGCA 1 cut(s) 421
HpyF10VI GCNNNNNNNGC 2 cut(s) 51, 451
HpyF3I CTNAG 2 cut(s) 166, 412
HspAI GCGC 1 cut(s) 371
Kzo9I GATC 1 cut(s) 121
LmnI GCTCC 2 cut(s) 328, 529
Lsp1109I GCAGC 1 cut(s) 405
MalI GATC 1 cut(s) 123
MboI GATC 1 cut(s) 121
MboII GAAGA 8 cut(s) 170, 518, 524, 527, 548, 551, 577, 620
MhlI GDGCHC 2 cut(s) 313, 333
MluCI AATT 1 cut(s) 195
MlyI GAGTC 1 cut(s) 404
MseI TTAA 1 cut(s) 600
MspR9I CCNGG 2 cut(s) 143, 381
MvaI CCWGG 2 cut(s) 143, 381
MvnI CGCG 2 cut(s) 24, 306
MwoI GCNNNNNNNGC 2 cut(s) 51, 451
NdeII GATC 1 cut(s) 121
NlaIV GGNNCC 2 cut(s) 378, 531
PfeI GAWTC 1 cut(s) 403
PkrI GCNGC 1 cut(s) 420
PleI GAGTC 1 cut(s) 404
PpsI GAGTC 1 cut(s) 404
Psp124BI GAGCTC 1 cut(s) 333
Psp6I CCWGG 2 cut(s) 141, 379
PspGI CCWGG 2 cut(s) 141, 379
PspN4I GGNNCC 2 cut(s) 378, 531
PstI CTGCAG 1 cut(s) 423
SacI GAGCTC 1 cut(s) 333
SaqAI TTAA 1 cut(s) 600
SatI GCNGC 1 cut(s) 419
Sau3AI GATC 1 cut(s) 121
SchI GAGTC 1 cut(s) 404
ScrFI CCNGG 2 cut(s) 143, 381
SduI GDGCHC 2 cut(s) 313, 333
SfcI CTRYAG 1 cut(s) 419
SmlI CTYRAG 3 cut(s) 63, 221, 332
SmoI CTYRAG 3 cut(s) 63, 221, 332
Sse9I AATT 1 cut(s) 195
SsiI CCGC 3 cut(s) 24, 45, 306
SstI GAGCTC 1 cut(s) 333
StyD4I CCNGG 2 cut(s) 141, 379
TaqI TCGA 2 cut(s) 397, 579
TasI AATT 1 cut(s) 195
TfiI GAWTC 1 cut(s) 403
Tru1I TTAA 1 cut(s) 600
Tru9I TTAA 1 cut(s) 600
TscAI CASTG 1 cut(s) 553
TseI GCWGC 1 cut(s) 418
TspDTI ATGAA 3 cut(s) 519, 525, 639
TspRI CASTG 1 cut(s) 553
XapI RAATTY 1 cut(s) 195
XcmI CCANNNNNNNNNTGG 1 cut(s) 353
XmiI GTMKAC 1 cut(s) 115
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.