Rh3CG044000

Plant transposase (Ptta/En/Spm family)

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr3C
OG0000450
Physical Location & Seq
Forward (+)
2941857 .. 2947676
5820 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh3CG044000.1

Sequence Viewer

Length: 834 bp
ATGGAGCTATGTGATGATATGCAAGATTTGATAGAAGAAATTTTTCCGCAAGATCCAAATGAAGATGCACAAAGATTTTACAAGTTGTTGGAAGAGGCCGAGACACCATTATATGAGGTCATTGCAAAGAAACCAAAGAGTCGCAAAAGACCATTAAGCACAGATAGTATTACACCTTCTAATGACAGTGAAGAGCAAGAAACTGAAGAGACAAGGTCTGAGTCTCAACCTTCAAATGCAACAGGTTCAGGTCCTCCTAAGAAGAAAGGTAGAGGGGGAGCTAAGGGTGAAAAGGGACATGGCATGCCAGCTGATATACATGACGGAAGGATCATAACCCCTCAAGCAACACGTGCAATATTCCCACTCTTCAAGCAAGAGCTGACGGAGCCATTTACAACATGGCCTCTATACAAAAAGCAAGGAAAGAACTTGAAAAGGGTGTATGAACGTTGGCAAGAATGTAACTTCAAATTCACATGCTCTGAAGAAGATGTAAAGAATGCATTTGAAAAGCATATTGAAAATCGATATCCTGACTGGATGAGCGCAATAAGGAATAGCATTTTCAAAAAGCATAAAACCGCTGCAGCTCGTTATGCTAATTGCCCAAAAGGAATAAAGCGAAATGTGTGGGCCCAATTGGTTGAAGAATGGTTGAAACCTGAATGGCAGGAGATGAGTGAAAGAAACAGAACTAATCGGGATAAATCAACCATTGTTCACACAACGGGCTCGGTTCCAATGGCAAAATGGCGCAAAGAGGAGTGCATTGGTGATAATCTGGACATAAATGGAGTTGACCGTGATAGGCTAGCTAGTTGGCAAATGTGA
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

277

Amino Acids

32.15

Weight (kDa)

6.98

Isoelectric Point (pI)

57.18

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Transposase_24 PF03004 210 - 256 6.2e-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 2 cut(s) 47, 585
AclI AACGTT 1 cut(s) 451
AclWI GGATC 2 cut(s) 47, 338
AcsI RAATTY 2 cut(s) 39, 473
AcuI CTGAAG 2 cut(s) 225, 507
AcvI CACGTG 1 cut(s) 353
AflIII ACRYGT 1 cut(s) 350
AgsI TTSAA 9 cut(s) 234, 373, 436, 472, 512, 524, 571, 650, 661
AluBI AGCT 6 cut(s) 7, 281, 311, 382, 593, 818
AluI AGCT 6 cut(s) 7, 281, 311, 382, 593, 818
Alw26I GTCTC 3 cut(s) 95, 203, 228
AlwI GGATC 2 cut(s) 47, 338
AoxI GGCC 3 cut(s) 96, 404, 636
ApaI GGGCCC 1 cut(s) 640
ApeKI GCWGC 2 cut(s) 587, 590
ApoI RAATTY 2 cut(s) 39, 473
Asp700I GAANNNNTTC 1 cut(s) 42
AspLEI GCGC 2 cut(s) 551, 759
AspS9I GGNCC 3 cut(s) 251, 636, 637
AsuHPI GGTGA 2 cut(s) 299, 788
AsuNHI GCTAGC 1 cut(s) 814
AvaII GGWCC 1 cut(s) 251
BaeGI GKGCMC 1 cut(s) 640
BanII GRGCYC 2 cut(s) 640, 737
BarI GAAGNNNNNNTAC 2 cut(s) 160, 192
BbrPI CACGTG 1 cut(s) 353
BbvI GCAGC 2 cut(s) 574, 602
BcoDI GTCTC 3 cut(s) 95, 203, 228
BfaI CTAG 2 cut(s) 815, 819
BfmI CTRYAG 1 cut(s) 588
BisI GCNGC 2 cut(s) 588, 591
BlsI GCNGC 2 cut(s) 589, 592
Bme18I GGWCC 1 cut(s) 251
BmgT120I GGNCC 3 cut(s) 251, 636, 637
BmiI GGNNCC 3 cut(s) 390, 638, 741
BmsI GCATC 1 cut(s) 55
BmtI GCTAGC 1 cut(s) 818
Bpu10I CCTNAGC 1 cut(s) 282
BpuEI CTTGAG 1 cut(s) 327
Bsa29I ATCGAT 1 cut(s) 529
BsaAI YACGTR 1 cut(s) 353
Bse1I ACTGG 1 cut(s) 545
Bse3DI GCAATG 1 cut(s) 120
BseCI ATCGAT 1 cut(s) 529
BseGI GGATG 1 cut(s) 549
BseMI GCAATG 1 cut(s) 120
BseMII CTCAG 1 cut(s) 210
BseNI ACTGG 1 cut(s) 545
BseRI GAGGAG 1 cut(s) 779
BseSI GKGCMC 1 cut(s) 640
BseXI GCAGC 2 cut(s) 574, 602
BshFI GGCC 3 cut(s) 98, 406, 638
BshVI ATCGAT 1 cut(s) 529
BslFI GGGAC 1 cut(s) 309
BsmAI GTCTC 3 cut(s) 95, 203, 228
BsmFI GGGAC 1 cut(s) 309
BsmI GAATGC 1 cut(s) 508
BsnI GGCC 3 cut(s) 98, 406, 638
Bsp120I GGGCCC 1 cut(s) 636
Bsp1286I GDGCHC 2 cut(s) 640, 737
Bsp143I GATC 2 cut(s) 52, 330
BspACI CCGC 2 cut(s) 47, 585
BspANI GGCC 3 cut(s) 98, 406, 638
BspCNI CTCAG 1 cut(s) 211
BspDI ATCGAT 1 cut(s) 529
BspLI GGNNCC 3 cut(s) 390, 638, 741
BspMAI CTGCAG 1 cut(s) 592
BspOI GCTAGC 1 cut(s) 818
BspPI GGATC 2 cut(s) 47, 338
BspQI GCTCTTC 1 cut(s) 186
BsrDI GCAATG 1 cut(s) 120
BsrI ACTGG 1 cut(s) 545
BssMI GATC 2 cut(s) 52, 330
Bst4CI ACNGT 2 cut(s) 188, 806
Bst6I CTCTTC 4 cut(s) 87, 186, 201, 374
BstAPI GCANNNNNTGC 1 cut(s) 353
BstBAI YACGTR 1 cut(s) 353
BstC8I GCNNGC 3 cut(s) 305, 309, 816
BstDEI CTNAG 3 cut(s) 219, 258, 282
BstF5I GGATG 1 cut(s) 549
BstHHI GCGC 2 cut(s) 551, 759
BstKTI GATC 2 cut(s) 55, 333
BstMAI GTCTC 3 cut(s) 95, 203, 228
BstMBI GATC 2 cut(s) 52, 330
BstMWI GCNNNNNNNGC 3 cut(s) 353, 388, 599
BstNSI RCATGY 2 cut(s) 307, 483
BstSFI CTRYAG 1 cut(s) 588
BstSLI GKGCMC 1 cut(s) 640
BstV1I GCAGC 2 cut(s) 574, 602
BstX2I RGATCY 1 cut(s) 52
BstYI RGATCY 1 cut(s) 52
Bsu15I ATCGAT 1 cut(s) 529
BsuRI GGCC 3 cut(s) 98, 406, 638
BsuTUI ATCGAT 1 cut(s) 529
BtsCI GGATG 1 cut(s) 549
BtsIMutI CAGTG 1 cut(s) 193
Cac8I GCNNGC 3 cut(s) 305, 309, 816
CfoI GCGC 2 cut(s) 551, 759
Cfr13I GGNCC 3 cut(s) 251, 636, 637
ClaI ATCGAT 1 cut(s) 529
CviAII CATG 5 cut(s) 299, 304, 320, 402, 480
DdeI CTNAG 3 cut(s) 219, 258, 282
DpnI GATC 2 cut(s) 54, 332
DpnII GATC 2 cut(s) 52, 330
Eam1104I CTCTTC 4 cut(s) 87, 186, 201, 374
EarI CTCTTC 4 cut(s) 87, 186, 201, 374
Eco24I GRGCYC 2 cut(s) 640, 737
Eco32I GATATC 1 cut(s) 533
Eco47I GGWCC 1 cut(s) 251
Eco57I CTGAAG 2 cut(s) 225, 507
Eco72I CACGTG 1 cut(s) 353
EcoO109I RGGNCCY 1 cut(s) 251
EcoRV GATATC 1 cut(s) 533
EcoT22I ATGCAT 1 cut(s) 508
EcoT38I GRGCYC 2 cut(s) 640, 737
FaeI CATG 5 cut(s) 302, 307, 323, 405, 483
FaqI GGGAC 1 cut(s) 309
FatI CATG 5 cut(s) 298, 303, 319, 401, 479
Fnu4HI GCNGC 2 cut(s) 588, 591
FokI GGATG 1 cut(s) 556
FriOI GRGCYC 2 cut(s) 640, 737
Fsp4HI GCNGC 2 cut(s) 588, 591
FspBI CTAG 2 cut(s) 815, 819
GlaI GCGC 2 cut(s) 550, 758
GluI GCNGC 2 cut(s) 588, 591
HaeIII GGCC 3 cut(s) 98, 406, 638
HhaI GCGC 2 cut(s) 551, 759
Hin1II CATG 5 cut(s) 302, 307, 323, 405, 483
Hin6I GCGC 2 cut(s) 549, 757
HinP1I GCGC 2 cut(s) 549, 757
HincII GTYRAC 1 cut(s) 802
HindII GTYRAC 1 cut(s) 802
HinfI GANTC 2 cut(s) 139, 221
HphI GGTGA 2 cut(s) 299, 788
Hpy166II GTNNAC 2 cut(s) 724, 802
Hpy188I TCNGA 2 cut(s) 220, 487
Hpy188III TCNNGA 3 cut(s) 536, 704, 785
Hpy8I GTNNAC 2 cut(s) 724, 802
HpyAV CCTTC 3 cut(s) 186, 240, 321
HpyCH4III ACNGT 2 cut(s) 188, 806
HpyCH4IV ACGT 2 cut(s) 352, 451
HpyCH4V TGCA 8 cut(s) 22, 68, 125, 239, 356, 506, 590, 771
HpyF10VI GCNNNNNNNGC 3 cut(s) 353, 388, 599
HpyF3I CTNAG 3 cut(s) 219, 258, 282
HpySE526I ACGT 2 cut(s) 352, 451
Hsp92II CATG 5 cut(s) 302, 307, 323, 405, 483
HspAI GCGC 2 cut(s) 549, 757
Kzo9I GATC 2 cut(s) 52, 330
LguI GCTCTTC 1 cut(s) 186
LmnI GCTCC 3 cut(s) 4, 278, 388
LpnPI CCDG 8 cut(s) 228, 234, 321, 526, 549, 659, 678, 770
Lsp1109I GCAGC 2 cut(s) 574, 602
LweI GCATC 1 cut(s) 55
MaeI CTAG 2 cut(s) 815, 819
MaeII ACGT 2 cut(s) 352, 451
MaeIII GTNAC 1 cut(s) 464
MalI GATC 2 cut(s) 54, 332
MboI GATC 2 cut(s) 52, 330
MfeI CAATTG 1 cut(s) 641
MflI RGATCY 1 cut(s) 52
MhlI GDGCHC 2 cut(s) 640, 737
MluCI AATT 4 cut(s) 39, 473, 604, 641
MlyI GAGTC 2 cut(s) 148, 230
MmeI TCCRAC 1 cut(s) 69
MnlI CCTC 7 cut(s) 88, 109, 264, 266, 351, 417, 757
Mph1103I ATGCAT 1 cut(s) 508
MroXI GAANNNNTTC 1 cut(s) 42
MseI TTAA 1 cut(s) 155
MspA1I CMGCKG 2 cut(s) 311, 587
MunI CAATTG 1 cut(s) 641
Mva1269I GAATGC 1 cut(s) 508
MwoI GCNNNNNNNGC 3 cut(s) 353, 388, 599
NdeII GATC 2 cut(s) 52, 330
NheI GCTAGC 1 cut(s) 814
NlaIII CATG 5 cut(s) 302, 307, 323, 405, 483
NlaIV GGNNCC 3 cut(s) 390, 638, 741
NmeAIII GCCGAG 1 cut(s) 124
NsiI ATGCAT 1 cut(s) 508
NspI RCATGY 2 cut(s) 307, 483
PaeI GCATGC 1 cut(s) 307
PciSI GCTCTTC 1 cut(s) 186
PctI GAATGC 1 cut(s) 508
PdmI GAANNNNTTC 1 cut(s) 42
PflFI GACNNNGTC 1 cut(s) 214
PkrI GCNGC 2 cut(s) 589, 592
PleI GAGTC 2 cut(s) 147, 229
PmaCI CACGTG 1 cut(s) 353
PmlI CACGTG 1 cut(s) 353
PpsI GAGTC 2 cut(s) 147, 229
Ppu21I YACGTR 1 cut(s) 353
PpuMI RGGWCCY 1 cut(s) 251
Psp1406I AACGTT 1 cut(s) 451
Psp5II RGGWCCY 1 cut(s) 251
PspCI CACGTG 1 cut(s) 353
PspN4I GGNNCC 3 cut(s) 390, 638, 741
PspOMI GGGCCC 1 cut(s) 636
PspPI GGNCC 3 cut(s) 251, 636, 637
PspPPI RGGWCCY 1 cut(s) 251
PstI CTGCAG 1 cut(s) 592
PsuI RGATCY 1 cut(s) 52
PsyI GACNNNGTC 1 cut(s) 214
PvuII CAGCTG 1 cut(s) 311
SapI GCTCTTC 1 cut(s) 186
SaqAI TTAA 1 cut(s) 155
SatI GCNGC 2 cut(s) 588, 591
Sau3AI GATC 2 cut(s) 52, 330
Sau96I GGNCC 3 cut(s) 251, 636, 637
SchI GAGTC 2 cut(s) 148, 230
SduI GDGCHC 2 cut(s) 640, 737
SfaNI GCATC 1 cut(s) 55
SfcI CTRYAG 1 cut(s) 588
SinI GGWCC 1 cut(s) 251
SmlI CTYRAG 1 cut(s) 342
SmoI CTYRAG 1 cut(s) 342
SphI GCATGC 1 cut(s) 307
Sse9I AATT 4 cut(s) 39, 473, 604, 641
SsiI CCGC 2 cut(s) 47, 585
SspI AATATT 1 cut(s) 360
SspMI CTAG 2 cut(s) 815, 819
TaaI ACNGT 2 cut(s) 188, 806
TaiI ACGT 2 cut(s) 355, 454
TaqI TCGA 1 cut(s) 529
TasI AATT 4 cut(s) 39, 473, 604, 641
Tru1I TTAA 1 cut(s) 155
Tru9I TTAA 1 cut(s) 155
TscAI CASTG 1 cut(s) 193
TseI GCWGC 2 cut(s) 587, 590
TspDTI ATGAA 2 cut(s) 75, 462
TspGWI ACGGA 2 cut(s) 339, 401
TspRI CASTG 1 cut(s) 193
Tth111I GACNNNGTC 1 cut(s) 214
VpaK11BI GGWCC 1 cut(s) 251
XapI RAATTY 2 cut(s) 39, 473
XceI RCATGY 2 cut(s) 307, 483
XcmI CCANNNNNNNNNTGG 2 cut(s) 399, 750
XmnI GAANNNNTTC 1 cut(s) 42
XspI CTAG 2 cut(s) 815, 819
Zsp2I ATGCAT 1 cut(s) 508
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.