Rh3BG045400

Plant transposase (Ptta/En/Spm family)

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr3B
OG0000450
Physical Location & Seq
Forward (+)
2944282 .. 2947676
3395 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh3BG045400.1

Sequence Viewer

Length: 813 bp
ATGCAAAATGCTGATGATAATGTAGAGAAGTTGCATAAGAACGATTTTGTCGATTGGTTTTCTGCGAGGGATTTTTCTATTTGTAATACATATCTAGTCATTGCAAAGAAACCAAAGAGTCGCAAAAGACCATTAAGCACAGATAGTATTACACCTTCTAATGACAGTGAAGAGCAAGAAACTGAAGAGACAAGGTCTGAGTCTCAACCTTCAAATGCAACAGGTTCAGGTCCTCCTAAGAAGAAAGGTAGAGGGGGAGCTAAGGGTGAAAAGGGACATGGCATGCCAGCTGATATACATGACGGAAGGATCATAACCCCTCAAGCAACACGTGCAATATTCCCACTCTTCAAGCAAGAGCTGACGGAGCCATTTACAACATGGCCTCTATACAAAAAGCAAGGAAAGAACTTGAAAAGGGTGTATGAACGTTGGCAAGAATGTAACTTCAAATTCACATGCTCTGAAGAAGATGTAAAGAATGCATTTGAAAAGCATATTGAAAATCGATATCCTGACTGGATGAGCGCAATAAGGAATAGCATTTTCAAAAAGCATAAAACCGCTGCAGCTCGTTATGCTAATTGCCCAAAAGGAATAAAGCGAAATGTGTGGGCCCAATTGGTTGAAGAATGGTTGAAACCTGAATGGCAGGAGATGAGTGAAAGAAACAGAACTAATCGGGATAAATCAACCATTGTTCACACAACGGGCTCGGTTCCAATGGCAAAATGGCGCAAAGAGGAGTGCATTGGTGATAATCTGGACATAAATGGAGTTGACCGTGATAGGCTAGCTAGTTGGCAAATGTGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
Transposase_24

Protein Analysis

270

Amino Acids

31.27

Weight (kDa)

9.15

Isoelectric Point (pI)

47.57

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Transposase_24 PF03004 203 - 249 5.9e-08 Plant transposase (Ptta/En/Spm family)
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: OG0000450)

Species Orthologous Gene IDs
fragaria_vesca FvH4_1g20080 FvH4_1g23272 FvH4_1g24190 FvH4_1g24191 FvH4_2g16992 FvH4_4g20600 FvH4_5g37430 FvH4_6g13850 FvH4_6g23331 FvH4_7g07732
prunus_persica Prupe.2G062800_v2.0.a1 Prupe.7G020400_v2.0.a1
rosa_chinensis RchiOBHm_Chr2g0159341 RchiOBHm_Chr3g0461151 RchiOBHm_Chr3g0471341 RchiOBHm_Chr5g0079051
rosa_laevigata RLG00000013771 RLG00000016694 RLG00000019616 RLG00000020143 RLG00000022642 RLG00000030165
rosa_multiflora Rmu_sc0000058.1_g000010 Rmu_sc0000898.1_g000045 Rmu_sc0001200.1_g000007 Rmu_sc0001200.1_g000008 Rmu_sc0001323.1_g000001 Rmu_sc0002194.1_g000008 Rmu_sc0002206.1_g000017 Rmu_sc0002230.1_g000001 Rmu_sc0002280.1_g000001 Rmu_sc0003047.1_g000022 Rmu_sc0003623.1_g000007 Rmu_sc0003835.1_g000012
rosa_roxburghii Rroxscaffold_1G00019590 Rroxscaffold_1G00029010 Rroxscaffold_1G00029250 Rroxscaffold_1G00031650 Rroxscaffold_1G00031660 Rroxscaffold_1G00052850 Rroxscaffold_2G00144000 Rroxscaffold_3G00231810 Rroxscaffold_3G00245070 Rroxscaffold_3G00268690 Rroxscaffold_4G00312920 Rroxscaffold_5G00350060 Rroxscaffold_6G00412590 Rroxscaffold_6G00412600 Rroxscaffold_6G00420320 Rroxscaffold_7G00192970 Rroxscaffold_7G00197810 Rroxscaffold_7G00208250
rosa_rugosa Rorug01G0074000 Rorug01G0273600.1 Rorug01G0273700 Rorug03G0275700 Rorug04G0060600 Rorug04G0063100 Rorug04G0170400 Rorug05G0185600 Rorug05G0224200 Rorug05G0234600
rosa_samantha Rh1CG227300 Rh1DG133300 Rh1DG133400 Rh2AG004600 Rh2BG038900 Rh3BG045400 Rh3BG359100 Rh3BG359200 Rh3CG044000 Rh3CG355700 Rh4CG188000 Rh4CG217400 Rh4DG018500 Rh4DG092800 Rh4DG128600 Rh4DG141700 Rh5CG305800 Rh5DG275100 Rh5DG430600 Rh6DG316100
rosa_wichuraiana Rw0G005510 Rw0G010440 Rw0G010450 Rw1G018670 Rw3G028280 Rw4G010530 Rw4G010930 Rw4G012110 Rw4G012720 Rw5G007170 Rw7G023020

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AciI CCGC 1 cut(s) 564
AclI AACGTT 1 cut(s) 430
AclWI GGATC 1 cut(s) 317
AcsI RAATTY 1 cut(s) 452
AcuI CTGAAG 2 cut(s) 204, 486
AcvI CACGTG 1 cut(s) 332
AflIII ACRYGT 1 cut(s) 329
AgsI TTSAA 9 cut(s) 213, 352, 415, 451, 491, 503, 550, 629, 640
AluBI AGCT 5 cut(s) 260, 290, 361, 572, 797
AluI AGCT 5 cut(s) 260, 290, 361, 572, 797
Alw26I GTCTC 2 cut(s) 182, 207
AlwI GGATC 1 cut(s) 317
AoxI GGCC 2 cut(s) 383, 615
ApaI GGGCCC 1 cut(s) 619
ApeKI GCWGC 2 cut(s) 566, 569
ApoI RAATTY 1 cut(s) 452
AspLEI GCGC 2 cut(s) 530, 738
AspS9I GGNCC 3 cut(s) 230, 615, 616
AsuHPI GGTGA 2 cut(s) 278, 767
AsuNHI GCTAGC 1 cut(s) 793
AvaII GGWCC 1 cut(s) 230
BaeGI GKGCMC 1 cut(s) 619
BanII GRGCYC 2 cut(s) 619, 716
BarI GAAGNNNNNNTAC 2 cut(s) 139, 171
BbrPI CACGTG 1 cut(s) 332
BbvI GCAGC 2 cut(s) 553, 581
BcoDI GTCTC 2 cut(s) 182, 207
BfaI CTAG 3 cut(s) 95, 794, 798
BfmI CTRYAG 1 cut(s) 567
BisI GCNGC 2 cut(s) 567, 570
BlsI GCNGC 2 cut(s) 568, 571
Bme18I GGWCC 1 cut(s) 230
BmgT120I GGNCC 3 cut(s) 230, 615, 616
BmiI GGNNCC 3 cut(s) 369, 617, 720
BmtI GCTAGC 1 cut(s) 797
Bpu10I CCTNAGC 1 cut(s) 261
BpuEI CTTGAG 1 cut(s) 306
Bsa29I ATCGAT 1 cut(s) 508
BsaAI YACGTR 1 cut(s) 332
Bse1I ACTGG 1 cut(s) 524
Bse3DI GCAATG 1 cut(s) 99
BseCI ATCGAT 1 cut(s) 508
BseGI GGATG 1 cut(s) 528
BseMI GCAATG 1 cut(s) 99
BseMII CTCAG 1 cut(s) 189
BseNI ACTGG 1 cut(s) 524
BseRI GAGGAG 1 cut(s) 758
BseSI GKGCMC 1 cut(s) 619
BseXI GCAGC 2 cut(s) 553, 581
BshFI GGCC 2 cut(s) 385, 617
BshVI ATCGAT 1 cut(s) 508
BslFI GGGAC 1 cut(s) 288
BsmAI GTCTC 2 cut(s) 182, 207
BsmFI GGGAC 1 cut(s) 288
BsmI GAATGC 1 cut(s) 487
BsnI GGCC 2 cut(s) 385, 617
Bsp120I GGGCCC 1 cut(s) 615
Bsp1286I GDGCHC 2 cut(s) 619, 716
Bsp143I GATC 1 cut(s) 309
BspACI CCGC 1 cut(s) 564
BspANI GGCC 2 cut(s) 385, 617
BspCNI CTCAG 1 cut(s) 190
BspDI ATCGAT 1 cut(s) 508
BspLI GGNNCC 3 cut(s) 369, 617, 720
BspMAI CTGCAG 1 cut(s) 571
BspOI GCTAGC 1 cut(s) 797
BspPI GGATC 1 cut(s) 317
BspQI GCTCTTC 1 cut(s) 165
BsrDI GCAATG 1 cut(s) 99
BsrI ACTGG 1 cut(s) 524
BssMI GATC 1 cut(s) 309
Bst4CI ACNGT 2 cut(s) 167, 785
Bst6I CTCTTC 3 cut(s) 165, 180, 353
BstAPI GCANNNNNTGC 1 cut(s) 332
BstBAI YACGTR 1 cut(s) 332
BstC8I GCNNGC 3 cut(s) 284, 288, 795
BstDEI CTNAG 3 cut(s) 198, 237, 261
BstF5I GGATG 1 cut(s) 528
BstHHI GCGC 2 cut(s) 530, 738
BstKTI GATC 1 cut(s) 312
BstMAI GTCTC 2 cut(s) 182, 207
BstMBI GATC 1 cut(s) 309
BstMWI GCNNNNNNNGC 3 cut(s) 332, 367, 578
BstNSI RCATGY 2 cut(s) 286, 462
BstSFI CTRYAG 1 cut(s) 567
BstSLI GKGCMC 1 cut(s) 619
BstV1I GCAGC 2 cut(s) 553, 581
Bsu15I ATCGAT 1 cut(s) 508
BsuRI GGCC 2 cut(s) 385, 617
BsuTUI ATCGAT 1 cut(s) 508
BtsCI GGATG 1 cut(s) 528
BtsIMutI CAGTG 1 cut(s) 172
Cac8I GCNNGC 3 cut(s) 284, 288, 795
CfoI GCGC 2 cut(s) 530, 738
Cfr13I GGNCC 3 cut(s) 230, 615, 616
ClaI ATCGAT 1 cut(s) 508
CviAII CATG 5 cut(s) 278, 283, 299, 381, 459
DdeI CTNAG 3 cut(s) 198, 237, 261
DpnI GATC 1 cut(s) 311
DpnII GATC 1 cut(s) 309
Eam1104I CTCTTC 3 cut(s) 165, 180, 353
EarI CTCTTC 3 cut(s) 165, 180, 353
Eco24I GRGCYC 2 cut(s) 619, 716
Eco32I GATATC 1 cut(s) 512
Eco47I GGWCC 1 cut(s) 230
Eco57I CTGAAG 2 cut(s) 204, 486
Eco72I CACGTG 1 cut(s) 332
EcoO109I RGGNCCY 1 cut(s) 230
EcoRV GATATC 1 cut(s) 512
EcoT22I ATGCAT 1 cut(s) 487
EcoT38I GRGCYC 2 cut(s) 619, 716
FaeI CATG 5 cut(s) 281, 286, 302, 384, 462
FaqI GGGAC 1 cut(s) 288
FatI CATG 5 cut(s) 277, 282, 298, 380, 458
Fnu4HI GCNGC 2 cut(s) 567, 570
FokI GGATG 1 cut(s) 535
FriOI GRGCYC 2 cut(s) 619, 716
Fsp4HI GCNGC 2 cut(s) 567, 570
FspBI CTAG 3 cut(s) 95, 794, 798
GlaI GCGC 2 cut(s) 529, 737
GluI GCNGC 2 cut(s) 567, 570
HaeIII GGCC 2 cut(s) 385, 617
HhaI GCGC 2 cut(s) 530, 738
Hin1II CATG 5 cut(s) 281, 286, 302, 384, 462
Hin6I GCGC 2 cut(s) 528, 736
HinP1I GCGC 2 cut(s) 528, 736
HincII GTYRAC 1 cut(s) 781
HindII GTYRAC 1 cut(s) 781
HinfI GANTC 2 cut(s) 118, 200
HphI GGTGA 2 cut(s) 278, 767
Hpy166II GTNNAC 2 cut(s) 703, 781
Hpy188I TCNGA 2 cut(s) 199, 466
Hpy188III TCNNGA 3 cut(s) 515, 683, 764
Hpy8I GTNNAC 2 cut(s) 703, 781
HpyAV CCTTC 3 cut(s) 165, 219, 300
HpyCH4III ACNGT 2 cut(s) 167, 785
HpyCH4IV ACGT 2 cut(s) 331, 430
HpyCH4V TGCA 8 cut(s) 4, 34, 104, 218, 335, 485, 569, 750
HpyF10VI GCNNNNNNNGC 3 cut(s) 332, 367, 578
HpyF3I CTNAG 3 cut(s) 198, 237, 261
HpySE526I ACGT 2 cut(s) 331, 430
Hsp92II CATG 5 cut(s) 281, 286, 302, 384, 462
HspAI GCGC 2 cut(s) 528, 736
Kzo9I GATC 1 cut(s) 309
LguI GCTCTTC 1 cut(s) 165
LmnI GCTCC 2 cut(s) 257, 367
LpnPI CCDG 8 cut(s) 207, 213, 300, 505, 528, 638, 657, 749
Lsp1109I GCAGC 2 cut(s) 553, 581
MaeI CTAG 3 cut(s) 95, 794, 798
MaeII ACGT 2 cut(s) 331, 430
MaeIII GTNAC 1 cut(s) 443
MalI GATC 1 cut(s) 311
MboI GATC 1 cut(s) 309
MboII GAAGA 7 cut(s) 182, 197, 253, 340, 479, 482, 641
MfeI CAATTG 1 cut(s) 620
MhlI GDGCHC 2 cut(s) 619, 716
MluCI AATT 3 cut(s) 452, 583, 620
MlyI GAGTC 2 cut(s) 127, 209
MnlI CCTC 6 cut(s) 60, 243, 245, 330, 396, 736
Mph1103I ATGCAT 1 cut(s) 487
MseI TTAA 1 cut(s) 134
MspA1I CMGCKG 2 cut(s) 290, 566
MunI CAATTG 1 cut(s) 620
Mva1269I GAATGC 1 cut(s) 487
MwoI GCNNNNNNNGC 3 cut(s) 332, 367, 578
NdeII GATC 1 cut(s) 309
NheI GCTAGC 1 cut(s) 793
NlaIII CATG 5 cut(s) 281, 286, 302, 384, 462
NlaIV GGNNCC 3 cut(s) 369, 617, 720
NsiI ATGCAT 1 cut(s) 487
NspI RCATGY 2 cut(s) 286, 462
PaeI GCATGC 1 cut(s) 286
PciSI GCTCTTC 1 cut(s) 165
PcsI WCGNNNNNNNCGW 1 cut(s) 48
PctI GAATGC 1 cut(s) 487
PflFI GACNNNGTC 1 cut(s) 193
PkrI GCNGC 2 cut(s) 568, 571
PleI GAGTC 2 cut(s) 126, 208
PmaCI CACGTG 1 cut(s) 332
PmlI CACGTG 1 cut(s) 332
PpsI GAGTC 2 cut(s) 126, 208
Ppu21I YACGTR 1 cut(s) 332
PpuMI RGGWCCY 1 cut(s) 230
Psp1406I AACGTT 1 cut(s) 430
Psp5II RGGWCCY 1 cut(s) 230
PspCI CACGTG 1 cut(s) 332
PspN4I GGNNCC 3 cut(s) 369, 617, 720
PspOMI GGGCCC 1 cut(s) 615
PspPI GGNCC 3 cut(s) 230, 615, 616
PspPPI RGGWCCY 1 cut(s) 230
PstI CTGCAG 1 cut(s) 571
PsyI GACNNNGTC 1 cut(s) 193
PvuII CAGCTG 1 cut(s) 290
SapI GCTCTTC 1 cut(s) 165
SaqAI TTAA 1 cut(s) 134
SatI GCNGC 2 cut(s) 567, 570
Sau3AI GATC 1 cut(s) 309
Sau96I GGNCC 3 cut(s) 230, 615, 616
SchI GAGTC 2 cut(s) 127, 209
SduI GDGCHC 2 cut(s) 619, 716
SfcI CTRYAG 1 cut(s) 567
SinI GGWCC 1 cut(s) 230
SmlI CTYRAG 1 cut(s) 321
SmoI CTYRAG 1 cut(s) 321
SphI GCATGC 1 cut(s) 286
Sse9I AATT 3 cut(s) 452, 583, 620
SsiI CCGC 1 cut(s) 564
SspI AATATT 1 cut(s) 339
SspMI CTAG 3 cut(s) 95, 794, 798
TaaI ACNGT 2 cut(s) 167, 785
TaiI ACGT 2 cut(s) 334, 433
TaqI TCGA 2 cut(s) 51, 508
TasI AATT 3 cut(s) 452, 583, 620
Tru1I TTAA 1 cut(s) 134
Tru9I TTAA 1 cut(s) 134
TscAI CASTG 1 cut(s) 172
TseI GCWGC 2 cut(s) 566, 569
TspDTI ATGAA 1 cut(s) 441
TspGWI ACGGA 2 cut(s) 318, 380
TspRI CASTG 1 cut(s) 172
Tth111I GACNNNGTC 1 cut(s) 193
VpaK11BI GGWCC 1 cut(s) 230
XapI RAATTY 1 cut(s) 452
XceI RCATGY 2 cut(s) 286, 462
XcmI CCANNNNNNNNNTGG 2 cut(s) 378, 729
XspI CTAG 3 cut(s) 95, 794, 798
Zsp2I ATGCAT 1 cut(s) 487
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.