Rroxscaffold_6G00408400

Plant transposase (Ptta/En/Spm family)

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000006
OG0000178
Physical Location & Seq
Reverse (-)
30861468 .. 30864291
2824 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_6G00408400.1

Sequence Viewer

Length: 1236 bp
ATGGCCAAGAGATCACAAGGTCCTAAATTTTTGCATCAATTGCGAACATCAGCACTTCCACCAAACCACTTGCGAGCATCTGCTGAAAAGGTTTCTAGGATTGTAAAGCCTTTGGATAAACCTACAACACCTGCATGTCCATTGCAATCTTCAACTGAAAAGGTTTCTAAGGTTATAAAGCCTTTAGTTAAACCTACAACACTTTCAAGCCCATTGCGGTTATCTCCTAGAAAGCATTCAAAGACACAGCCTTCCACAAATCGATCAACACATCCTCGTCGACCTGCTATGCAGTCATCAAGGACTCCATCTCCTCCTTCTTCTCCACATGTTATGAGATCGTCTCCACTTTCCCATTCACCTCCACATATGCGCAGAGTCTTATCAACCTCTAATCAGCACGCATCAACTCCAAGTGCGCATGAAGAGATAGCTGAATCTTCTCAAGTTGCTCATCCTCCTACCTTAGAAGAGAACATTGGTGAGCATGTAAAACGAGCCGTAGGAGCGAATTGCCAGTCTTACATTACAGAGATAGGCTGCATTGTTAGGCAAAATGCTCCATTACAAGTTAAGCATTGGAGTGGAATTAGCAAGGATGATGTTGCTTCGATGGAGAAATTCAAATTGGGGAATGAACCACACGTGAATGAGGCTATTGAGGCAGACATGAAAAGAAGATATAGCACTTGGCGATACAATTTGCATAAGACATTTTTGCAATATGAATCAGTGGAGGAGGCACTTGAGAATAGACCTGAAAATGTGGGAGAAGATGACTGGAATTTTCTCAGCAATTGGTGGCACGATGACGAGTGGCTGGGTGAGATGACAAAATTGAAAAATCCTGAGCAAACAAATGAAGAGTCAGAAAAAGCAATGTCTGATGATGAGATATATGATAAAGTTCTTTCCACAATTGTTGGTCCACCTCCGTTAGGCTACATACGTGGTTTAGGAGCAGGTCCTAAGCCTAAAAATTCAAAGGTCTCCAATAATCATTCACAACTTCGGGAGGCTACACGGATGGCAGATGAGGCAGAGAGAAGATCTACCCAACTTGCAGAGGAGTTGGAGGCAATGAAGGCTAGTGCAGCTCAACAAAATGAAGAATTAGAGGTAGTGAAGGCTAGTGCAGCTCAACAAAATGAACAGTTAGAAGCAGTTAAAGTAAAGCAGAATGAGACGGACGCTCTTTTGAAAAAATTGCTGGAACAATTTTCCTCTAGGAAATAA
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

411

Amino Acids

46.11

Weight (kDa)

8.89

Isoelectric Point (pI)

58.12

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
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

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)
AanI TTATAA 1 cut(s) 176
AarI CACCTGC 1 cut(s) 139
Acc16I TGCGCA 2 cut(s) 374, 420
Acc36I ACCTGC 3 cut(s) 139, 292, 953
AccI GTMKAC 1 cut(s) 280
AciI CCGC 1 cut(s) 217
AcoI YGGCCR 1 cut(s) 3
AcsI RAATTY 4 cut(s) 26, 620, 784, 979
AcvI CACGTG 1 cut(s) 646
AfiI CCNNNNNNNGG 1 cut(s) 938
AflIII ACRYGT 2 cut(s) 328, 643
AgsI TTSAA 7 cut(s) 153, 207, 240, 625, 841, 984, 1201
AjuI GAANNNNNNNTTGG 4 cut(s) 462, 494, 611, 643
AluBI AGCT 3 cut(s) 434, 1097, 1139
AluI AGCT 3 cut(s) 434, 1097, 1139
Alw26I GTCTC 3 cut(s) 348, 994, 1178
AoxI GGCC 1 cut(s) 3
ApeKI GCWGC 3 cut(s) 540, 1094, 1136
ApoI RAATTY 4 cut(s) 26, 620, 784, 979
ArsI GACNNNNNNTTYG 4 cut(s) 503, 535, 851, 883
Asp700I GAANNNNTTC 1 cut(s) 235
AspLEI GCGC 2 cut(s) 375, 421
AspS9I GGNCC 3 cut(s) 20, 926, 965
AsuHPI GGTGA 3 cut(s) 351, 494, 836
AvaII GGWCC 3 cut(s) 20, 926, 965
BalI TGGCCA 1 cut(s) 5
BbrPI CACGTG 1 cut(s) 646
BbvI GCAGC 3 cut(s) 527, 1106, 1148
BccI CCATC 3 cut(s) 316, 607, 1021
BceAI ACGGC 1 cut(s) 485
BcoDI GTCTC 3 cut(s) 348, 994, 1178
BfaI CTAG 5 cut(s) 96, 228, 1089, 1131, 1227
BfuAI ACCTGC 3 cut(s) 139, 292, 953
BglII AGATCT 1 cut(s) 1049
BisI GCNGC 3 cut(s) 541, 1095, 1137
BlsI GCNGC 3 cut(s) 542, 1096, 1138
Bme18I GGWCC 3 cut(s) 20, 926, 965
BmgT120I GGNCC 3 cut(s) 20, 926, 965
BmsI GCATC 3 cut(s) 43, 86, 413
BplI GAGNNNNNCTC 2 cut(s) 328, 360
Bpu10I CCTNAGC 2 cut(s) 849, 969
BpuEI CTTGAG 2 cut(s) 429, 767
Bsa29I ATCGAT 1 cut(s) 262
BsaAI YACGTR 2 cut(s) 646, 950
BsaI GGTCTC 1 cut(s) 994
BsaXI ACNNNNNCTCC 2 cut(s) 295, 325
Bsc4I CCNNNNNNNGG 1 cut(s) 938
Bse1I ACTGG 2 cut(s) 517, 785
Bse3DI GCAATG 4 cut(s) 140, 212, 885, 1086
BseCI ATCGAT 1 cut(s) 262
BseGI GGATG 4 cut(s) 271, 454, 604, 1032
BseLI CCNNNNNNNGG 1 cut(s) 938
BseMI GCAATG 4 cut(s) 140, 212, 885, 1086
BseMII CTCAG 2 cut(s) 805, 840
BseNI ACTGG 2 cut(s) 517, 785
BseRI GAGGAG 3 cut(s) 303, 752, 1082
BseXI GCAGC 3 cut(s) 527, 1106, 1148
BseYI CCCAGC 1 cut(s) 820
BsgI GTGCAG 2 cut(s) 1113, 1155
BshFI GGCC 1 cut(s) 5
BshVI ATCGAT 1 cut(s) 262
BslI CCNNNNNNNGG 1 cut(s) 938
BsmAI GTCTC 3 cut(s) 348, 994, 1178
BsmBI CGTCTC 2 cut(s) 348, 1178
BsmI GAATGC 1 cut(s) 235
BsnI GGCC 1 cut(s) 5
Bso31I GGTCTC 1 cut(s) 994
Bsp143I GATC 4 cut(s) 11, 263, 338, 1049
BspACI CCGC 1 cut(s) 217
BspANI GGCC 1 cut(s) 5
BspCNI CTCAG 2 cut(s) 804, 841
BspDI ATCGAT 1 cut(s) 262
BspMI ACCTGC 3 cut(s) 139, 292, 953
BspTNI GGTCTC 1 cut(s) 994
BsrDI GCAATG 4 cut(s) 140, 212, 885, 1086
BsrI ACTGG 2 cut(s) 517, 785
BssMI GATC 4 cut(s) 11, 263, 338, 1049
Bst4CI ACNGT 1 cut(s) 1155
Bst6I CTCTTC 3 cut(s) 420, 465, 858
BstAPI GCANNNNNTGC 1 cut(s) 40
BstBAI YACGTR 2 cut(s) 646, 950
BstC8I GCNNGC 2 cut(s) 75, 402
BstDEI CTNAG 5 cut(s) 168, 466, 791, 849, 969
BstENI CCTNNNNNAGG 1 cut(s) 936
BstF5I GGATG 4 cut(s) 271, 454, 604, 1032
BstHHI GCGC 2 cut(s) 375, 421
BstKTI GATC 4 cut(s) 14, 266, 341, 1052
BstMAI GTCTC 3 cut(s) 348, 994, 1178
BstMBI GATC 4 cut(s) 11, 263, 338, 1049
BstMWI GCNNNNNNNGC 7 cut(s) 40, 506, 662, 1037, 1085, 1094, 1136
BstNSI RCATGY 3 cut(s) 138, 332, 491
BstV1I GCAGC 3 cut(s) 527, 1106, 1148
BstX2I RGATCY 1 cut(s) 1049
BstYI RGATCY 1 cut(s) 1049
Bsu15I ATCGAT 1 cut(s) 262
BsuRI GGCC 1 cut(s) 5
BsuTUI ATCGAT 1 cut(s) 262
BtsCI GGATG 4 cut(s) 271, 454, 604, 1032
BtsIMutI CAGTG 1 cut(s) 738
BveI ACCTGC 3 cut(s) 139, 292, 953
Cac8I GCNNGC 2 cut(s) 75, 402
CfoI GCGC 2 cut(s) 375, 421
Cfr13I GGNCC 3 cut(s) 20, 926, 965
ClaI ATCGAT 1 cut(s) 262
CseI GACGC 1 cut(s) 1199
CspCI CAANNNNNGTGG 2 cut(s) 904, 939
CviAII CATG 5 cut(s) 135, 329, 422, 488, 670
DdeI CTNAG 5 cut(s) 168, 466, 791, 849, 969
DpnI GATC 4 cut(s) 13, 265, 340, 1051
DpnII GATC 4 cut(s) 11, 263, 338, 1049
EaeI YGGCCR 1 cut(s) 3
Eam1104I CTCTTC 3 cut(s) 420, 465, 858
EarI CTCTTC 3 cut(s) 420, 465, 858
Eco31I GGTCTC 1 cut(s) 994
Eco47I GGWCC 3 cut(s) 20, 926, 965
Eco72I CACGTG 1 cut(s) 646
EcoNI CCTNNNNNAGG 1 cut(s) 936
EcoO109I RGGNCCY 2 cut(s) 20, 965
Esp3I CGTCTC 2 cut(s) 348, 1178
FaeI CATG 5 cut(s) 138, 332, 425, 491, 673
FatI CATG 5 cut(s) 134, 328, 421, 487, 669
FauNDI CATATG 1 cut(s) 369
FblI GTMKAC 1 cut(s) 280
Fnu4HI GCNGC 3 cut(s) 541, 1095, 1137
FokI GGATG 4 cut(s) 258, 441, 611, 1039
Fsp4HI GCNGC 3 cut(s) 541, 1095, 1137
FspAI RTGCGCAY 1 cut(s) 420
FspBI CTAG 5 cut(s) 96, 228, 1089, 1131, 1227
FspI TGCGCA 2 cut(s) 374, 420
GlaI GCGC 2 cut(s) 374, 420
GluI GCNGC 3 cut(s) 541, 1095, 1137
GsaI CCCAGC 1 cut(s) 824
HaeIII GGCC 1 cut(s) 5
HgaI GACGC 1 cut(s) 1199
HhaI GCGC 2 cut(s) 375, 421
Hin1II CATG 5 cut(s) 138, 332, 425, 491, 673
Hin6I GCGC 2 cut(s) 373, 419
HinP1I GCGC 2 cut(s) 373, 419
HincII GTYRAC 1 cut(s) 281
HindII GTYRAC 1 cut(s) 281
HinfI GANTC 5 cut(s) 304, 378, 437, 728, 866
HphI GGTGA 3 cut(s) 351, 494, 836
Hpy166II GTNNAC 2 cut(s) 281, 929
Hpy188I TCNGA 2 cut(s) 871, 886
Hpy188III TCNNGA 2 cut(s) 848, 1013
Hpy8I GTNNAC 2 cut(s) 281, 929
Hpy99I CGWCG 1 cut(s) 282
HpyAV CCTTC 4 cut(s) 261, 327, 1078, 1120
HpyCH4III ACNGT 1 cut(s) 1155
HpyCH4IV ACGT 2 cut(s) 645, 949
HpyF10VI GCNNNNNNNGC 7 cut(s) 40, 506, 662, 1037, 1085, 1094, 1136
HpyF3I CTNAG 5 cut(s) 168, 466, 791, 849, 969
HpySE526I ACGT 2 cut(s) 645, 949
Hsp92II CATG 5 cut(s) 138, 332, 425, 491, 673
HspAI GCGC 2 cut(s) 373, 419
Kzo9I GATC 4 cut(s) 11, 263, 338, 1049
LmnI GCTCC 3 cut(s) 506, 565, 959
LpnPI CCDG 9 cut(s) 144, 297, 530, 766, 771, 806, 861, 948, 1196
Lsp1109I GCAGC 3 cut(s) 527, 1106, 1148
LweI GCATC 3 cut(s) 43, 86, 413
MaeI CTAG 5 cut(s) 96, 228, 1089, 1131, 1227
MaeII ACGT 2 cut(s) 645, 949
MalI GATC 4 cut(s) 13, 265, 340, 1051
MboI GATC 4 cut(s) 11, 263, 338, 1049
MfeI CAATTG 3 cut(s) 38, 796, 918
MflI RGATCY 1 cut(s) 1049
MlsI TGGCCA 1 cut(s) 5
MluNI TGGCCA 1 cut(s) 5
MlyI GAGTC 3 cut(s) 298, 387, 875
MmeI TCCRAC 1 cut(s) 1053
Mox20I TGGCCA 1 cut(s) 5
MroXI GAANNNNTTC 1 cut(s) 235
MscI TGGCCA 1 cut(s) 5
MseI TTAA 3 cut(s) 189, 573, 1167
MslI CAYNNNNRTG 3 cut(s) 133, 582, 648
Msp20I TGGCCA 1 cut(s) 5
MunI CAATTG 3 cut(s) 38, 796, 918
Mva1269I GAATGC 1 cut(s) 235
MwoI GCNNNNNNNGC 7 cut(s) 40, 506, 662, 1037, 1085, 1094, 1136
NdeI CATATG 1 cut(s) 369
NdeII GATC 4 cut(s) 11, 263, 338, 1049
NlaIII CATG 5 cut(s) 138, 332, 425, 491, 673
NsbI TGCGCA 2 cut(s) 374, 420
NspI RCATGY 3 cut(s) 138, 332, 491
PaqCI CACCTGC 1 cut(s) 139
PciI ACATGT 1 cut(s) 328
PctI GAATGC 1 cut(s) 235
PdmI GAANNNNTTC 1 cut(s) 235
PfeI GAWTC 2 cut(s) 437, 728
PkrI GCNGC 3 cut(s) 542, 1096, 1138
PleI GAGTC 3 cut(s) 298, 386, 874
PmaCI CACGTG 1 cut(s) 646
PmlI CACGTG 1 cut(s) 646
PpsI GAGTC 3 cut(s) 298, 386, 874
Ppu21I YACGTR 2 cut(s) 646, 950
PpuMI RGGWCCY 2 cut(s) 20, 965
PscI ACATGT 1 cut(s) 328
PsiI TTATAA 1 cut(s) 176
Psp5II RGGWCCY 2 cut(s) 20, 965
PspCI CACGTG 1 cut(s) 646
PspFI CCCAGC 1 cut(s) 820
PspPI GGNCC 3 cut(s) 20, 926, 965
PspPPI RGGWCCY 2 cut(s) 20, 965
PsuI RGATCY 1 cut(s) 1049
RseI CAYNNNNRTG 3 cut(s) 133, 582, 648
SalI GTCGAC 1 cut(s) 279
SaqAI TTAA 3 cut(s) 189, 573, 1167
SatI GCNGC 3 cut(s) 541, 1095, 1137
Sau3AI GATC 4 cut(s) 11, 263, 338, 1049
Sau96I GGNCC 3 cut(s) 20, 926, 965
SchI GAGTC 3 cut(s) 298, 387, 875
SfaNI GCATC 3 cut(s) 43, 86, 413
SinI GGWCC 3 cut(s) 20, 926, 965
SmiMI CAYNNNNRTG 3 cut(s) 133, 582, 648
SmlI CTYRAG 2 cut(s) 444, 746
SmoI CTYRAG 2 cut(s) 444, 746
SsiI CCGC 1 cut(s) 217
SspMI CTAG 5 cut(s) 96, 228, 1089, 1131, 1227
TaaI ACNGT 1 cut(s) 1155
TaiI ACGT 2 cut(s) 648, 952
TaqI TCGA 3 cut(s) 262, 280, 611
TfiI GAWTC 2 cut(s) 437, 728
Tru1I TTAA 3 cut(s) 189, 573, 1167
Tru9I TTAA 3 cut(s) 189, 573, 1167
TscAI CASTG 1 cut(s) 738
TseI GCWGC 3 cut(s) 540, 1094, 1136
TspDTI ATGAA 8 cut(s) 438, 651, 686, 741, 876, 1097, 1122, 1164
TspGWI ACGGA 3 cut(s) 924, 1039, 1202
TspRI CASTG 1 cut(s) 738
VpaK11BI GGWCC 3 cut(s) 20, 926, 965
XagI CCTNNNNNAGG 1 cut(s) 936
XapI RAATTY 4 cut(s) 26, 620, 784, 979
XceI RCATGY 3 cut(s) 138, 332, 491
XmiI GTMKAC 1 cut(s) 280
XmnI GAANNNNTTC 1 cut(s) 235
XspI CTAG 5 cut(s) 96, 228, 1089, 1131, 1227
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.