Rroxscaffold_6G00412590

No description available

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000006
OG0000450
Physical Location & Seq
Reverse (-)
35115179 .. 35117871
2693 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_6G00412590.1

Sequence Viewer

Length: 1131 bp
ATGACAAAGAAAGGAAAAGGACAGAAAAGGGCAGCAAGCACATTACATCTCGAGTCTTCCACACGTTCACAGTCTGAAGACATTCCCAATGAATCAACACATGGTGACAAAGAGAAGGAAGGGCAGGAAACTGAGGCTACCAAGAGGCAAGGTAGAGGCCCCGCCAAAGGAGAAAAAGGCTACGGCATGAATGCAGAGATTTATGGAAAGAGGTATCTTTGCGAAGTATTTGGCCCCTCTTCGGTCGAGCTGCAAGGGCCATACATAACATGGGCACAATTTCCGCAAGAGGAATTGGATAGGTTGTTTGATCTATGGAAGAATAAAAATTTCAAATTTGATTGCTCCGAGGAAGAACTGAAAGATGTATTCACGGAACACATCAAGACTCGTTATAGTGACCGGATGAGTGAAATTTGGAATAGTGTTTTCCGCAAACACAAGACTGCTGCAGCTCGATATGCCAACAATCCGTCGTATTTGAAGCCAGAAATATGGACACCAATGGTTGATGAATGGCTAAAGGAAACGTGGCAGGAGAAGAGTGAGCGGAATGCAATTAATCGTGATAAATCAACTATGGTGCATACAACGGGTTCAGTTCCAATGGCGAAGTACATAAAAGAGGAGATTGATAAGACTGGAGTTGAACCGAGTCCAATAGAGATGTTTAGAAGGTTTCATATTTCTAAGCCTAAAGATGGAAAACCGGAACATTGGCAGAGTGAGAAGGCAAAGGATCTTTATGAATCTATGGAATTGCAAAAACGTATAGAGGAGACTTTGGGTGGTGATGGCGAAGATGAATTGGATGATTGGGACATATACAAGGAGGTGGTTGGTGGGTCTAAACATGGCAAAATTCGTGGCTTAGGAGACGGAATGGAACCACCTGAAGATGTGTGTGGTTCGAGTAGCAGCCAAACTTGCAATAAGCGCGTGTGTTTGGAACGCGACAAAGAGTTTGGACAATTGAAACAACAAGTTCATACTCTTACGGATATGGTGGCTGATTTGAAAGAACTCCTTCAAGGTTTCATGGCAAATAGTTCAAGTCATTCTCAATTTGCAAGAGAATCACCGTTTTCGGGTAAATCTACTAATGGAGATTCCGAAGCAAATGCATCTTGA
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

376

Amino Acids

42.87

Weight (kDa)

5.73

Isoelectric Point (pI)

51.01

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Transposase_24 PF03004 163 - 296 1.9e-19 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)
AccBSI CCGCTC 1 cut(s) 550
AccII CGCG 2 cut(s) 939, 954
AciI CCGC 4 cut(s) 162, 284, 433, 550
AclWI GGATC 1 cut(s) 747
AcsI RAATTY 4 cut(s) 328, 335, 414, 861
AcuI CTGAAG 2 cut(s) 96, 915
AdeI CACNNNGTG 1 cut(s) 104
AfaI GTAC 1 cut(s) 617
AfiI CCNNNNNNNGG 4 cut(s) 167, 241, 701, 1088
AflIII ACRYGT 1 cut(s) 62
AgsI TTSAA 7 cut(s) 334, 484, 650, 976, 1018, 1031, 1053
AluBI AGCT 2 cut(s) 250, 455
AluI AGCT 2 cut(s) 250, 455
Alw26I GTCTC 2 cut(s) 773, 870
AlwI GGATC 1 cut(s) 747
Ama87I CYCGRG 1 cut(s) 50
AoxI GGCC 3 cut(s) 157, 232, 257
ApeKI GCWGC 5 cut(s) 32, 250, 449, 452, 918
ApoI RAATTY 4 cut(s) 328, 335, 414, 861
ArsI GACNNNNNNTTYG 2 cut(s) 947, 979
AseI ATTAAT 1 cut(s) 561
Asp700I GAANNNNTTC 2 cut(s) 81, 1026
AspLEI GCGC 1 cut(s) 939
AspS9I GGNCC 3 cut(s) 158, 233, 257
AsuHPI GGTGA 3 cut(s) 116, 803, 1071
AvaI CYCGRG 1 cut(s) 50
BaeGI GKGCMC 1 cut(s) 277
BbsI GAAGAC 2 cut(s) 48, 84
BbvI GCAGC 5 cut(s) 44, 237, 436, 464, 930
BccI CCATC 2 cut(s) 695, 788
BceAI ACGGC 1 cut(s) 199
BcgI CGANNNNNNTGC 1 cut(s) 1103
BcoDI GTCTC 2 cut(s) 773, 870
BfmI CTRYAG 1 cut(s) 450
BisI GCNGC 5 cut(s) 33, 251, 450, 453, 919
BlsI GCNGC 5 cut(s) 34, 252, 451, 454, 920
BmeT110I CYCGRG 1 cut(s) 50
BmgT120I GGNCC 3 cut(s) 158, 233, 257
BmiI GGNNCC 3 cut(s) 160, 235, 888
BpiI GAAGAC 2 cut(s) 48, 84
BpmI CTGGAG 1 cut(s) 663
Bpu10I CCTNAGC 1 cut(s) 871
BsaJI CCNNGG 1 cut(s) 348
BsaWI WCCGGW 2 cut(s) 402, 709
Bsc4I CCNNNNNNNGG 4 cut(s) 167, 241, 701, 1088
Bse1I ACTGG 1 cut(s) 646
BseDI CCNNGG 1 cut(s) 348
BseGI GGATG 2 cut(s) 411, 817
BseLI CCNNNNNNNGG 4 cut(s) 167, 241, 701, 1088
BseMII CTCAG 1 cut(s) 123
BseNI ACTGG 1 cut(s) 646
BseRI GAGGAG 2 cut(s) 641, 791
BseSI GKGCMC 1 cut(s) 277
BseXI GCAGC 5 cut(s) 44, 237, 436, 464, 930
Bsh1236I CGCG 2 cut(s) 939, 954
Bsh1285I CGRYCG 1 cut(s) 246
BshFI GGCC 3 cut(s) 159, 234, 259
BsiEI CGRYCG 1 cut(s) 246
BsiHKCI CYCGRG 1 cut(s) 50
BsiSI CCGG 2 cut(s) 403, 710
BslFI GGGAC 1 cut(s) 833
BslI CCNNNNNNNGG 4 cut(s) 167, 241, 701, 1088
BsmAI GTCTC 2 cut(s) 773, 870
BsmBI CGTCTC 1 cut(s) 870
BsmFI GGGAC 1 cut(s) 833
BsmI GAATGC 2 cut(s) 196, 559
BsnI GGCC 3 cut(s) 159, 234, 259
BsoBI CYCGRG 1 cut(s) 50
Bsp1286I GDGCHC 1 cut(s) 277
Bsp143I GATC 2 cut(s) 310, 739
BspACI CCGC 4 cut(s) 162, 284, 433, 550
BspANI GGCC 3 cut(s) 159, 234, 259
BspCNI CTCAG 1 cut(s) 124
BspFNI CGCG 2 cut(s) 939, 954
BspLI GGNNCC 3 cut(s) 160, 235, 888
BspMAI CTGCAG 1 cut(s) 454
BspPI GGATC 1 cut(s) 747
BsrBI CCGCTC 1 cut(s) 550
BsrI ACTGG 1 cut(s) 646
BssECI CCNNGG 1 cut(s) 348
BssMI GATC 2 cut(s) 310, 739
Bst4CI ACNGT 2 cut(s) 72, 1083
Bst6I CTCTTC 2 cut(s) 244, 536
BstC8I GCNNGC 1 cut(s) 37
BstDEI CTNAG 3 cut(s) 132, 690, 871
BstF5I GGATG 2 cut(s) 411, 817
BstFNI CGCG 2 cut(s) 939, 954
BstHHI GCGC 1 cut(s) 939
BstKTI GATC 2 cut(s) 313, 742
BstMAI GTCTC 2 cut(s) 773, 870
BstMBI GATC 2 cut(s) 310, 739
BstMCI CGRYCG 1 cut(s) 246
BstMWI GCNNNNNNNGC 4 cut(s) 256, 461, 927, 936
BstSFI CTRYAG 1 cut(s) 450
BstSLI GKGCMC 1 cut(s) 277
BstUI CGCG 2 cut(s) 939, 954
BstV1I GCAGC 5 cut(s) 44, 237, 436, 464, 930
BstV2I GAAGAC 2 cut(s) 48, 84
BstX2I RGATCY 1 cut(s) 739
BstXI CCANNNNNNTGG 1 cut(s) 495
BstYI RGATCY 1 cut(s) 739
BsuRI GGCC 3 cut(s) 159, 234, 259
BtsCI GGATG 2 cut(s) 411, 817
Cac8I GCNNGC 1 cut(s) 37
CfoI GCGC 1 cut(s) 939
Cfr13I GGNCC 3 cut(s) 158, 233, 257
Csp6I GTAC 1 cut(s) 616
CspCI CAANNNNNGTGG 2 cut(s) 847, 882
CviAII CATG 5 cut(s) 101, 187, 270, 854, 1039
CviQI GTAC 1 cut(s) 616
DdeI CTNAG 3 cut(s) 132, 690, 871
DpnI GATC 2 cut(s) 312, 741
DpnII GATC 2 cut(s) 310, 739
DraIII CACNNNGTG 1 cut(s) 104
Eam1104I CTCTTC 2 cut(s) 244, 536
EarI CTCTTC 2 cut(s) 244, 536
Eco57I CTGAAG 2 cut(s) 96, 915
Eco88I CYCGRG 1 cut(s) 50
EcoO109I RGGNCCY 1 cut(s) 158
EcoT22I ATGCAT 1 cut(s) 1126
Esp3I CGTCTC 1 cut(s) 870
FaeI CATG 5 cut(s) 104, 190, 273, 857, 1042
FalI AAGNNNNNCTT 2 cut(s) 1011, 1043
FaqI GGGAC 1 cut(s) 833
FatI CATG 5 cut(s) 100, 186, 269, 853, 1038
FauI CCCGC 1 cut(s) 169
Fnu4HI GCNGC 5 cut(s) 33, 251, 450, 453, 919
FokI GGATG 2 cut(s) 418, 824
Fsp4HI GCNGC 5 cut(s) 33, 251, 450, 453, 919
GlaI GCGC 1 cut(s) 938
GluI GCNGC 5 cut(s) 33, 251, 450, 453, 919
GsuI CTGGAG 1 cut(s) 663
HaeIII GGCC 3 cut(s) 159, 234, 259
HapII CCGG 2 cut(s) 403, 710
HhaI GCGC 1 cut(s) 939
Hin1II CATG 5 cut(s) 104, 190, 273, 857, 1042
Hin6I GCGC 1 cut(s) 937
HinP1I GCGC 1 cut(s) 937
HinfI GANTC 7 cut(s) 53, 92, 388, 655, 749, 1076, 1109
HpaII CCGG 2 cut(s) 403, 710
HphI GGTGA 3 cut(s) 116, 803, 1071
Hpy166II GTNNAC 1 cut(s) 68
Hpy188I TCNGA 3 cut(s) 76, 349, 1114
Hpy188III TCNNGA 4 cut(s) 50, 385, 566, 1128
Hpy8I GTNNAC 1 cut(s) 68
Hpy99I CGWCG 1 cut(s) 478
HpyAV CCTTC 5 cut(s) 109, 113, 669, 724, 1037
HpyCH4III ACNGT 2 cut(s) 72, 1083
HpyCH4IV ACGT 3 cut(s) 64, 530, 769
HpyCH4V TGCA 9 cut(s) 194, 253, 452, 557, 586, 763, 930, 1070, 1124
HpyF10VI GCNNNNNNNGC 4 cut(s) 256, 461, 927, 936
HpyF3I CTNAG 3 cut(s) 132, 690, 871
HpySE526I ACGT 3 cut(s) 64, 530, 769
Hsp92II CATG 5 cut(s) 104, 190, 273, 857, 1042
HspAI GCGC 1 cut(s) 937
Kzo9I GATC 2 cut(s) 310, 739
LmnI GCTCC 1 cut(s) 350
LpnPI CCDG 7 cut(s) 110, 416, 501, 521, 627, 723, 906
Lsp1109I GCAGC 5 cut(s) 44, 237, 436, 464, 930
MaeII ACGT 3 cut(s) 64, 530, 769
MaeIII GTNAC 2 cut(s) 104, 398
MalI GATC 2 cut(s) 312, 741
MbiI CCGCTC 1 cut(s) 550
MboI GATC 2 cut(s) 310, 739
MboII GAAGA 8 cut(s) 48, 89, 231, 331, 365, 553, 812, 908
MfeI CAATTG 1 cut(s) 971
MflI RGATCY 1 cut(s) 739
MhlI GDGCHC 1 cut(s) 277
MlyI GAGTC 3 cut(s) 62, 382, 664
Mph1103I ATGCAT 1 cut(s) 1126
MroXI GAANNNNTTC 2 cut(s) 81, 1026
MseI TTAA 1 cut(s) 561
MspI CCGG 2 cut(s) 403, 710
MunI CAATTG 1 cut(s) 971
Mva1269I GAATGC 2 cut(s) 196, 559
MvnI CGCG 2 cut(s) 939, 954
MwoI GCNNNNNNNGC 4 cut(s) 256, 461, 927, 936
NdeII GATC 2 cut(s) 310, 739
NlaIII CATG 5 cut(s) 104, 190, 273, 857, 1042
NlaIV GGNNCC 3 cut(s) 160, 235, 888
NmuCI GTSAC 2 cut(s) 104, 398
NsiI ATGCAT 1 cut(s) 1126
PaeR7I CTCGAG 1 cut(s) 50
PctI GAATGC 2 cut(s) 196, 559
PdmI GAANNNNTTC 2 cut(s) 81, 1026
PfeI GAWTC 4 cut(s) 92, 749, 1076, 1109
PkrI GCNGC 5 cut(s) 34, 252, 451, 454, 920
PleI GAGTC 3 cut(s) 61, 382, 663
PpsI GAGTC 3 cut(s) 61, 382, 663
PshBI ATTAAT 1 cut(s) 561
PspN4I GGNNCC 3 cut(s) 160, 235, 888
PspPI GGNCC 3 cut(s) 158, 233, 257
PstI CTGCAG 1 cut(s) 454
PsuI RGATCY 1 cut(s) 739
RsaI GTAC 1 cut(s) 617
RsaNI GTAC 1 cut(s) 616
SaqAI TTAA 1 cut(s) 561
SatI GCNGC 5 cut(s) 33, 251, 450, 453, 919
Sau3AI GATC 2 cut(s) 310, 739
Sau96I GGNCC 3 cut(s) 158, 233, 257
SchI GAGTC 3 cut(s) 62, 382, 664
SduI GDGCHC 1 cut(s) 277
SfcI CTRYAG 1 cut(s) 450
Sfr274I CTCGAG 1 cut(s) 50
SlaI CTCGAG 1 cut(s) 50
SmlI CTYRAG 1 cut(s) 50
SmoI CTYRAG 1 cut(s) 50
SsiI CCGC 4 cut(s) 162, 284, 433, 550
TaaI ACNGT 2 cut(s) 72, 1083
TaiI ACGT 3 cut(s) 67, 533, 772
TaqI TCGA 4 cut(s) 51, 246, 457, 911
TaqII GACCGA 1 cut(s) 232
TatI WGTACW 1 cut(s) 615
TfiI GAWTC 4 cut(s) 92, 749, 1076, 1109
Tru1I TTAA 1 cut(s) 561
Tru9I TTAA 1 cut(s) 561
TseFI GTSAC 2 cut(s) 104, 398
TseI GCWGC 5 cut(s) 32, 250, 449, 452, 918
Tsp45I GTSAC 2 cut(s) 104, 398
TspDTI ATGAA 8 cut(s) 105, 203, 528, 671, 762, 819, 977, 1027
TspGWI ACGGA 4 cut(s) 389, 462, 894, 1013
VspI ATTAAT 1 cut(s) 561
XapI RAATTY 4 cut(s) 328, 335, 414, 861
XcmI CCANNNNNNNNNTGG 1 cut(s) 267
XhoI CTCGAG 1 cut(s) 50
XmnI GAANNNNTTC 2 cut(s) 81, 1026
Zsp2I ATGCAT 1 cut(s) 1126
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.