Rroxscaffold_3G00218750
MYB Family

DDE superfamily endonuclease

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000003
OG0000469
Physical Location & Seq
Reverse (-)
1036408 .. 1037397
990 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_3G00218750.1

Sequence Viewer

Length: 828 bp
ATGTATCAAGGAAAAGCACTAGATCATGTGTGTGAACTAGGTAAACGTATAATGAGACCTTCGGAGAATGAATTTAATGGTGTTGCACCGGAGATCATGAGGGATAACAGATACATGCCTCATTTTAAGGATTGCGTCGGCGCTATCGACGGAGTCCATATTCCCGCTTCTATAGCTCCTGAAAAACAAATACCGTACATTGGTAGAAAAGGAATACCAACACAAAATGTTATGGCGGCATGTAATTTCAATATGCAATTTATCTATGTATGTGCGGGATGGGAAGGGTCTGCTCATGATACGAGAGTGTTTCTATCGGTACTTCGAGATGCCGAAATGAATTTTCCTAAACCTCCACTAGGAAAATATTATGTTGTAGATTCCGGATACCCTCAAATGAATGGATTTTTGGGACCTTACAAAGGTCCGAGACAACATTTTCAACAATACCGTAGGCAAGAACCAAGAAATGAAAAAGAGGTATTTAACCAAGCACACTCTTCTCTTAGAGGCGTTATAGAACGCACATTTGGAGTTTGGAAAAAAAAGTGGAAGATTTTAAGGGACATGCAAGGTTATTCATTTGAAAAGCAAGTGCAGATTGTCATTGCTACCATGACACTTCATAATTATATACGGATACATGCACATGGTGATAGACATTTTGTCCGCAGTGCAGAAAGAGAAGGTTATGGGTCAAGTGGTGAGATAGAAATGGATGATGATGTACAAGAAGAATATCATGGTCAAGGTGCACAAGAAATGGAAGCAATAAGAAATAGCATTACTCAAAGTTTGATGAATGCGCGTAATAACGTGAACATTTGA
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
DDE_Tnp_4 Myb_DNA-bind_3

Protein Analysis

275

Amino Acids

31.66

Weight (kDa)

8.26

Isoelectric Point (pI)

38.93

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
DDE_Tnp_1 PF01609 42 - 210 1.5e-13 Transposase DDE domain
DDE_Tnp_4 PF13359 49 - 210 3e-23 DDE superfamily endonuclease
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: OG0000469)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G43722 AT3G30525 AT5G28730
fragaria_vesca FvH4_1g10461 FvH4_1g19401 FvH4_2g04530 FvH4_2g04530 FvH4_2g11121 FvH4_2g13361 FvH4_3g21471 FvH4_3g26161 FvH4_3g29911 FvH4_4g20922 FvH4_4g30624 FvH4_5g23912 FvH4_6g30381 FvH4_6g53026 FvH4_7g00061 FvH4_7g19211 FvH4_7g19211
malus_domestica MD06G1090500.v1.1 MD08G1193900.v1.1 MD11G1151600.v1.1 MD16G1281600.v1.1
prunus_persica Prupe.1G096200_v2.0.a1 Prupe.1G189200_v2.0.a1 Prupe.1G198400_v2.0.a1 Prupe.6G167200_v2.0.a1 Prupe.6G192900_v2.0.a1
pyrus_communis pycom02g00900 pycom06g03500 pycom07g13740 pycom11g10040 pycom17g21680 pycom520g00090
rosa_chinensis RchiOBHm_Chr1g0354781 RchiOBHm_Chr2g0085491 RchiOBHm_Chr2g0103971 RchiOBHm_Chr2g0145791 RchiOBHm_Chr4g0414051 RchiOBHm_Chr4g0419691 RchiOBHm_Chr4g0435871 RchiOBHm_Chr6g0292381 RchiOBHm_Chr7g0199291
rosa_laevigata RLG00000035604
rosa_multiflora Rmu_co8287949.1_g000001 Rmu_sc0000079.1_g000057 Rmu_sc0000240.1_g000063 Rmu_sc0000552.1_g000020 Rmu_sc0000950.1_g000002 Rmu_sc0001257.1_g000003 Rmu_sc0001597.1_g000014 Rmu_sc0001939.1_g000006 Rmu_sc0002160.1_g000015 Rmu_sc0003526.1_g000015 Rmu_sc0005712.1_g000025 Rmu_sc0006032.1_g000011 Rmu_sc0006935.1_g000005 Rmu_sc0008636.1_g000002 Rmu_sc0009205.1_g000006 Rmu_sc0009438.1_g000007 Rmu_ssc0000486.1_g000013
rosa_roxburghii Rroxscaffold_1G00003870 Rroxscaffold_1G00014970 Rroxscaffold_3G00218750 Rroxscaffold_5G00367160 Rroxscaffold_7G00186480
rosa_rugosa Rorug05G0192000
rosa_samantha Rh4BG219200
rosa_wichuraiana Rw1G010350 Rw1G014480 Rw1G023690 Rw1G033480 Rw2G050290 Rw3G027480 Rw4G033650 Rw5G005670 Rw5G021010 Rw5G021860 Rw5G041260 Rw5G041760 Rw6G008410 Rw6G021080 Rw6G022950 Rw6G025480 Rw6G028700 Rw7G002710 Rw7G004940 Rw7G031510 Rw7G041110

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccII CGCG 1 cut(s) 808
AccIII TCCGGA 1 cut(s) 383
AciI CCGC 4 cut(s) 165, 236, 275, 670
AcsI RAATTY 2 cut(s) 71, 340
AdeI CACNNNGTG 1 cut(s) 653
AfaI GTAC 3 cut(s) 197, 321, 729
AfiI CCNNNNNNNGG 3 cut(s) 200, 359, 422
AgsI TTSAA 3 cut(s) 250, 443, 587
AhdI GACNNNNNGTC 1 cut(s) 665
AjuI GAANNNNNNNTTGG 4 cut(s) 392, 424, 513, 545
AluBI AGCT 1 cut(s) 176
AluI AGCT 1 cut(s) 176
Alw21I GWGCWC 1 cut(s) 757
Alw26I GTCTC 2 cut(s) 49, 424
Alw44I GTGCAC 1 cut(s) 753
Aor13HI TCCGGA 1 cut(s) 383
ApaLI GTGCAC 1 cut(s) 753
ApoI RAATTY 2 cut(s) 71, 340
AspLEI GCGC 2 cut(s) 143, 808
AspS9I GGNCC 2 cut(s) 413, 425
AsuHPI GGTGA 2 cut(s) 665, 716
AvaII GGWCC 2 cut(s) 413, 425
BaeGI GKGCMC 1 cut(s) 757
BaeI ACNNNNGTAYC 2 cut(s) 291, 324
Bbv12I GWGCWC 1 cut(s) 757
BccI CCATC 1 cut(s) 273
BciVI GTATCC 2 cut(s) 380, 633
BcoDI GTCTC 2 cut(s) 49, 424
BfaI CTAG 3 cut(s) 20, 38, 359
BfmI CTRYAG 1 cut(s) 171
BfoI RGCGCY 1 cut(s) 144
BfuI GTATCC 2 cut(s) 380, 633
BisI GCNGC 1 cut(s) 237
BlsI GCNGC 1 cut(s) 238
Bme18I GGWCC 2 cut(s) 413, 425
BmeRI GACNNNNNGTC 1 cut(s) 665
BmgT120I GGNCC 2 cut(s) 413, 425
BmiI GGNNCC 1 cut(s) 414
BmsI GCATC 1 cut(s) 319
BsaI GGTCTC 1 cut(s) 49
BsaWI WCCGGW 2 cut(s) 88, 383
Bsc4I CCNNNNNNNGG 3 cut(s) 200, 359, 422
Bse3DI GCAATG 1 cut(s) 606
BseAI TCCGGA 1 cut(s) 383
BseGI GGATG 2 cut(s) 284, 724
BseLI CCNNNNNNNGG 3 cut(s) 200, 359, 422
BseMI GCAATG 1 cut(s) 606
BseSI GKGCMC 1 cut(s) 757
BsgI GTGCAG 2 cut(s) 617, 696
Bsh1236I CGCG 1 cut(s) 808
BsiHKAI GWGCWC 1 cut(s) 757
BsiSI CCGG 2 cut(s) 89, 384
BslFI GGGAC 2 cut(s) 426, 578
BslI CCNNNNNNNGG 3 cut(s) 200, 359, 422
BsmAI GTCTC 2 cut(s) 49, 424
BsmFI GGGAC 2 cut(s) 426, 578
BsmI GAATGC 1 cut(s) 808
Bso31I GGTCTC 1 cut(s) 49
Bsp1286I GDGCHC 1 cut(s) 757
Bsp13I TCCGGA 1 cut(s) 383
Bsp1407I TGTACA 1 cut(s) 727
Bsp143I GATC 2 cut(s) 22, 93
BspACI CCGC 4 cut(s) 165, 236, 275, 670
BspEI TCCGGA 1 cut(s) 383
BspFNI CGCG 1 cut(s) 808
BspHI TCATGA 2 cut(s) 96, 295
BspLI GGNNCC 1 cut(s) 414
BspTNI GGTCTC 1 cut(s) 49
BsrDI GCAATG 1 cut(s) 606
BsrGI TGTACA 1 cut(s) 727
BssMI GATC 2 cut(s) 22, 93
Bst4CI ACNGT 2 cut(s) 195, 452
Bst6I CTCTTC 1 cut(s) 505
BstAUI TGTACA 1 cut(s) 727
BstDEI CTNAG 1 cut(s) 506
BstENI CCTNNNNNAGG 2 cut(s) 357, 420
BstF5I GGATG 2 cut(s) 284, 724
BstFNI CGCG 1 cut(s) 808
BstH2I RGCGCY 1 cut(s) 144
BstHHI GCGC 2 cut(s) 143, 808
BstKTI GATC 2 cut(s) 25, 96
BstMAI GTCTC 2 cut(s) 49, 424
BstMBI GATC 2 cut(s) 22, 93
BstMWI GCNNNNNNNGC 1 cut(s) 173
BstNSI RCATGY 4 cut(s) 118, 243, 571, 647
BstSFI CTRYAG 1 cut(s) 171
BstSLI GKGCMC 1 cut(s) 757
BstUI CGCG 1 cut(s) 808
BsuI GTATCC 2 cut(s) 380, 633
BtsCI GGATG 2 cut(s) 284, 724
BtsI GCAGTG 1 cut(s) 679
BtsIMutI CAGTG 1 cut(s) 679
CciI TCATGA 2 cut(s) 96, 295
CfoI GCGC 2 cut(s) 143, 808
Cfr13I GGNCC 2 cut(s) 413, 425
CseI GACGC 1 cut(s) 124
Csp6I GTAC 3 cut(s) 196, 320, 728
CviJI RGCY 1 cut(s) 176
CviKI_1 RGCY 1 cut(s) 176
CviQI GTAC 3 cut(s) 196, 320, 728
DdeI CTNAG 1 cut(s) 506
DpnI GATC 2 cut(s) 24, 95
DpnII GATC 2 cut(s) 22, 93
DraIII CACNNNGTG 1 cut(s) 653
DriI GACNNNNNGTC 1 cut(s) 665
Eam1104I CTCTTC 1 cut(s) 505
Eam1105I GACNNNNNGTC 1 cut(s) 665
EarI CTCTTC 1 cut(s) 505
Eco31I GGTCTC 1 cut(s) 49
Eco47I GGWCC 2 cut(s) 413, 425
EcoNI CCTNNNNNAGG 2 cut(s) 357, 420
EcoO109I RGGNCCY 1 cut(s) 413
FaqI GGGAC 2 cut(s) 426, 578
FauI CCCGC 2 cut(s) 172, 268
Fnu4HI GCNGC 1 cut(s) 237
FokI GGATG 2 cut(s) 291, 731
Fsp4HI GCNGC 1 cut(s) 237
FspBI CTAG 3 cut(s) 20, 38, 359
GlaI GCGC 2 cut(s) 142, 807
GluI GCNGC 1 cut(s) 237
HaeII RGCGCY 1 cut(s) 144
HapII CCGG 2 cut(s) 89, 384
HgaI GACGC 1 cut(s) 124
HhaI GCGC 2 cut(s) 143, 808
Hin6I GCGC 2 cut(s) 141, 806
HinP1I GCGC 2 cut(s) 141, 806
HinfI GANTC 2 cut(s) 153, 380
HpaII CCGG 2 cut(s) 89, 384
HphI GGTGA 2 cut(s) 665, 716
Hpy166II GTNNAC 4 cut(s) 35, 44, 755, 820
Hpy188I TCNGA 2 cut(s) 64, 429
Hpy188III TCNNGA 5 cut(s) 97, 179, 296, 326, 384
Hpy8I GTNNAC 4 cut(s) 35, 44, 755, 820
Hpy99I CGWCG 2 cut(s) 140, 152
HpyAV CCTTC 3 cut(s) 69, 278, 680
HpyCH4III ACNGT 2 cut(s) 195, 452
HpyCH4IV ACGT 2 cut(s) 46, 816
HpyCH4V TGCA 7 cut(s) 86, 256, 571, 598, 647, 677, 755
HpyF10VI GCNNNNNNNGC 1 cut(s) 173
HpyF3I CTNAG 1 cut(s) 506
HpySE526I ACGT 2 cut(s) 46, 816
HspAI GCGC 2 cut(s) 141, 806
Kpn2I TCCGGA 1 cut(s) 383
Kzo9I GATC 2 cut(s) 22, 93
LmnI GCTCC 1 cut(s) 181
LpnPI CCDG 3 cut(s) 102, 192, 397
LweI GCATC 1 cut(s) 319
MaeI CTAG 3 cut(s) 20, 38, 359
MaeII ACGT 2 cut(s) 46, 816
MalI GATC 2 cut(s) 24, 95
MboI GATC 2 cut(s) 22, 93
MboII GAAGA 3 cut(s) 492, 565, 746
MhlI GDGCHC 1 cut(s) 757
MluCI AATT 5 cut(s) 71, 244, 257, 340, 628
MlyI GAGTC 1 cut(s) 162
MnlI CCTC 6 cut(s) 93, 129, 363, 402, 472, 503
MroI TCCGGA 1 cut(s) 383
MseI TTAA 4 cut(s) 75, 126, 486, 560
MslI CAYNNNNRTG 2 cut(s) 30, 648
MspI CCGG 2 cut(s) 89, 384
Mva1269I GAATGC 1 cut(s) 808
MvnI CGCG 1 cut(s) 808
MwoI GCNNNNNNNGC 1 cut(s) 173
NdeII GATC 2 cut(s) 22, 93
NlaIV GGNNCC 1 cut(s) 414
NspI RCATGY 4 cut(s) 118, 243, 571, 647
PagI TCATGA 2 cut(s) 96, 295
PcsI WCGNNNNNNNCGW 1 cut(s) 144
PctI GAATGC 1 cut(s) 808
PfeI GAWTC 1 cut(s) 380
PflFI GACNNNGTC 1 cut(s) 152
PkrI GCNGC 1 cut(s) 238
PleI GAGTC 1 cut(s) 161
PpsI GAGTC 1 cut(s) 161
PpuMI RGGWCCY 1 cut(s) 413
Psp5II RGGWCCY 1 cut(s) 413
PspN4I GGNNCC 1 cut(s) 414
PspPI GGNCC 2 cut(s) 413, 425
PspPPI RGGWCCY 1 cut(s) 413
PsyI GACNNNGTC 1 cut(s) 152
RsaI GTAC 3 cut(s) 197, 321, 729
RsaNI GTAC 3 cut(s) 196, 320, 728
RseI CAYNNNNRTG 2 cut(s) 30, 648
SaqAI TTAA 4 cut(s) 75, 126, 486, 560
SatI GCNGC 1 cut(s) 237
Sau3AI GATC 2 cut(s) 22, 93
Sau96I GGNCC 2 cut(s) 413, 425
SchI GAGTC 1 cut(s) 162
SduI GDGCHC 1 cut(s) 757
SfaNI GCATC 1 cut(s) 319
SfcI CTRYAG 1 cut(s) 171
SinI GGWCC 2 cut(s) 413, 425
SmiMI CAYNNNNRTG 2 cut(s) 30, 648
Sse9I AATT 5 cut(s) 71, 244, 257, 340, 628
SsiI CCGC 4 cut(s) 165, 236, 275, 670
SspI AATATT 1 cut(s) 368
SspMI CTAG 3 cut(s) 20, 38, 359
TaaI ACNGT 2 cut(s) 195, 452
TaiI ACGT 2 cut(s) 49, 819
TaqI TCGA 2 cut(s) 147, 325
TasI AATT 5 cut(s) 71, 244, 257, 340, 628
TatI WGTACW 1 cut(s) 727
TauI GCSGC 1 cut(s) 239
TfiI GAWTC 1 cut(s) 380
Tru1I TTAA 4 cut(s) 75, 126, 486, 560
Tru9I TTAA 4 cut(s) 75, 126, 486, 560
TscAI CASTG 1 cut(s) 679
TspDTI ATGAA 7 cut(s) 84, 353, 413, 486, 570, 614, 815
TspGWI ACGGA 2 cut(s) 165, 652
TspRI CASTG 1 cut(s) 679
Tth111I GACNNNGTC 1 cut(s) 152
VneI GTGCAC 1 cut(s) 753
VpaK11BI GGWCC 2 cut(s) 413, 425
XagI CCTNNNNNAGG 2 cut(s) 357, 420
XapI RAATTY 2 cut(s) 71, 340
XceI RCATGY 4 cut(s) 118, 243, 571, 647
XspI CTAG 3 cut(s) 20, 38, 359
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.