Rh6CG089700

Plant transposase (Ptta/En/Spm family)

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr6C
OG0000178
Physical Location & Seq
Reverse (-)
9912045 .. 9914260
2216 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh6CG089700.1

Sequence Viewer

Length: 852 bp
ATGAGATCATCTCCGCTTTCCCCTTCACCTCCATATATGCGCACAGTCTTATCAACCTCTAATCAGCACACATCAACTCCAAGTGCACATGAAGAGATAGCTGAATCTTCTCAAGTTGCTCATCCTCCTACCTTAGAAGAGAACATTGGTGCCGCCCAGAAGAAACGACGTGGTGAGACTCGAGGTCTTGGGGCAGCCAAGAAGAAACGACCTAGTAATCAAATAGAGATTGATATTCCAGAGCATGTAAAACGAGCCGTAGGAGAGAATTGCCAGTCTTACATCACAGAGATAGGCTGCATTGTTAGGCAAAATGCTCCATTACAAGTTAAGCATTGGAGTGGAATTGACAGGGATGATGTTGCTACGATGGTTCGTCTTGTCTGTGAGAAATTCAAATTGGGGAATGAACCACACGTGAATGAGGCTATTGAGGCAAACATGAAAAGAAGATATAGCACTTGGCGATACAATGTGCATAAGACGTTTTTGCAATATGAATCAGCGGAGGAGGCACTTGAGAACAGACCTGAAAATGTGGGAGAAGATGACTGGGATTTTCTCATCAATTGGTGGCATGATGACGAGTGGCTGGAATTGAGCGGAAAAAATAAGAAAAATAGAGATAAGCTAACAATAACTCATTGTGCTTGGACAAAAGCATTTAGTCGCATTAGATACGAAAATCAAAATCCTAAGACCGGAGAGGAACCTAGCCGTATTGACATGTTCAAGCTGACAAGATTTAGGGAAAACAAGAAAACATGGGTCGGAGATGTCGCTGAAAATGCTTATGGTGAGATGACAAAACTAAGAATCCTAAGCAAACAGATGAAGGGTCAGAAAAAGTAA
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

283

Amino Acids

32.75

Weight (kDa)

9.01

Isoelectric Point (pI)

46.39

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Transposase_24 PF03004 182 - 271 2.7e-12 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: OG0000178)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G40087 AT3G30200
fragaria_vesca FvH4_1g23271 FvH4_3g22812 FvH4_3g22813 FvH4_3g31042 FvH4_3g31043 FvH4_7g03653
malus_domestica MD05G1321200.v1.1 MD09G1027200.v1.1 MD15G1434900.v1.1 MD15G1435000.v1.1 MD15G1435100.v1.1
prunus_persica Prupe.1G578800_v2.0.a1 Prupe.1G578800_v2.0.a1 Prupe.1G578800_v2.0.a1 Prupe.2G062700_v2.0.a1 Prupe.5G033400_v2.0.a1 Prupe.7G022900_v2.0.a1 Prupe.7G105300_v2.0.a1 Prupe.7G105300_v2.0.a1 Prupe.7G105300_v2.0.a1 Prupe.7G105300_v2.0.a1 Prupe.7G105300_v2.0.a1 Prupe.7G105300_v2.0.a1 Prupe.7G105300_v2.0.a1
pyrus_communis pycom03g07600 pycom03g11360 pycom05g02870 pycom111g02130 pycom15g38370 pycom15g38380
rosa_chinensis RchiOBHm_Chr1g0346371 RchiOBHm_Chr4g0402051 RchiOBHm_Chr4g0414991 RchiOBHm_Chr5g0051011 RchiOBHm_Chr5g0051181 RchiOBHm_Chr6g0273071 RchiOBHm_Chr7g0218301 RchiOBHm_Chr7g0241081
rosa_laevigata RLG00000007709 RLG00000008953 RLG00000012400 RLG00000012401 RLG00000013805 RLG00000014199 RLG00000014726 RLG00000017792 RLG00000017793 RLG00000018860 RLG00000020749 RLG00000030708 RLG00000033507
rosa_multiflora Rmu_co8373761.1_g000001 Rmu_sc0000028.1_g000023 Rmu_sc0000235.1_g000040 Rmu_sc0000293.1_g000017 Rmu_sc0000293.1_g000019 Rmu_sc0000651.1_g000012 Rmu_sc0000870.1_g000051 Rmu_sc0001167.1_g000031 Rmu_sc0001373.1_g000039 Rmu_sc0001861.1_g000055 Rmu_sc0001891.1_g000038 Rmu_sc0001909.1_g000015 Rmu_sc0002500.1_g000002 Rmu_sc0002868.1_g000036 Rmu_sc0002868.1_g000038 Rmu_sc0002868.1_g000039 Rmu_sc0003379.1_g000001 Rmu_sc0003778.1_g000005 Rmu_sc0003778.1_g000006 Rmu_sc0010475.1_g000011 Rmu_sc0015271.1_g000002 Rmu_sc0015271.1_g000003 Rmu_sc0017962.1_g000001 Rmu_sc0017962.1_g000003 Rmu_sc0022129.1_g000004 Rmu_sc0025694.1_g000003 Rmu_sc0025694.1_g000004
rosa_roxburghii Rroxscaffold_1G00031640 Rroxscaffold_1G00047620 Rroxscaffold_1G00047630 Rroxscaffold_1G00050560 Rroxscaffold_1G00050570 Rroxscaffold_1G00054800 Rroxscaffold_1G00055890 Rroxscaffold_2G00108230 Rroxscaffold_3G00240860 Rroxscaffold_4G00299670 Rroxscaffold_4G00299680 Rroxscaffold_4G00299690 Rroxscaffold_4G00306320 Rroxscaffold_4G00306340 Rroxscaffold_5G00341060 Rroxscaffold_5G00342000 Rroxscaffold_5G00355660 Rroxscaffold_5G00357170 Rroxscaffold_6G00399490 Rroxscaffold_6G00408400 Rroxscaffold_7G00189260 Rroxscaffold_7G00199620 Rroxscaffold_7G00215470
rosa_rugosa Rorug02G0117600 Rorug02G0117700 Rorug04G0116400 Rorug06G0103200
rosa_samantha Rh1AG062800 Rh1AG073700 Rh1CG091700 Rh1DG077600 Rh1DG077700 Rh1DG077800 Rh1DG117400 Rh1DG146300 Rh2BG193300 Rh2BG193400 Rh2BG265300 Rh2BG413400 Rh3CG365500 Rh4AG315400 Rh4BG323100 Rh4BG323200 Rh4CG071400 Rh4CG142500 Rh4CG203300 Rh4CG338300 Rh4DG079300 Rh4DG079400 Rh4DG217000 Rh4DG217100 Rh4DG217200 Rh4DG217300 Rh5AG128300 Rh5AG239900 Rh5AG465900 Rh5BG348600 Rh5BG387900 Rh5BG388000 Rh5CG181800 Rh5CG181900 Rh5CG271000 Rh5CG271100 Rh5DG127100 Rh5DG138400 Rh5DG168200 Rh5DG168300 Rh5DG361500 Rh5DG460400 Rh6AG045400 Rh6AG058600 Rh6BG275000 Rh6CG089700 Rh6DG182300 Rh6DG182400 Rh6DG207300 Rh6DG207400 Rh7BG374000 Rh7BG390600 Rh7BG390700 Rh7BG390800
rosa_wichuraiana Rw0G018690 Rw1G007320 Rw4G008510 Rw5G011510 Rw5G021830 Rw6G024150

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc16I TGCGCA 1 cut(s) 41
AccB1I GGYRCC 1 cut(s) 149
AccBSI CCGCTC 1 cut(s) 603
AciI CCGC 4 cut(s) 14, 153, 506, 603
AcsI RAATTY 1 cut(s) 392
AcvI CACGTG 1 cut(s) 418
AfiI CCNNNNNNNGG 1 cut(s) 701
AflIII ACRYGT 2 cut(s) 415, 726
AgsI TTSAA 2 cut(s) 397, 733
AhdI GACNNNNNGTC 1 cut(s) 183
AjiI CACGTC 1 cut(s) 170
AjuI GAANNNNNNNTTGG 4 cut(s) 129, 161, 383, 415
AluBI AGCT 3 cut(s) 101, 631, 736
AluI AGCT 3 cut(s) 101, 631, 736
Alw21I GWGCWC 1 cut(s) 88
Alw26I GTCTC 1 cut(s) 170
Alw44I GTGCAC 1 cut(s) 84
Ama87I CYCGRG 1 cut(s) 180
ApaLI GTGCAC 1 cut(s) 84
ApeKI GCWGC 2 cut(s) 194, 297
ApoI RAATTY 1 cut(s) 392
AspLEI GCGC 1 cut(s) 42
AsuHPI GGTGA 3 cut(s) 18, 185, 809
AvaI CYCGRG 1 cut(s) 180
BaeGI GKGCMC 1 cut(s) 88
BanI GGYRCC 1 cut(s) 149
BbrPI CACGTG 1 cut(s) 418
Bbv12I GWGCWC 1 cut(s) 88
BbvI GCAGC 2 cut(s) 206, 284
BccI CCATC 1 cut(s) 364
BceAI ACGGC 2 cut(s) 242, 702
BcoDI GTCTC 1 cut(s) 170
BfaI CTAG 2 cut(s) 213, 714
BisI GCNGC 3 cut(s) 153, 195, 298
BlsI GCNGC 3 cut(s) 154, 196, 299
BmeRI GACNNNNNGTC 1 cut(s) 183
BmeT110I CYCGRG 1 cut(s) 180
BmgBI CACGTC 1 cut(s) 170
BmiI GGNNCC 2 cut(s) 151, 711
BmrI ACTGGG 1 cut(s) 562
BmuI ACTGGG 1 cut(s) 562
BplI GAGNNNNNCTC 1 cut(s) 27
Bpu10I CCTNAGC 1 cut(s) 821
BpuEI CTTGAG 2 cut(s) 96, 539
BsaAI YACGTR 1 cut(s) 418
BsaWI WCCGGW 1 cut(s) 701
BsaXI ACNNNNNCTCC 2 cut(s) 61, 91
Bsc4I CCNNNNNNNGG 1 cut(s) 701
Bse1I ACTGG 2 cut(s) 274, 557
BseGI GGATG 2 cut(s) 121, 361
BseLI CCNNNNNNNGG 1 cut(s) 701
BseNI ACTGG 2 cut(s) 274, 557
BseRI GAGGAG 1 cut(s) 524
BseSI GKGCMC 1 cut(s) 88
BseXI GCAGC 2 cut(s) 206, 284
BshNI GGYRCC 1 cut(s) 149
BsiHKAI GWGCWC 1 cut(s) 88
BsiHKCI CYCGRG 1 cut(s) 180
BsiSI CCGG 1 cut(s) 702
BslI CCNNNNNNNGG 1 cut(s) 701
BsmAI GTCTC 1 cut(s) 170
BsoBI CYCGRG 1 cut(s) 180
Bsp1286I GDGCHC 1 cut(s) 88
Bsp143I GATC 1 cut(s) 5
BspACI CCGC 4 cut(s) 14, 153, 506, 603
BspLI GGNNCC 2 cut(s) 151, 711
BspT107I GGYRCC 1 cut(s) 149
BsrBI CCGCTC 1 cut(s) 603
BsrI ACTGG 2 cut(s) 274, 557
BssMI GATC 1 cut(s) 5
Bst4CI ACNGT 1 cut(s) 46
Bst6I CTCTTC 2 cut(s) 87, 132
BstBAI YACGTR 1 cut(s) 418
BstDEI CTNAG 4 cut(s) 133, 696, 812, 821
BstF5I GGATG 2 cut(s) 121, 361
BstHHI GCGC 1 cut(s) 42
BstKTI GATC 1 cut(s) 8
BstMAI GTCTC 1 cut(s) 170
BstMBI GATC 1 cut(s) 5
BstMWI GCNNNNNNNGC 3 cut(s) 434, 512, 788
BstNSI RCATGY 2 cut(s) 248, 730
BstSLI GKGCMC 1 cut(s) 88
BstV1I GCAGC 2 cut(s) 206, 284
BtrI CACGTC 1 cut(s) 170
BtsCI GGATG 2 cut(s) 121, 361
CfoI GCGC 1 cut(s) 42
CviAII CATG 6 cut(s) 89, 245, 442, 578, 727, 765
CviJI RGCY 9 cut(s) 101, 197, 257, 297, 428, 592, 631, 717, 736
CviKI_1 RGCY 9 cut(s) 101, 197, 257, 297, 428, 592, 631, 717, 736
DdeI CTNAG 4 cut(s) 133, 696, 812, 821
DpnI GATC 1 cut(s) 7
DpnII GATC 1 cut(s) 5
DriI GACNNNNNGTC 1 cut(s) 183
Eam1104I CTCTTC 2 cut(s) 87, 132
Eam1105I GACNNNNNGTC 1 cut(s) 183
EarI CTCTTC 2 cut(s) 87, 132
Eco72I CACGTG 1 cut(s) 418
Eco88I CYCGRG 1 cut(s) 180
FaeI CATG 6 cut(s) 92, 248, 445, 581, 730, 768
FatI CATG 6 cut(s) 88, 244, 441, 577, 726, 764
Fnu4HI GCNGC 3 cut(s) 153, 195, 298
FokI GGATG 2 cut(s) 108, 368
Fsp4HI GCNGC 3 cut(s) 153, 195, 298
FspAI RTGCGCAY 1 cut(s) 41
FspBI CTAG 2 cut(s) 213, 714
FspI TGCGCA 1 cut(s) 41
GlaI GCGC 1 cut(s) 41
GluI GCNGC 3 cut(s) 153, 195, 298
HapII CCGG 1 cut(s) 702
HhaI GCGC 1 cut(s) 42
Hin1II CATG 6 cut(s) 92, 248, 445, 581, 730, 768
Hin6I GCGC 1 cut(s) 40
HinP1I GCGC 1 cut(s) 40
HinfI GANTC 4 cut(s) 104, 178, 500, 816
HpaII CCGG 1 cut(s) 702
HphI GGTGA 3 cut(s) 18, 185, 809
Hpy166II GTNNAC 1 cut(s) 86
Hpy188I TCNGA 2 cut(s) 773, 843
Hpy188III TCNNGA 1 cut(s) 239
Hpy8I GTNNAC 1 cut(s) 86
Hpy99I CGWCG 1 cut(s) 171
HpyAV CCTTC 2 cut(s) 33, 829
HpyCH4III ACNGT 1 cut(s) 46
HpyCH4IV ACGT 3 cut(s) 169, 417, 485
HpyCH4V TGCA 4 cut(s) 86, 300, 478, 493
HpyF10VI GCNNNNNNNGC 3 cut(s) 434, 512, 788
HpyF3I CTNAG 4 cut(s) 133, 696, 812, 821
HpySE526I ACGT 3 cut(s) 169, 417, 485
Hsp92II CATG 6 cut(s) 92, 248, 445, 581, 730, 768
HspAI GCGC 1 cut(s) 40
Kzo9I GATC 1 cut(s) 5
LmnI GCTCC 1 cut(s) 322
LpnPI CCDG 8 cut(s) 170, 252, 287, 337, 538, 543, 578, 715
Lsp1109I GCAGC 2 cut(s) 206, 284
MaeI CTAG 2 cut(s) 213, 714
MaeII ACGT 3 cut(s) 169, 417, 485
MalI GATC 1 cut(s) 7
MbiI CCGCTC 1 cut(s) 603
MboI GATC 1 cut(s) 5
MboII GAAGA 7 cut(s) 99, 104, 149, 172, 214, 462, 557
MfeI CAATTG 1 cut(s) 568
MhlI GDGCHC 1 cut(s) 88
MluCI AATT 6 cut(s) 268, 345, 392, 398, 568, 596
MlyI GAGTC 1 cut(s) 172
MmeI TCCRAC 1 cut(s) 751
MnlI CCTC 9 cut(s) 39, 67, 135, 176, 418, 427, 502, 505, 700
MseI TTAA 1 cut(s) 330
MslI CAYNNNNRTG 2 cut(s) 339, 420
MspA1I CMGCKG 1 cut(s) 506
MspI CCGG 1 cut(s) 702
MunI CAATTG 1 cut(s) 568
MwoI GCNNNNNNNGC 3 cut(s) 434, 512, 788
NdeII GATC 1 cut(s) 5
NlaIII CATG 6 cut(s) 92, 248, 445, 581, 730, 768
NlaIV GGNNCC 2 cut(s) 151, 711
NsbI TGCGCA 1 cut(s) 41
NspI RCATGY 2 cut(s) 248, 730
PaeR7I CTCGAG 1 cut(s) 180
PciI ACATGT 1 cut(s) 726
PfeI GAWTC 3 cut(s) 104, 500, 816
PkrI GCNGC 3 cut(s) 154, 196, 299
PleI GAGTC 1 cut(s) 172
PmaCI CACGTG 1 cut(s) 418
PmlI CACGTG 1 cut(s) 418
PpsI GAGTC 1 cut(s) 172
Ppu21I YACGTR 1 cut(s) 418
PscI ACATGT 1 cut(s) 726
PspCI CACGTG 1 cut(s) 418
PspN4I GGNNCC 2 cut(s) 151, 711
PspXI VCTCGAGB 1 cut(s) 180
RseI CAYNNNNRTG 2 cut(s) 339, 420
SaqAI TTAA 1 cut(s) 330
SatI GCNGC 3 cut(s) 153, 195, 298
Sau3AI GATC 1 cut(s) 5
SchI GAGTC 1 cut(s) 172
SduI GDGCHC 1 cut(s) 88
Sfr274I CTCGAG 1 cut(s) 180
SlaI CTCGAG 1 cut(s) 180
SmiMI CAYNNNNRTG 2 cut(s) 339, 420
SmlI CTYRAG 3 cut(s) 111, 180, 518
SmoI CTYRAG 3 cut(s) 111, 180, 518
Sse9I AATT 6 cut(s) 268, 345, 392, 398, 568, 596
SsiI CCGC 4 cut(s) 14, 153, 506, 603
SspMI CTAG 2 cut(s) 213, 714
TaaI ACNGT 1 cut(s) 46
TaiI ACGT 3 cut(s) 172, 420, 488
TaqI TCGA 1 cut(s) 181
TasI AATT 6 cut(s) 268, 345, 392, 398, 568, 596
TauI GCSGC 1 cut(s) 155
TfiI GAWTC 3 cut(s) 104, 500, 816
Tru1I TTAA 1 cut(s) 330
Tru9I TTAA 1 cut(s) 330
TseI GCWGC 2 cut(s) 194, 297
TspDTI ATGAA 5 cut(s) 105, 423, 458, 513, 848
VneI GTGCAC 1 cut(s) 84
XapI RAATTY 1 cut(s) 392
XceI RCATGY 2 cut(s) 248, 730
XhoI CTCGAG 1 cut(s) 180
XspI CTAG 2 cut(s) 213, 714
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.