Rroxscaffold_3G00268690

No description available

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000003
OG0000450
Physical Location & Seq
Reverse (-)
61763243 .. 61765615
2373 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_3G00268690.1

Sequence Viewer

Length: 942 bp
ATGCCTAGGATTATAACTCCCCAAGCTTTGCGAAGTATTTGGCCCCTCTTCAGGTCAGAGCTGCAAGGGCCATACATAACATGGGCACAATTTCCGCATGAGGAATTGGATAGGTTGTTTGATCTATGGAAGAATAAAAATTTCAAATTTGATTGCTCCGAGGAAGAACTGAAAGATGTATTCACGGAACACATCAACACTCGTTATAGTGACTGGATGAGTGAAATTTGGAATAGTGTTTTCCGCAAACACAAGACTGCTGCAGCTCGATATGCCAACAATCCGTCGTATTTGAAGCCAGAAATATGGACACCAATGGTTGATGAATGGCTAAAGGAAATGTGGCAGGAGAAGAGTGAGCGGAATGCAATTAATCGTGATAAATCAACTATGGTGCATACAACGGGTTCAGTTCCAATGGCGAAGTACATAAAAGAGGAGATTGATAAGACTGGAGTTGAACCGAGTCCAATAGAGATGTTTAGAAGGTTTCATATTTCTAAGCCTAAAGATGGAAAACCGGAACATTGGCAGAGTGAGAAGGCAAAGGATCTTTATGAATCTATGGAATTGCAAAAACGTATAGAGGAGACTTTGGGTGGTGATGGCGAAGATGAATTGGATGATTGGGACATATACAAGGAGGTGGTTGGTGGGTCTAAACATGGCAAAATTCGTGGCTTAGGAGATGGAATGGAACCACCTGAAGATGTGTGTGGTTCGAGTAGCAGCCAAACTTGCAATAAGCGCGTGTGTTTGGAACGCGACAAAGAGTTTGGACAATTGAAACAACAAGTTCATACTCTTACGGATATGGTGGCTGATTTGAAAGAACTCCTTCAAGGTTTCATGGAAAATAGTTCAAGTCATTCTCAATTTGCAAGAGAATCACCGTTTTCGGGTAAATCTACTAATGGAGATTCCGAAGCAAATGCATCTTGA
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

313

Amino Acids

36.31

Weight (kDa)

5.36

Isoelectric Point (pI)

54.98

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Transposase_24 PF03004 100 - 233 2.1e-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)
AanI TTATAA 1 cut(s) 14
AccBSI CCGCTC 1 cut(s) 361
AccII CGCG 2 cut(s) 750, 765
AciI CCGC 3 cut(s) 95, 244, 361
AclWI GGATC 1 cut(s) 558
AcsI RAATTY 4 cut(s) 139, 146, 225, 672
AcuI CTGAAG 2 cut(s) 34, 726
AfaI GTAC 1 cut(s) 428
AfiI CCNNNNNNNGG 3 cut(s) 51, 512, 899
AgsI TTSAA 7 cut(s) 145, 295, 461, 787, 829, 842, 864
AluBI AGCT 3 cut(s) 26, 61, 266
AluI AGCT 3 cut(s) 26, 61, 266
Alw26I GTCTC 1 cut(s) 584
AlwI GGATC 1 cut(s) 558
AoxI GGCC 2 cut(s) 41, 68
ApeKI GCWGC 4 cut(s) 61, 260, 263, 729
ApoI RAATTY 4 cut(s) 139, 146, 225, 672
ArsI GACNNNNNNTTYG 2 cut(s) 758, 790
AseI ATTAAT 1 cut(s) 372
Asp700I GAANNNNTTC 1 cut(s) 837
AspA2I CCTAGG 1 cut(s) 5
AspLEI GCGC 1 cut(s) 750
AspS9I GGNCC 2 cut(s) 42, 68
AsuHPI GGTGA 2 cut(s) 614, 882
AvrII CCTAGG 1 cut(s) 5
BaeGI GKGCMC 1 cut(s) 88
BbvI GCAGC 4 cut(s) 48, 247, 275, 741
BccI CCATC 3 cut(s) 506, 599, 683
BcgI CGANNNNNNTGC 1 cut(s) 914
BcoDI GTCTC 1 cut(s) 584
BfaI CTAG 1 cut(s) 6
BfmI CTRYAG 1 cut(s) 261
BisI GCNGC 4 cut(s) 62, 261, 264, 730
BlnI CCTAGG 1 cut(s) 5
BlsI GCNGC 4 cut(s) 63, 262, 265, 731
BmgT120I GGNCC 2 cut(s) 42, 68
BmiI GGNNCC 2 cut(s) 44, 699
BpmI CTGGAG 1 cut(s) 474
Bpu10I CCTNAGC 1 cut(s) 682
BsaJI CCNNGG 2 cut(s) 5, 159
BsaWI WCCGGW 1 cut(s) 520
Bsc4I CCNNNNNNNGG 3 cut(s) 51, 512, 899
Bse1I ACTGG 2 cut(s) 218, 457
BseDI CCNNGG 2 cut(s) 5, 159
BseGI GGATG 2 cut(s) 222, 628
BseLI CCNNNNNNNGG 3 cut(s) 51, 512, 899
BseNI ACTGG 2 cut(s) 218, 457
BseRI GAGGAG 2 cut(s) 452, 602
BseSI GKGCMC 1 cut(s) 88
BseXI GCAGC 4 cut(s) 48, 247, 275, 741
Bsh1236I CGCG 2 cut(s) 750, 765
BshFI GGCC 2 cut(s) 43, 70
BsiSI CCGG 1 cut(s) 521
BslFI GGGAC 1 cut(s) 644
BslI CCNNNNNNNGG 3 cut(s) 51, 512, 899
BsmAI GTCTC 1 cut(s) 584
BsmFI GGGAC 1 cut(s) 644
BsmI GAATGC 1 cut(s) 370
BsnI GGCC 2 cut(s) 43, 70
Bsp1286I GDGCHC 1 cut(s) 88
Bsp143I GATC 2 cut(s) 121, 550
BspACI CCGC 3 cut(s) 95, 244, 361
BspANI GGCC 2 cut(s) 43, 70
BspFNI CGCG 2 cut(s) 750, 765
BspLI GGNNCC 2 cut(s) 44, 699
BspMAI CTGCAG 1 cut(s) 265
BspPI GGATC 1 cut(s) 558
BsrBI CCGCTC 1 cut(s) 361
BsrI ACTGG 2 cut(s) 218, 457
BssECI CCNNGG 2 cut(s) 5, 159
BssMI GATC 2 cut(s) 121, 550
BssT1I CCWWGG 1 cut(s) 5
Bst4CI ACNGT 1 cut(s) 894
Bst6I CTCTTC 2 cut(s) 53, 347
BstDEI CTNAG 2 cut(s) 501, 682
BstF5I GGATG 2 cut(s) 222, 628
BstFNI CGCG 2 cut(s) 750, 765
BstHHI GCGC 1 cut(s) 750
BstKTI GATC 2 cut(s) 124, 553
BstMAI GTCTC 1 cut(s) 584
BstMBI GATC 2 cut(s) 121, 550
BstMWI GCNNNNNNNGC 4 cut(s) 67, 272, 738, 747
BstSFI CTRYAG 1 cut(s) 261
BstSLI GKGCMC 1 cut(s) 88
BstUI CGCG 2 cut(s) 750, 765
BstV1I GCAGC 4 cut(s) 48, 247, 275, 741
BstX2I RGATCY 1 cut(s) 550
BstXI CCANNNNNNTGG 1 cut(s) 306
BstYI RGATCY 1 cut(s) 550
BsuRI GGCC 2 cut(s) 43, 70
BtsCI GGATG 2 cut(s) 222, 628
CfoI GCGC 1 cut(s) 750
Cfr13I GGNCC 2 cut(s) 42, 68
Csp6I GTAC 1 cut(s) 427
CspCI CAANNNNNGTGG 2 cut(s) 658, 693
CviAII CATG 4 cut(s) 81, 98, 665, 850
CviQI GTAC 1 cut(s) 427
DdeI CTNAG 2 cut(s) 501, 682
DpnI GATC 2 cut(s) 123, 552
DpnII GATC 2 cut(s) 121, 550
Eam1104I CTCTTC 2 cut(s) 53, 347
EarI CTCTTC 2 cut(s) 53, 347
Eco130I CCWWGG 1 cut(s) 5
Eco57I CTGAAG 2 cut(s) 34, 726
EcoT14I CCWWGG 1 cut(s) 5
EcoT22I ATGCAT 1 cut(s) 937
ErhI CCWWGG 1 cut(s) 5
FaeI CATG 4 cut(s) 84, 101, 668, 853
FalI AAGNNNNNCTT 2 cut(s) 822, 854
FaqI GGGAC 1 cut(s) 644
FatI CATG 4 cut(s) 80, 97, 664, 849
Fnu4HI GCNGC 4 cut(s) 62, 261, 264, 730
FokI GGATG 2 cut(s) 229, 635
Fsp4HI GCNGC 4 cut(s) 62, 261, 264, 730
FspBI CTAG 1 cut(s) 6
GlaI GCGC 1 cut(s) 749
GluI GCNGC 4 cut(s) 62, 261, 264, 730
GsuI CTGGAG 1 cut(s) 474
HaeIII GGCC 2 cut(s) 43, 70
HapII CCGG 1 cut(s) 521
HhaI GCGC 1 cut(s) 750
Hin1II CATG 4 cut(s) 84, 101, 668, 853
Hin6I GCGC 1 cut(s) 748
HinP1I GCGC 1 cut(s) 748
HindIII AAGCTT 1 cut(s) 24
HinfI GANTC 4 cut(s) 466, 560, 887, 920
HpaII CCGG 1 cut(s) 521
HphI GGTGA 2 cut(s) 614, 882
Hpy188I TCNGA 3 cut(s) 58, 160, 925
Hpy188III TCNNGA 2 cut(s) 377, 939
Hpy99I CGWCG 1 cut(s) 289
HpyAV CCTTC 3 cut(s) 480, 535, 848
HpyCH4III ACNGT 1 cut(s) 894
HpyCH4IV ACGT 1 cut(s) 580
HpyCH4V TGCA 8 cut(s) 64, 263, 368, 397, 574, 741, 881, 935
HpyF10VI GCNNNNNNNGC 4 cut(s) 67, 272, 738, 747
HpyF3I CTNAG 2 cut(s) 501, 682
HpySE526I ACGT 1 cut(s) 580
Hsp92II CATG 4 cut(s) 84, 101, 668, 853
HspAI GCGC 1 cut(s) 748
Kzo9I GATC 2 cut(s) 121, 550
LmnI GCTCC 1 cut(s) 161
LpnPI CCDG 7 cut(s) 37, 199, 312, 332, 438, 534, 717
Lsp1109I GCAGC 4 cut(s) 48, 247, 275, 741
MaeI CTAG 1 cut(s) 6
MaeII ACGT 1 cut(s) 580
MaeIII GTNAC 1 cut(s) 209
MalI GATC 2 cut(s) 123, 552
MbiI CCGCTC 1 cut(s) 361
MboI GATC 2 cut(s) 121, 550
MboII GAAGA 6 cut(s) 40, 142, 176, 364, 623, 719
MfeI CAATTG 1 cut(s) 782
MflI RGATCY 1 cut(s) 550
MhlI GDGCHC 1 cut(s) 88
MlyI GAGTC 1 cut(s) 475
MnlI CCTC 6 cut(s) 56, 94, 154, 430, 580, 637
Mph1103I ATGCAT 1 cut(s) 937
MroXI GAANNNNTTC 1 cut(s) 837
MseI TTAA 1 cut(s) 372
MspI CCGG 1 cut(s) 521
MunI CAATTG 1 cut(s) 782
Mva1269I GAATGC 1 cut(s) 370
MvnI CGCG 2 cut(s) 750, 765
MwoI GCNNNNNNNGC 4 cut(s) 67, 272, 738, 747
NdeII GATC 2 cut(s) 121, 550
NlaIII CATG 4 cut(s) 84, 101, 668, 853
NlaIV GGNNCC 2 cut(s) 44, 699
NmuCI GTSAC 1 cut(s) 209
NsiI ATGCAT 1 cut(s) 937
PctI GAATGC 1 cut(s) 370
PdmI GAANNNNTTC 1 cut(s) 837
PfeI GAWTC 3 cut(s) 560, 887, 920
PkrI GCNGC 4 cut(s) 63, 262, 265, 731
PleI GAGTC 1 cut(s) 474
PpsI GAGTC 1 cut(s) 474
PshBI ATTAAT 1 cut(s) 372
PsiI TTATAA 1 cut(s) 14
PspN4I GGNNCC 2 cut(s) 44, 699
PspPI GGNCC 2 cut(s) 42, 68
PstI CTGCAG 1 cut(s) 265
PsuI RGATCY 1 cut(s) 550
RsaI GTAC 1 cut(s) 428
RsaNI GTAC 1 cut(s) 427
SaqAI TTAA 1 cut(s) 372
SatI GCNGC 4 cut(s) 62, 261, 264, 730
Sau3AI GATC 2 cut(s) 121, 550
Sau96I GGNCC 2 cut(s) 42, 68
SchI GAGTC 1 cut(s) 475
SduI GDGCHC 1 cut(s) 88
SfcI CTRYAG 1 cut(s) 261
SsiI CCGC 3 cut(s) 95, 244, 361
SspMI CTAG 1 cut(s) 6
StyI CCWWGG 1 cut(s) 5
TaaI ACNGT 1 cut(s) 894
TaiI ACGT 1 cut(s) 583
TaqI TCGA 2 cut(s) 268, 722
TatI WGTACW 1 cut(s) 426
TfiI GAWTC 3 cut(s) 560, 887, 920
Tru1I TTAA 1 cut(s) 372
Tru9I TTAA 1 cut(s) 372
TseFI GTSAC 1 cut(s) 209
TseI GCWGC 4 cut(s) 61, 260, 263, 729
Tsp45I GTSAC 1 cut(s) 209
TspDTI ATGAA 6 cut(s) 339, 482, 573, 630, 788, 838
TspGWI ACGGA 3 cut(s) 200, 273, 824
VspI ATTAAT 1 cut(s) 372
XapI RAATTY 4 cut(s) 139, 146, 225, 672
XcmI CCANNNNNNNNNTGG 1 cut(s) 78
XmaJI CCTAGG 1 cut(s) 5
XmnI GAANNNNTTC 1 cut(s) 837
XspI CTAG 1 cut(s) 6
Zsp2I ATGCAT 1 cut(s) 937
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.