Rw5G026580
MYB Family

nuclease HARBI1

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_wichuraiana
Chr5
OG0000468
Physical Location & Seq
Forward (+)
38504169 .. 38505541
1373 bp
Loading structure...
UTR
Exon/CDS
Intron
Rw5G026580.1

Sequence Viewer

Length: 1197 bp
ATGGCTCGCAGAATCTTGTCAAAGACTAAAAAGATTCTACTAATGTTGGAAAATATTAAGGATTTATTTAATTTTGTCGTTATGATATACGTTATCATGTATATCATTGCTGAACGACATTATCGTAAGTACCGATTGAAATCAAAATCTATCTATGATGCTTTTTCAAGAGTTGGAAATTTTCAACGCACGGTGTATGTGAGTGATGTAAGATGTATAAATGAGCTTCGGATGGATAGGTACACATTTAACAAGTTGTGCTCCATGATACGCACATCTGGTAGACTGCGAGATACAAGAAATGTTTCTGTTGATGAAATGGTAGCTATGTTCTTGAACATACTTGCACACCATAAAAAGAACAGAGTCATACAAGACAAGTTTTTACGTTCAGGGGAAACTATTAGCAGATACTTCAATGCAGTTTTAAAGGCAATATTATGTCTACAAGGACAGTTATTGAAAACACCAGAACCAGTGGCTGAGAACTCAACTGATGAGAGGTGGAAGTTTTTTAAGAATTGCCTTGGAGCATTAGATGGGACATACATTAGAGTACATGTACCAGAAGTTGACAAGCCTAGGTATCGATCTAGGAAGAATGAAATTGCTACAAATGTCTTGGGAGTATGCTCTCAAGATATGCAATTCATTTATGTGTTACCGGGTTGGGAGGGTTCCGCTGCAGATTCGCGAGTCCTTCGTGATGCCATAAGTCGGAGACATGGTTTGAGAGTTCCTCATGGACATTATTATCTTGTTGATGCTGGATATCCAAATGGGGAAGGATTTCTTGCCCCATATAGAGGGCAGCGATATCATTTGAACGATTGGAGAGAAGGACACCAACCTACCTCTGCTGAAGAATATTTTAATATGAAGCACTCATCTGCTAGGAATGTGATAGAGAGGAGTTTTGGGTTACTTAAGTTACGTTGGGCAATTCTAAGAAGCCCTTCATTTTTTTCTGTGAAGACACAATGTCGAATTATTACTGCATGCTGCCTACTTCACAACCTTATAAGAAGAGAAATGGCTGTTGATCCATTAGAAAATCAGTTGCCAAATCAATTTGAAGATGACAATCATGATGAAGATGATATTATCAGTAGTATTGACTCATCTGAACAATGGAATAATTGGAGGAAAGATTTAGCAACAGCTATGTTCAACGAATGGAGAGCAAGTAGGAATTGA
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

398

Amino Acids

46.72

Weight (kDa)

9.48

Isoelectric Point (pI)

45.56

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
DUF8040 PF26138 69 - 147 5e-27 Domain of unknown function (DUF8040)
DDE_Tnp_1 PF01609 174 - 336 5.4e-08 Transposase DDE domain
DDE_Tnp_4 PF13359 179 - 339 1.4e-29 DDE superfamily endonuclease
Plant_tran PF04827 282 - 341 3.3e-07 Plant transposon protein
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: OG0000468)

Species Orthologous Gene IDs
fragaria_vesca FvH4_2g04030 FvH4_2g09411 FvH4_3g15551 FvH4_3g36421 FvH4_4g11701 FvH4_5g36381 FvH4_6g09143 FvH4_6g09144 FvH4_6g21972
malus_domestica MD00G1096500.v1.1 MD00G1122500.v1.1 MD02G1090600.v1.1 MD02G1173300.v1.1 MD05G1202800.v1.1 MD14G1123600.v1.1
prunus_persica Prupe.1G083600_v2.0.a1 Prupe.1G245300_v2.0.a1 Prupe.5G002100_v2.0.a1 Prupe.6G061200_v2.0.a1
pyrus_communis pycom01g07060 pycom02g13920 pycom04g11780 pycom04g13480 pycom04g21940 pycom06g07950 pycom07g03740 pycom07g03980 pycom09g02010 pycom09g02020 pycom09g11510 pycom09g14260 pycom10g02500 pycom10g15690 pycom12g08730 pycom12g08740 pycom14g19840 pycom15g16780 pycom15g24940 pycom15g25660 pycom16g21630 pycom16g26320
rosa_chinensis RchiOBHm_Chr1g0330371 RchiOBHm_Chr1g0331991 RchiOBHm_Chr6g0300321
rosa_laevigata RLG00000013795
rosa_multiflora Rmu_sc0000060.1_g000010 Rmu_sc0000288.1_g000044 Rmu_sc0002219.1_g000002 Rmu_sc0003995.1_g000003
rosa_roxburghii Rroxscaffold_1G00059020 Rroxscaffold_2G00108450 Rroxscaffold_2G00112460 Rroxscaffold_5G00375700 Rroxscaffold_5G00381640 Rroxscaffold_7G00158590
rosa_rugosa Rorug01G0237300 Rorug01G0237400 Rorug01G0237500 Rorug02G0051900 Rorug03G0260600 Rorug03G0285800 Rorug04G0076800 Rorug04G0162600 Rorug07G0264500 Rorug07G0264500
rosa_samantha Rh2DG003500 Rh3CG244800 Rh4CG334200 Rh5AG318300 Rh5BG549000 Rh7AG126400 Rh7CG118500 Rh7CG154500 Rh7DG025400
rosa_wichuraiana Rw1G026390 Rw2G005400 Rw2G034490 Rw3G019530 Rw3G028000 Rw4G010490 Rw5G010830 Rw5G023340 Rw5G026580 Rw5G041150 Rw6G003010 Rw6G003290 Rw6G010630 Rw6G021220 Rw6G035650 Rw7G014310

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 1022
AccI GTMKAC 2 cut(s) 283, 445
AccII CGCG 1 cut(s) 694
AciI CCGC 1 cut(s) 681
AclWI GGATC 1 cut(s) 1037
AcsI RAATTY 1 cut(s) 178
AcuI CTGAAG 1 cut(s) 882
AfaI GTAC 4 cut(s) 131, 242, 558, 564
AfiI CCNNNNNNNGG 2 cut(s) 717, 806
AflII CTTAAG 1 cut(s) 926
AflIII ACRYGT 1 cut(s) 559
AgsI TTSAA 9 cut(s) 139, 168, 185, 337, 418, 463, 826, 1076, 1171
AhdI GACNNNNNGTC 1 cut(s) 981
AluBI AGCT 3 cut(s) 226, 326, 1163
AluI AGCT 3 cut(s) 226, 326, 1163
Alw21I GWGCWC 1 cut(s) 263
Alw26I GTCTC 1 cut(s) 715
AlwI GGATC 1 cut(s) 1037
AlwNI CAGNNNCTG 1 cut(s) 482
ApeKI GCWGC 3 cut(s) 683, 811, 1002
ApoI RAATTY 1 cut(s) 178
Asp700I GAANNNNTTC 3 cut(s) 304, 789, 955
AspA2I CCTAGG 1 cut(s) 581
AsuC2I CCSGG 1 cut(s) 666
AvrII CCTAGG 1 cut(s) 581
BbsI GAAGAC 1 cut(s) 980
Bbv12I GWGCWC 1 cut(s) 263
BbvI GCAGC 3 cut(s) 670, 823, 989
BccI CCATC 2 cut(s) 226, 533
BcnI CCSGG 1 cut(s) 666
BcoDI GTCTC 1 cut(s) 715
BfaI CTAG 3 cut(s) 582, 594, 894
BfmI CTRYAG 1 cut(s) 684
BfrI CTTAAG 1 cut(s) 926
BisI GCNGC 3 cut(s) 684, 812, 1003
BlnI CCTAGG 1 cut(s) 581
BlsI GCNGC 3 cut(s) 685, 813, 1004
Bme1390I CCNGG 1 cut(s) 666
BmeRI GACNNNNNGTC 1 cut(s) 981
BmiI GGNNCC 1 cut(s) 679
BmrFI CCNGG 1 cut(s) 666
BmsI GCATC 3 cut(s) 148, 697, 754
BpiI GAAGAC 1 cut(s) 980
BplI GAGNNNNNCTC 2 cut(s) 724, 756
BpuEI CTTGAG 1 cut(s) 621
BpuMI CCSGG 1 cut(s) 666
Bsa29I ATCGAT 1 cut(s) 589
BsaBI GATNNNNATC 2 cut(s) 139, 1083
BsaJI CCNNGG 2 cut(s) 526, 581
BsaXI ACNNNNNCTCC 3 cut(s) 712, 742, 1171
Bsc4I CCNNNNNNNGG 2 cut(s) 717, 806
Bse1I ACTGG 1 cut(s) 476
Bse3DI GCAATG 1 cut(s) 105
Bse8I GATNNNNATC 2 cut(s) 139, 1083
BseCI ATCGAT 1 cut(s) 589
BseDI CCNNGG 2 cut(s) 526, 581
BseGI GGATG 1 cut(s) 237
BseJI GATNNNNATC 2 cut(s) 139, 1083
BseLI CCNNNNNNNGG 2 cut(s) 717, 806
BseMI GCAATG 1 cut(s) 105
BseMII CTCAG 1 cut(s) 474
BseNI ACTGG 1 cut(s) 476
BseRI GAGGAG 1 cut(s) 925
BseXI GCAGC 3 cut(s) 670, 823, 989
Bsh1236I CGCG 1 cut(s) 694
BshVI ATCGAT 1 cut(s) 589
BsiHKAI GWGCWC 1 cut(s) 263
BsiSI CCGG 1 cut(s) 665
BslFI GGGAC 1 cut(s) 556
BslI CCNNNNNNNGG 2 cut(s) 717, 806
BsmAI GTCTC 1 cut(s) 715
BsmFI GGGAC 1 cut(s) 556
Bsp1286I GDGCHC 1 cut(s) 263
Bsp143I GATC 2 cut(s) 590, 1042
Bsp68I TCGCGA 1 cut(s) 694
BspACI CCGC 1 cut(s) 681
BspCNI CTCAG 1 cut(s) 475
BspDI ATCGAT 1 cut(s) 589
BspFNI CGCG 1 cut(s) 694
BspHI TCATGA 1 cut(s) 1087
BspLI GGNNCC 1 cut(s) 679
BspMAI CTGCAG 1 cut(s) 688
BspPI GGATC 1 cut(s) 1037
BspTI CTTAAG 1 cut(s) 926
BsrDI GCAATG 1 cut(s) 105
BsrI ACTGG 1 cut(s) 476
BssECI CCNNGG 2 cut(s) 526, 581
BssMI GATC 2 cut(s) 590, 1042
BssT1I CCWWGG 2 cut(s) 526, 581
Bst4CI ACNGT 2 cut(s) 193, 456
Bst6I CTCTTC 1 cut(s) 1021
BstAFI CTTAAG 1 cut(s) 926
BstC8I GCNNGC 2 cut(s) 7, 1000
BstDEI CTNAG 2 cut(s) 483, 947
BstF5I GGATG 1 cut(s) 237
BstFNI CGCG 1 cut(s) 694
BstKTI GATC 2 cut(s) 593, 1045
BstMAI GTCTC 1 cut(s) 715
BstMBI GATC 2 cut(s) 590, 1042
BstNSI RCATGY 2 cut(s) 563, 1002
BstSCI CCNGG 1 cut(s) 664
BstSFI CTRYAG 1 cut(s) 684
BstUI CGCG 1 cut(s) 694
BstV1I GCAGC 3 cut(s) 670, 823, 989
BstV2I GAAGAC 1 cut(s) 980
Bsu15I ATCGAT 1 cut(s) 589
BsuTUI ATCGAT 1 cut(s) 589
BtsCI GGATG 1 cut(s) 237
BtsIMutI CAGTG 1 cut(s) 483
BtuMI TCGCGA 1 cut(s) 694
Cac8I GCNNGC 2 cut(s) 7, 1000
CaiI CAGNNNCTG 1 cut(s) 482
CciI TCATGA 1 cut(s) 1087
ClaI ATCGAT 1 cut(s) 589
Csp6I GTAC 4 cut(s) 130, 241, 557, 563
CviAII CATG 7 cut(s) 97, 265, 560, 725, 743, 999, 1088
CviJI RGCY 8 cut(s) 5, 226, 326, 482, 580, 954, 1037, 1163
CviKI_1 RGCY 8 cut(s) 5, 226, 326, 482, 580, 954, 1037, 1163
CviQI GTAC 4 cut(s) 130, 241, 557, 563
DdeI CTNAG 2 cut(s) 483, 947
DpnI GATC 2 cut(s) 592, 1044
DpnII GATC 2 cut(s) 590, 1042
DraI TTTAAA 1 cut(s) 429
DriI GACNNNNNGTC 1 cut(s) 981
Eam1104I CTCTTC 1 cut(s) 1021
Eam1105I GACNNNNNGTC 1 cut(s) 981
EarI CTCTTC 1 cut(s) 1021
Eco130I CCWWGG 2 cut(s) 526, 581
Eco32I GATATC 2 cut(s) 773, 818
Eco57I CTGAAG 1 cut(s) 882
EcoRV GATATC 2 cut(s) 773, 818
EcoT14I CCWWGG 2 cut(s) 526, 581
ErhI CCWWGG 2 cut(s) 526, 581
FaeI CATG 7 cut(s) 100, 268, 563, 728, 746, 1002, 1091
FalI AAGNNNNNCTT 4 cut(s) 777, 809, 940, 972
FaqI GGGAC 1 cut(s) 556
FatI CATG 7 cut(s) 96, 264, 559, 724, 742, 998, 1087
FblI GTMKAC 2 cut(s) 283, 445
Fnu4HI GCNGC 3 cut(s) 684, 812, 1003
FokI GGATG 1 cut(s) 244
Fsp4HI GCNGC 3 cut(s) 684, 812, 1003
FspBI CTAG 3 cut(s) 582, 594, 894
GluI GCNGC 3 cut(s) 684, 812, 1003
HapII CCGG 1 cut(s) 665
Hin1II CATG 7 cut(s) 100, 268, 563, 728, 746, 1002, 1091
HincII GTYRAC 1 cut(s) 574
HindII GTYRAC 1 cut(s) 574
HinfI GANTC 6 cut(s) 12, 34, 366, 689, 696, 1118
HpaII CCGG 1 cut(s) 665
Hpy166II GTNNAC 4 cut(s) 243, 284, 446, 574
Hpy188I TCNGA 3 cut(s) 231, 720, 1126
Hpy188III TCNNGA 6 cut(s) 168, 334, 638, 693, 704, 1088
Hpy8I GTNNAC 4 cut(s) 243, 284, 446, 574
HpyAV CCTTC 4 cut(s) 710, 779, 833, 966
HpyCH4III ACNGT 2 cut(s) 193, 456
HpyCH4IV ACGT 3 cut(s) 90, 388, 934
HpyCH4V TGCA 5 cut(s) 347, 422, 646, 686, 998
HpyF3I CTNAG 2 cut(s) 483, 947
HpySE526I ACGT 3 cut(s) 90, 388, 934
Hsp92II CATG 7 cut(s) 100, 268, 563, 728, 746, 1002, 1091
Kzo9I GATC 2 cut(s) 590, 1042
LmnI GCTCC 2 cut(s) 266, 530
LpnPI CCDG 7 cut(s) 264, 378, 483, 489, 579, 678, 753
Lsp1109I GCAGC 3 cut(s) 670, 823, 989
LweI GCATC 3 cut(s) 148, 697, 754
MaeI CTAG 3 cut(s) 582, 594, 894
MaeII ACGT 3 cut(s) 90, 388, 934
MaeIII GTNAC 3 cut(s) 660, 921, 930
MalI GATC 2 cut(s) 592, 1044
MboI GATC 2 cut(s) 590, 1042
MboII GAAGA 6 cut(s) 610, 875, 985, 1038, 1088, 1106
MhlI GDGCHC 1 cut(s) 263
MlyI GAGTC 3 cut(s) 375, 705, 1112
MmeI TCCRAC 3 cut(s) 27, 154, 698
MnlI CCTC 7 cut(s) 495, 667, 750, 800, 865, 903, 1137
MroXI GAANNNNTTC 3 cut(s) 304, 789, 955
MseI TTAA 7 cut(s) 57, 69, 249, 428, 516, 873, 927
MslI CAYNNNNRTG 1 cut(s) 656
MspA1I CMGCKG 1 cut(s) 683
MspCI CTTAAG 1 cut(s) 926
MspI CCGG 1 cut(s) 665
MspR9I CCNGG 1 cut(s) 666
MvnI CGCG 1 cut(s) 694
NciI CCSGG 1 cut(s) 666
NdeII GATC 2 cut(s) 590, 1042
NlaIII CATG 7 cut(s) 100, 268, 563, 728, 746, 1002, 1091
NlaIV GGNNCC 1 cut(s) 679
NruI TCGCGA 1 cut(s) 694
NspI RCATGY 2 cut(s) 563, 1002
PaeI GCATGC 1 cut(s) 1002
PagI TCATGA 1 cut(s) 1087
PciI ACATGT 1 cut(s) 559
PcsI WCGNNNNNNNCGW 2 cut(s) 121, 130
PdmI GAANNNNTTC 3 cut(s) 304, 789, 955
PfeI GAWTC 3 cut(s) 12, 34, 689
PkrI GCNGC 3 cut(s) 685, 813, 1004
PleI GAGTC 3 cut(s) 374, 704, 1112
PpsI GAGTC 3 cut(s) 374, 704, 1112
PscI ACATGT 1 cut(s) 559
PsiI TTATAA 1 cut(s) 1022
PspN4I GGNNCC 1 cut(s) 679
PstI CTGCAG 1 cut(s) 688
PstNI CAGNNNCTG 1 cut(s) 482
RruI TCGCGA 1 cut(s) 694
RsaI GTAC 4 cut(s) 131, 242, 558, 564
RsaNI GTAC 4 cut(s) 130, 241, 557, 563
RseI CAYNNNNRTG 1 cut(s) 656
SaqAI TTAA 7 cut(s) 57, 69, 249, 428, 516, 873, 927
SatI GCNGC 3 cut(s) 684, 812, 1003
Sau3AI GATC 2 cut(s) 590, 1042
SchI GAGTC 3 cut(s) 375, 705, 1112
ScrFI CCNGG 1 cut(s) 666
SduI GDGCHC 1 cut(s) 263
SfaNI GCATC 3 cut(s) 148, 697, 754
SfcI CTRYAG 1 cut(s) 684
SmiMI CAYNNNNRTG 1 cut(s) 656
SmlI CTYRAG 2 cut(s) 636, 926
SmoI CTYRAG 2 cut(s) 636, 926
SphI GCATGC 1 cut(s) 1002
SsiI CCGC 1 cut(s) 681
SspI AATATT 3 cut(s) 55, 438, 869
SspMI CTAG 3 cut(s) 582, 594, 894
StyD4I CCNGG 1 cut(s) 664
StyI CCWWGG 2 cut(s) 526, 581
TaaI ACNGT 2 cut(s) 193, 456
TaiI ACGT 3 cut(s) 93, 391, 937
TaqI TCGA 2 cut(s) 589, 985
TatI WGTACW 1 cut(s) 556
TfiI GAWTC 3 cut(s) 12, 34, 689
Tru1I TTAA 7 cut(s) 57, 69, 249, 428, 516, 873, 927
Tru9I TTAA 7 cut(s) 57, 69, 249, 428, 516, 873, 927
TscAI CASTG 1 cut(s) 483
TseI GCWGC 3 cut(s) 683, 811, 1002
TspDTI ATGAA 6 cut(s) 330, 618, 640, 893, 948, 1107
TspRI CASTG 1 cut(s) 483
Vha464I CTTAAG 1 cut(s) 926
XapI RAATTY 1 cut(s) 178
XceI RCATGY 2 cut(s) 563, 1002
XmaJI CCTAGG 1 cut(s) 581
XmiI GTMKAC 2 cut(s) 283, 445
XmnI GAANNNNTTC 3 cut(s) 304, 789, 955
XspI CTAG 3 cut(s) 582, 594, 894
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.