Rw5G041260
MYB Family

DDE superfamily endonuclease

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_wichuraiana
Chr5
OG0000469
Physical Location & Seq
Forward (+)
72668368 .. 72669768
1401 bp
Loading structure...
UTR
Exon/CDS
Intron
Rw5G041260.1

Sequence Viewer

Length: 1062 bp
ATGGAGGCTTCTGGAGATGACGAGGAGATAGACCAAATTATATGTGTAACTGGTCGTATTATTCAACTCTATCTTGAAAAGTACATTCAGAAAACTCCATGTATGACATGCTCCCAAACAGGTTATATTTGGTTAATGGAAGGTTCAAAAAACATAAGTACCGCTGAAATGTTAGCTATGTCTTTATATATTTTGGGACAAGGTCAAACCAATAGGAATACACAAGAGCGTTTTCAACGTTCTGGTGAGACAGTTAGTAGATATTTTGATATAATGCTCAAGATTTTCTATAATATGGCGAAAGTGCTCATAAAGCCAGAGGATCCCGAATTTACGAGCATCCCAAATGAAATTTTAAATGACTCAAGATACATGCCTCATTTTAAGGATTGTATTGGCGCTATTGATGGTGTTCATGTTCAAGCTTCGATTTCTCCATTTGACCAAGTGCCATACATTGGCCGAAAAGGAACACCCACCCAAAATATTTTGGCTATATGCAACTTGAACATGCAATTCACATTTGCATGTGCAGGGTGGGAAGGCACTGCCCATGACAGTAGAGTATTCTTATCGGCTTTCCGCAATCCTCAATCGAATTTTCCTAAACCCCCAAATGGAAAATATTATGTGGTGGATGCCGGATACCCACAAATGAAAGGATTTTTAGGACCGTATAAAGGTGAACGGTATCACCTTCCACATTTTCGTAGAGGTGATGAACCGACAGGTCATAAAGAAATATTTAATCATGCACATTCTTCACTTAAGAGTGTTATTGAGCGGACTTTTGGGGTATGGAAAAAAAAGTGGAGTATTTTACGTGATATGCCAAGCTTTCCTTATGATAAACAAGTGAAAATAGTTATTGCTACAATGGCTCTTCATAACTACATAAGAAGATATGCTCAACAAGATCATGATTTTGATGAAAGTGAAAATTACTCAAGTGAAGACAACAATGAAGAGATGGAAGACAATGCATATGAAGAAGATGGTCCGGGAAGACAAGAAATGGAGATTTTAAGAAATACAATTGCACAAAGTCTAATGAATGCATAG
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

353

Amino Acids

40.62

Weight (kDa)

5.63

Isoelectric Point (pI)

51.58

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
DUF8040 PF26138 46 - 96 3.2e-15 Domain of unknown function (DUF8040)
DDE_Tnp_1 PF01609 128 - 294 1.7e-07 Transposase DDE domain
DDE_Tnp_4 PF13359 135 - 297 1.6e-21 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
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

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)
AccB7I CCANNNNNTGG 1 cut(s) 458
AccBSI CCGCTC 1 cut(s) 784
AciI CCGC 3 cut(s) 162, 583, 784
AclI AACGTT 1 cut(s) 238
AclWI GGATC 2 cut(s) 317, 330
AcoI YGGCCR 1 cut(s) 460
AcsI RAATTY 3 cut(s) 329, 351, 598
AfaI GTAC 2 cut(s) 83, 160
AfiI CCNNNNNNNGG 3 cut(s) 458, 617, 680
AflII CTTAAG 1 cut(s) 767
AgsI TTSAA 6 cut(s) 65, 77, 147, 236, 422, 508
AluBI AGCT 3 cut(s) 176, 425, 837
AluI AGCT 3 cut(s) 176, 425, 837
Alw21I GWGCWC 1 cut(s) 309
Alw26I GTCTC 1 cut(s) 242
AlwI GGATC 2 cut(s) 317, 330
AoxI GGCC 1 cut(s) 460
ApoI RAATTY 3 cut(s) 329, 351, 598
AspLEI GCGC 1 cut(s) 401
AspS9I GGNCC 2 cut(s) 671, 998
AsuC2I CCSGG 1 cut(s) 1002
AsuHPI GGTGA 4 cut(s) 257, 686, 695, 728
AvaII GGWCC 2 cut(s) 671, 998
BaeI ACNNNNGTAYC 2 cut(s) 142, 175
BamHI GGATCC 1 cut(s) 322
BbsI GAAGAC 3 cut(s) 960, 981, 1012
Bbv12I GWGCWC 1 cut(s) 309
BccI CCATC 3 cut(s) 401, 964, 989
BciVI GTATCC 1 cut(s) 638
BcnI CCSGG 1 cut(s) 1002
BcoDI GTCTC 1 cut(s) 242
BfoI RGCGCY 1 cut(s) 402
BfrI CTTAAG 1 cut(s) 767
BfuI GTATCC 1 cut(s) 638
Bme1390I CCNGG 1 cut(s) 1002
Bme18I GGWCC 2 cut(s) 671, 998
BmgT120I GGNCC 2 cut(s) 671, 998
BmiI GGNNCC 1 cut(s) 324
BmrFI CCNGG 1 cut(s) 1002
BmsI GCATC 2 cut(s) 348, 628
BpiI GAAGAC 3 cut(s) 960, 981, 1012
BpmI CTGGAG 1 cut(s) 33
BpuEI CTTGAG 3 cut(s) 263, 349, 931
BpuMI CCSGG 1 cut(s) 1002
BsaAI YACGTR 1 cut(s) 824
Bsc4I CCNNNNNNNGG 3 cut(s) 458, 617, 680
Bse1I ACTGG 1 cut(s) 55
BseGI GGATG 2 cut(s) 339, 643
BseLI CCNNNNNNNGG 3 cut(s) 458, 617, 680
BseNI ACTGG 1 cut(s) 55
BseRI GAGGAG 1 cut(s) 38
BsgI GTGCAG 1 cut(s) 552
BshFI GGCC 1 cut(s) 462
BsiHKAI GWGCWC 1 cut(s) 309
BsiSI CCGG 2 cut(s) 642, 1001
BslFI GGGAC 1 cut(s) 210
BslI CCNNNNNNNGG 3 cut(s) 458, 617, 680
BsmAI GTCTC 1 cut(s) 242
BsmFI GGGAC 1 cut(s) 210
BsmI GAATGC 1 cut(s) 1060
BsnI GGCC 1 cut(s) 462
Bsp1286I GDGCHC 1 cut(s) 309
Bsp143I GATC 2 cut(s) 322, 916
BspACI CCGC 3 cut(s) 162, 583, 784
BspANI GGCC 1 cut(s) 462
BspHI TCATGA 1 cut(s) 919
BspLI GGNNCC 1 cut(s) 324
BspPI GGATC 2 cut(s) 317, 330
BspQI GCTCTTC 1 cut(s) 888
BspTI CTTAAG 1 cut(s) 767
BsrBI CCGCTC 1 cut(s) 784
BsrI ACTGG 1 cut(s) 55
BssMI GATC 2 cut(s) 322, 916
Bst4CI ACNGT 4 cut(s) 253, 560, 675, 690
Bst6I CTCTTC 2 cut(s) 888, 960
BstAFI CTTAAG 1 cut(s) 767
BstBAI YACGTR 1 cut(s) 824
BstF5I GGATG 2 cut(s) 339, 643
BstH2I RGCGCY 1 cut(s) 402
BstHHI GCGC 1 cut(s) 401
BstKTI GATC 2 cut(s) 325, 919
BstMAI GTCTC 1 cut(s) 242
BstMBI GATC 2 cut(s) 322, 916
BstMWI GCNNNNNNNGC 2 cut(s) 313, 878
BstNSI RCATGY 4 cut(s) 111, 376, 514, 531
BstSCI CCNGG 1 cut(s) 1000
BstV2I GAAGAC 3 cut(s) 960, 981, 1012
BstX2I RGATCY 1 cut(s) 322
BstYI RGATCY 1 cut(s) 322
BsuI GTATCC 1 cut(s) 638
BsuRI GGCC 1 cut(s) 462
BtsCI GGATG 2 cut(s) 339, 643
BtsI GCAGTG 1 cut(s) 546
BtsIMutI CAGTG 1 cut(s) 546
CciI TCATGA 1 cut(s) 919
CfoI GCGC 1 cut(s) 401
Cfr13I GGNCC 2 cut(s) 671, 998
Csp6I GTAC 2 cut(s) 82, 159
CviAII CATG 9 cut(s) 99, 108, 373, 416, 511, 528, 554, 752, 920
CviJI RGCY 9 cut(s) 8, 176, 316, 425, 462, 494, 578, 837, 881
CviKI_1 RGCY 9 cut(s) 8, 176, 316, 425, 462, 494, 578, 837, 881
CviQI GTAC 2 cut(s) 82, 159
DpnI GATC 2 cut(s) 324, 918
DpnII GATC 2 cut(s) 322, 916
DraI TTTAAA 1 cut(s) 357
EaeI YGGCCR 1 cut(s) 460
Eam1104I CTCTTC 2 cut(s) 888, 960
EarI CTCTTC 2 cut(s) 888, 960
Eco47I GGWCC 2 cut(s) 671, 998
EcoT22I ATGCAT 2 cut(s) 985, 1060
FaeI CATG 9 cut(s) 102, 111, 376, 419, 514, 531, 557, 755, 923
FalI AAGNNNNNCTT 2 cut(s) 826, 858
FaqI GGGAC 1 cut(s) 210
FatI CATG 9 cut(s) 98, 107, 372, 415, 510, 527, 553, 751, 919
FauNDI CATATG 1 cut(s) 985
FokI GGATG 2 cut(s) 326, 650
GlaI GCGC 1 cut(s) 400
GsuI CTGGAG 1 cut(s) 33
HaeII RGCGCY 1 cut(s) 402
HaeIII GGCC 1 cut(s) 462
HapII CCGG 2 cut(s) 642, 1001
HhaI GCGC 1 cut(s) 401
Hin1II CATG 9 cut(s) 102, 111, 376, 419, 514, 531, 557, 755, 923
Hin6I GCGC 1 cut(s) 399
HinP1I GCGC 1 cut(s) 399
HindIII AAGCTT 2 cut(s) 423, 835
HinfI GANTC 1 cut(s) 362
HpaII CCGG 2 cut(s) 642, 1001
HphI GGTGA 4 cut(s) 257, 686, 695, 728
Hpy166II GTNNAC 1 cut(s) 686
Hpy188I TCNGA 1 cut(s) 90
Hpy188III TCNNGA 6 cut(s) 12, 74, 280, 326, 366, 920
Hpy8I GTNNAC 1 cut(s) 686
HpyAV CCTTC 3 cut(s) 134, 536, 707
HpyCH4III ACNGT 4 cut(s) 253, 560, 675, 690
HpyCH4IV ACGT 2 cut(s) 238, 823
HpyCH4V TGCA 8 cut(s) 501, 514, 527, 533, 755, 983, 1040, 1058
HpyF10VI GCNNNNNNNGC 2 cut(s) 313, 878
HpySE526I ACGT 2 cut(s) 238, 823
Hsp92II CATG 9 cut(s) 102, 111, 376, 419, 514, 531, 557, 755, 923
HspAI GCGC 1 cut(s) 399
Kzo9I GATC 2 cut(s) 322, 916
LguI GCTCTTC 1 cut(s) 888
LmnI GCTCC 1 cut(s) 116
LpnPI CCDG 8 cut(s) 36, 105, 228, 330, 519, 655, 714, 1014
LweI GCATC 2 cut(s) 348, 628
MaeII ACGT 2 cut(s) 238, 823
MaeIII GTNAC 1 cut(s) 46
MalI GATC 2 cut(s) 324, 918
MbiI CCGCTC 1 cut(s) 784
MboI GATC 2 cut(s) 322, 916
MboII GAAGA 9 cut(s) 753, 875, 912, 965, 977, 986, 1001, 1004, 1017
MfeI CAATTG 1 cut(s) 1035
MflI RGATCY 1 cut(s) 322
MhlI GDGCHC 1 cut(s) 309
MluCI AATT 7 cut(s) 36, 329, 351, 515, 598, 940, 1035
MlyI GAGTC 1 cut(s) 356
MnlI CCTC 5 cut(s) 16, 313, 387, 600, 707
Mph1103I ATGCAT 2 cut(s) 985, 1060
MseI TTAA 6 cut(s) 134, 356, 384, 747, 768, 1025
MslI CAYNNNNRTG 1 cut(s) 526
MspA1I CMGCKG 1 cut(s) 164
MspCI CTTAAG 1 cut(s) 767
MspI CCGG 2 cut(s) 642, 1001
MspR9I CCNGG 1 cut(s) 1002
MunI CAATTG 1 cut(s) 1035
Mva1269I GAATGC 1 cut(s) 1060
MwoI GCNNNNNNNGC 2 cut(s) 313, 878
NciI CCSGG 1 cut(s) 1002
NdeI CATATG 1 cut(s) 985
NdeII GATC 2 cut(s) 322, 916
NlaIII CATG 9 cut(s) 102, 111, 376, 419, 514, 531, 557, 755, 923
NlaIV GGNNCC 1 cut(s) 324
NsiI ATGCAT 2 cut(s) 985, 1060
NspI RCATGY 4 cut(s) 111, 376, 514, 531
PagI TCATGA 1 cut(s) 919
PciSI GCTCTTC 1 cut(s) 888
PctI GAATGC 1 cut(s) 1060
PflFI GACNNNGTC 1 cut(s) 201
PflMI CCANNNNNTGG 1 cut(s) 458
PfoI TCCNGGA 1 cut(s) 1000
PleI GAGTC 1 cut(s) 356
PpsI GAGTC 1 cut(s) 356
Ppu21I YACGTR 1 cut(s) 824
Psp1406I AACGTT 1 cut(s) 238
PspN4I GGNNCC 1 cut(s) 324
PspPI GGNCC 2 cut(s) 671, 998
PsuI RGATCY 1 cut(s) 322
PsyI GACNNNGTC 1 cut(s) 201
RsaI GTAC 2 cut(s) 83, 160
RsaNI GTAC 2 cut(s) 82, 159
RseI CAYNNNNRTG 1 cut(s) 526
SapI GCTCTTC 1 cut(s) 888
SaqAI TTAA 6 cut(s) 134, 356, 384, 747, 768, 1025
Sau3AI GATC 2 cut(s) 322, 916
Sau96I GGNCC 2 cut(s) 671, 998
SchI GAGTC 1 cut(s) 356
ScrFI CCNGG 1 cut(s) 1002
SduI GDGCHC 1 cut(s) 309
SfaNI GCATC 2 cut(s) 348, 628
SinI GGWCC 2 cut(s) 671, 998
SmiMI CAYNNNNRTG 1 cut(s) 526
SmlI CTYRAG 4 cut(s) 278, 364, 767, 946
SmoI CTYRAG 4 cut(s) 278, 364, 767, 946
Sse9I AATT 7 cut(s) 36, 329, 351, 515, 598, 940, 1035
SsiI CCGC 3 cut(s) 162, 583, 784
SspI AATATT 3 cut(s) 487, 626, 744
StyD4I CCNGG 1 cut(s) 1000
TaaI ACNGT 4 cut(s) 253, 560, 675, 690
TaiI ACGT 2 cut(s) 241, 826
TaqI TCGA 2 cut(s) 428, 596
TasI AATT 7 cut(s) 36, 329, 351, 515, 598, 940, 1035
TatI WGTACW 1 cut(s) 81
Tru1I TTAA 6 cut(s) 134, 356, 384, 747, 768, 1025
Tru9I TTAA 6 cut(s) 134, 356, 384, 747, 768, 1025
TscAI CASTG 1 cut(s) 553
TspDTI ATGAA 8 cut(s) 363, 404, 671, 735, 875, 945, 978, 1002
TspRI CASTG 1 cut(s) 553
Tth111I GACNNNGTC 1 cut(s) 201
Van91I CCANNNNNTGG 1 cut(s) 458
Vha464I CTTAAG 1 cut(s) 767
VpaK11BI GGWCC 2 cut(s) 671, 998
XapI RAATTY 3 cut(s) 329, 351, 598
XceI RCATGY 4 cut(s) 111, 376, 514, 531
Zsp2I ATGCAT 2 cut(s) 985, 1060
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.