Rroxscaffold_6G00412600

Transposase family tnp2

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000006
OG0000450
Physical Location & Seq
Forward (+)
35124519 .. 35125046
528 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_6G00412600.1

Sequence Viewer

Length: 528 bp
ATGCGTTCTTTGGCCCGAAGTCCTGGAAAGCAAGCTGTCTACTACAAAGGTTACAATATCCATGGATATCGGTTCCATACTGTACAACATGACGTGACGAAGAAAACACAAAATAGCGGAGTTATGGTCAAAGGAGAGAACCAAATTAATTGTGTGCCTTGGTATGGAACCCTTACGGACGTCGTTGAGCTCTTGTATACAGATCACAATAAAGTTGTCTTGTTTCACTGTAATTGGTTTGACACAGCTACCAAAGGCAAAGGTTATAAGGAAGATCGTTATGGCATACTAAGTGTCAACAATAAGGGTAAGTTGAATACCCAAGAGCCATTTGTGCTGGCATCCCAAGCAACCCAAGTTTATTATGTTGAAGGAATAAAAAACAGTGCTTGGAGTGTTGTGGTGGAAACCAAACCCAGAAATGTTTTTGAAATGCCTATTGATGAAGAGGAACCGTATCAAGAAGAAGAATCGCAGACGAGTCACACATATGCAAACCGTAACGAGGAAGAAGATAATGAAGAATGA
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
DUF4216 DUF4218 Transpos_assoc Transposase_21

Protein Analysis

175

Amino Acids

20.24

Weight (kDa)

5.55

Isoelectric Point (pI)

38.67

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
DUF4216 PF13952 63 - 134 1.4e-25 Domain of unknown function (DUF4216)
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)
AanI TTATAA 1 cut(s) 267
AatII GACGTC 1 cut(s) 183
AccI GTMKAC 2 cut(s) 39, 197
AciI CCGC 1 cut(s) 117
AcyI GRCGYC 1 cut(s) 180
AfaI GTAC 1 cut(s) 84
AfiI CCNNNNNNNGG 2 cut(s) 164, 505
AgsI TTSAA 3 cut(s) 316, 371, 431
AjiI CACGTC 1 cut(s) 94
AjnI CCWGG 1 cut(s) 22
AluBI AGCT 3 cut(s) 35, 190, 248
AluI AGCT 3 cut(s) 35, 190, 248
Alw21I GWGCWC 1 cut(s) 192
AoxI GGCC 1 cut(s) 12
AseI ATTAAT 1 cut(s) 147
AspS9I GGNCC 1 cut(s) 13
BanII GRGCYC 1 cut(s) 192
Bbv12I GWGCWC 1 cut(s) 192
BciT130I CCWGG 1 cut(s) 24
Bme1390I CCNGG 1 cut(s) 24
BmgBI CACGTC 1 cut(s) 94
BmgT120I GGNCC 1 cut(s) 13
BmiI GGNNCC 3 cut(s) 74, 169, 453
BmrFI CCNGG 1 cut(s) 24
BmsI GCATC 1 cut(s) 350
BsaHI GRCGYC 1 cut(s) 180
BsaJI CCNNGG 2 cut(s) 61, 158
BsaXI ACNNNNNCTCC 2 cut(s) 111, 141
Bsc4I CCNNNNNNNGG 2 cut(s) 164, 505
BseBI CCWGG 1 cut(s) 24
BseDI CCNNGG 2 cut(s) 61, 158
BseGI GGATG 1 cut(s) 341
BseLI CCNNNNNNNGG 2 cut(s) 164, 505
BshFI GGCC 1 cut(s) 14
BsiHKAI GWGCWC 1 cut(s) 192
BslI CCNNNNNNNGG 2 cut(s) 164, 505
BsnI GGCC 1 cut(s) 14
Bsp1286I GDGCHC 1 cut(s) 192
Bsp1407I TGTACA 1 cut(s) 82
Bsp143I GATC 2 cut(s) 202, 274
Bsp19I CCATGG 1 cut(s) 61
BspACI CCGC 1 cut(s) 117
BspANI GGCC 1 cut(s) 14
BspLI GGNNCC 3 cut(s) 74, 169, 453
BsrGI TGTACA 1 cut(s) 82
BssECI CCNNGG 2 cut(s) 61, 158
BssMI GATC 2 cut(s) 202, 274
BssNAI GTATAC 1 cut(s) 198
BssNI GRCGYC 1 cut(s) 180
BssT1I CCWWGG 2 cut(s) 61, 158
Bst1107I GTATAC 1 cut(s) 198
Bst2UI CCWGG 1 cut(s) 24
Bst4CI ACNGT 5 cut(s) 82, 230, 386, 456, 500
Bst6I CTCTTC 1 cut(s) 441
BstACI GRCGYC 1 cut(s) 180
BstAUI TGTACA 1 cut(s) 82
BstC8I GCNNGC 2 cut(s) 33, 339
BstDEI CTNAG 1 cut(s) 290
BstDSI CCRYGG 1 cut(s) 61
BstF5I GGATG 1 cut(s) 341
BstKTI GATC 2 cut(s) 205, 277
BstMBI GATC 2 cut(s) 202, 274
BstMWI GCNNNNNNNGC 2 cut(s) 334, 347
BstNI CCWGG 1 cut(s) 24
BstSCI CCNGG 1 cut(s) 22
BstZ17I GTATAC 1 cut(s) 198
BsuRI GGCC 1 cut(s) 14
BtgI CCRYGG 1 cut(s) 61
BtrI CACGTC 1 cut(s) 94
BtsCI GGATG 1 cut(s) 341
BtsIMutI CAGTG 2 cut(s) 226, 391
Cac8I GCNNGC 2 cut(s) 33, 339
Cfr13I GGNCC 1 cut(s) 13
Csp6I GTAC 1 cut(s) 83
CviAII CATG 2 cut(s) 62, 89
CviJI RGCY 5 cut(s) 14, 35, 190, 248, 328
CviKI_1 RGCY 5 cut(s) 14, 35, 190, 248, 328
CviQI GTAC 1 cut(s) 83
DdeI CTNAG 1 cut(s) 290
DpnI GATC 2 cut(s) 204, 276
DpnII GATC 2 cut(s) 202, 274
Eam1104I CTCTTC 1 cut(s) 441
EarI CTCTTC 1 cut(s) 441
Ecl136II GAGCTC 1 cut(s) 190
Eco130I CCWWGG 2 cut(s) 61, 158
Eco24I GRGCYC 1 cut(s) 192
Eco32I GATATC 1 cut(s) 68
Eco53kI GAGCTC 1 cut(s) 190
EcoICRI GAGCTC 1 cut(s) 190
EcoRII CCWGG 1 cut(s) 22
EcoRV GATATC 1 cut(s) 68
EcoT14I CCWWGG 2 cut(s) 61, 158
EcoT38I GRGCYC 1 cut(s) 192
ErhI CCWWGG 2 cut(s) 61, 158
FaeI CATG 2 cut(s) 65, 92
FatI CATG 2 cut(s) 61, 88
FauNDI CATATG 1 cut(s) 490
FblI GTMKAC 2 cut(s) 39, 197
FokI GGATG 1 cut(s) 328
FriOI GRGCYC 1 cut(s) 192
HaeIII GGCC 1 cut(s) 14
Hin1I GRCGYC 1 cut(s) 180
Hin1II CATG 2 cut(s) 65, 92
HincII GTYRAC 1 cut(s) 298
HindII GTYRAC 1 cut(s) 298
HinfI GANTC 2 cut(s) 470, 481
Hpy166II GTNNAC 3 cut(s) 40, 198, 298
Hpy188III TCNNGA 1 cut(s) 461
Hpy8I GTNNAC 3 cut(s) 40, 198, 298
Hpy99I CGWCG 1 cut(s) 185
HpyAV CCTTC 1 cut(s) 365
HpyCH4III ACNGT 5 cut(s) 82, 230, 386, 456, 500
HpyCH4IV ACGT 2 cut(s) 93, 180
HpyCH4V TGCA 1 cut(s) 494
HpyF10VI GCNNNNNNNGC 2 cut(s) 334, 347
HpyF3I CTNAG 1 cut(s) 290
HpySE526I ACGT 2 cut(s) 93, 180
Hsp92I GRCGYC 1 cut(s) 180
Hsp92II CATG 2 cut(s) 65, 92
Kzo9I GATC 2 cut(s) 202, 274
LpnPI CCDG 4 cut(s) 9, 36, 323, 430
LweI GCATC 1 cut(s) 350
MaeII ACGT 2 cut(s) 93, 180
MaeIII GTNAC 4 cut(s) 50, 94, 482, 500
MalI GATC 2 cut(s) 204, 276
MboI GATC 2 cut(s) 202, 274
MboII GAAGA 7 cut(s) 112, 284, 458, 476, 479, 521, 524
MhlI GDGCHC 1 cut(s) 192
MluCI AATT 3 cut(s) 144, 148, 232
MlyI GAGTC 1 cut(s) 490
MnlI CCTC 2 cut(s) 442, 499
MseI TTAA 1 cut(s) 147
MslI CAYNNNNRTG 1 cut(s) 489
MspR9I CCNGG 1 cut(s) 24
MvaI CCWGG 1 cut(s) 24
MwoI GCNNNNNNNGC 2 cut(s) 334, 347
NcoI CCATGG 1 cut(s) 61
NdeI CATATG 1 cut(s) 490
NdeII GATC 2 cut(s) 202, 274
NlaIII CATG 2 cut(s) 65, 92
NlaIV GGNNCC 3 cut(s) 74, 169, 453
NmuCI GTSAC 2 cut(s) 94, 482
PfeI GAWTC 1 cut(s) 470
PfoI TCCNGGA 1 cut(s) 22
PleI GAGTC 1 cut(s) 489
PpsI GAGTC 1 cut(s) 489
PshBI ATTAAT 1 cut(s) 147
PsiI TTATAA 1 cut(s) 267
Psp124BI GAGCTC 1 cut(s) 192
Psp6I CCWGG 1 cut(s) 22
PspGI CCWGG 1 cut(s) 22
PspN4I GGNNCC 3 cut(s) 74, 169, 453
PspPI GGNCC 1 cut(s) 13
RsaI GTAC 1 cut(s) 84
RsaNI GTAC 1 cut(s) 83
RseI CAYNNNNRTG 1 cut(s) 489
SacI GAGCTC 1 cut(s) 192
SaqAI TTAA 1 cut(s) 147
Sau3AI GATC 2 cut(s) 202, 274
Sau96I GGNCC 1 cut(s) 13
SchI GAGTC 1 cut(s) 490
ScrFI CCNGG 1 cut(s) 24
SduI GDGCHC 1 cut(s) 192
SetI ASST 7 cut(s) 37, 52, 96, 183, 192, 250, 265
SfaNI GCATC 1 cut(s) 350
SmiMI CAYNNNNRTG 1 cut(s) 489
Sse9I AATT 3 cut(s) 144, 148, 232
SsiI CCGC 1 cut(s) 117
SstI GAGCTC 1 cut(s) 192
StyD4I CCNGG 1 cut(s) 22
StyI CCWWGG 2 cut(s) 61, 158
TaaI ACNGT 5 cut(s) 82, 230, 386, 456, 500
TaiI ACGT 2 cut(s) 96, 183
TasI AATT 3 cut(s) 144, 148, 232
TatI WGTACW 1 cut(s) 82
TfiI GAWTC 1 cut(s) 470
Tru1I TTAA 1 cut(s) 147
Tru9I TTAA 1 cut(s) 147
TscAI CASTG 2 cut(s) 233, 391
TseFI GTSAC 2 cut(s) 94, 482
Tsp45I GTSAC 2 cut(s) 94, 482
TspDTI ATGAA 1 cut(s) 459
TspGWI ACGGA 1 cut(s) 191
TspRI CASTG 2 cut(s) 233, 391
VspI ATTAAT 1 cut(s) 147
XmiI GTMKAC 2 cut(s) 39, 197
ZraI GACGTC 1 cut(s) 181
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.