Rw4G010490
MYB Family

nuclease HARBI1

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_wichuraiana
Chr4
OG0000468
Physical Location & Seq
Reverse (-)
24351691 .. 24352852
1162 bp
Loading structure...
UTR
Exon/CDS
Intron
Rw4G010490.1

Sequence Viewer

Length: 822 bp
ATGTTCTTGAACATACTTGCACACCATAAAAAGAACAGAGTCATACAAGACAAGTTTTTACGTTCAGGGGAAACTATTAGCAGATACTTTAATGCAGTTTTAAAGGCAATATTATGTCTACAAGGACAGTTATTGAAAACACCAGAACCAGTGGCTGAGAACTCAACTGATGAGAGGTGGAAGTTTTTTAAGAATTGCCTTGGAGCATTAGATGGGACATACATTAGAGTACATGTACCAGAAGTTGACAAGCCTAGGTATCGATCTAGGAAGAATGAAATTGCTACAAATGTCTTGGGAGTATGCTCTCAAGATATGCAATTCATTTATGTGTTACCGGGTTTGGAGGGTTCCGCTGCAGATTCGCGAGTCCTTCGACATTATTATCTTGTTGATGCTGGATATCCAAATGGGGAAGGATTTCTTGCCCCATATAGAGGGCAGCGATATCATTTGAACGATTGGAGAGAAGGACACCAACCTACCTCTGCTGAAGAATATTTTAATATGAAGCACTCATCTGCTAGGAATGTGATAGAGAGGTGTTTTGGGTTACTTAAGTTACGTTGGGCAATTCTAAGAAGCCCTTCATTTTTTTCTACACAATGTCGAATTATTACTGCATGCTGCCTACTTCACAACCTTATAAGAAGAGAAATGGCTGTTGATCCATTAGAAAATCAGTTGCCAAATCAATTTGAAGATGACAATCATGATGAAGATGATATTATCAGTAGTATTGACTCATCTGAACAATGGAATAATTGGAGGAAAGATTTAGCAACAGCTATGTTCAACGAATGGAGAGCAAGTAGGAATTGA
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

273

Amino Acids

31.77

Weight (kDa)

7.64

Isoelectric Point (pI)

49.37

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
DUF8040 PF26138 1 - 38 2.1e-10 Domain of unknown function (DUF8040)
DDE_Tnp_4 PF13359 70 - 214 2.7e-23 DDE superfamily endonuclease
Plant_tran PF04827 163 - 216 5e-06 Plant transposon protein
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
Loading...
Style Settings
Image
Tree File
Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

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) 647
AccI GTMKAC 1 cut(s) 118
AccII CGCG 1 cut(s) 367
AciI CCGC 1 cut(s) 354
AclWI GGATC 1 cut(s) 662
AcuI CTGAAG 1 cut(s) 513
AfaI GTAC 2 cut(s) 231, 237
AfiI CCNNNNNNNGG 1 cut(s) 437
AflII CTTAAG 1 cut(s) 557
AflIII ACRYGT 1 cut(s) 232
AgsI TTSAA 5 cut(s) 10, 136, 457, 701, 796
AluBI AGCT 1 cut(s) 788
AluI AGCT 1 cut(s) 788
AlwI GGATC 1 cut(s) 662
AlwNI CAGNNNCTG 1 cut(s) 155
ApeKI GCWGC 3 cut(s) 356, 442, 627
Asp700I GAANNNNTTC 2 cut(s) 420, 586
AspA2I CCTAGG 1 cut(s) 254
AsuC2I CCSGG 1 cut(s) 339
AvrII CCTAGG 1 cut(s) 254
BbvI GCAGC 3 cut(s) 343, 454, 614
BccI CCATC 1 cut(s) 206
BcnI CCSGG 1 cut(s) 339
BfaI CTAG 3 cut(s) 255, 267, 525
BfmI CTRYAG 1 cut(s) 357
BfrI CTTAAG 1 cut(s) 557
BisI GCNGC 3 cut(s) 357, 443, 628
BlnI CCTAGG 1 cut(s) 254
BlsI GCNGC 3 cut(s) 358, 444, 629
Bme1390I CCNGG 1 cut(s) 339
BmiI GGNNCC 1 cut(s) 352
BmrFI CCNGG 1 cut(s) 339
BmsI GCATC 1 cut(s) 385
BpuEI CTTGAG 1 cut(s) 294
BpuMI CCSGG 1 cut(s) 339
Bsa29I ATCGAT 1 cut(s) 262
BsaBI GATNNNNATC 1 cut(s) 708
BsaJI CCNNGG 2 cut(s) 199, 254
BsaXI ACNNNNNCTCC 1 cut(s) 796
Bsc4I CCNNNNNNNGG 1 cut(s) 437
Bse1I ACTGG 1 cut(s) 149
Bse8I GATNNNNATC 1 cut(s) 708
BseCI ATCGAT 1 cut(s) 262
BseDI CCNNGG 2 cut(s) 199, 254
BseJI GATNNNNATC 1 cut(s) 708
BseLI CCNNNNNNNGG 1 cut(s) 437
BseMII CTCAG 1 cut(s) 147
BseNI ACTGG 1 cut(s) 149
BseXI GCAGC 3 cut(s) 343, 454, 614
Bsh1236I CGCG 1 cut(s) 367
BshVI ATCGAT 1 cut(s) 262
BsiSI CCGG 1 cut(s) 338
BslFI GGGAC 1 cut(s) 229
BslI CCNNNNNNNGG 1 cut(s) 437
BsmFI GGGAC 1 cut(s) 229
Bsp143I GATC 2 cut(s) 263, 667
Bsp68I TCGCGA 1 cut(s) 367
BspACI CCGC 1 cut(s) 354
BspCNI CTCAG 1 cut(s) 148
BspDI ATCGAT 1 cut(s) 262
BspFNI CGCG 1 cut(s) 367
BspHI TCATGA 1 cut(s) 712
BspLI GGNNCC 1 cut(s) 352
BspMAI CTGCAG 1 cut(s) 361
BspPI GGATC 1 cut(s) 662
BspTI CTTAAG 1 cut(s) 557
BsrI ACTGG 1 cut(s) 149
BssECI CCNNGG 2 cut(s) 199, 254
BssMI GATC 2 cut(s) 263, 667
BssT1I CCWWGG 2 cut(s) 199, 254
Bst4CI ACNGT 1 cut(s) 129
Bst6I CTCTTC 1 cut(s) 646
BstAFI CTTAAG 1 cut(s) 557
BstC8I GCNNGC 1 cut(s) 625
BstDEI CTNAG 2 cut(s) 156, 578
BstFNI CGCG 1 cut(s) 367
BstKTI GATC 2 cut(s) 266, 670
BstMBI GATC 2 cut(s) 263, 667
BstNSI RCATGY 2 cut(s) 236, 627
BstSCI CCNGG 1 cut(s) 337
BstSFI CTRYAG 1 cut(s) 357
BstUI CGCG 1 cut(s) 367
BstV1I GCAGC 3 cut(s) 343, 454, 614
Bsu15I ATCGAT 1 cut(s) 262
BsuTUI ATCGAT 1 cut(s) 262
BtsIMutI CAGTG 1 cut(s) 156
BtuMI TCGCGA 1 cut(s) 367
Cac8I GCNNGC 1 cut(s) 625
CaiI CAGNNNCTG 1 cut(s) 155
CciI TCATGA 1 cut(s) 712
ClaI ATCGAT 1 cut(s) 262
Csp6I GTAC 2 cut(s) 230, 236
CviAII CATG 3 cut(s) 233, 624, 713
CviJI RGCY 5 cut(s) 155, 253, 585, 662, 788
CviKI_1 RGCY 5 cut(s) 155, 253, 585, 662, 788
CviQI GTAC 2 cut(s) 230, 236
DdeI CTNAG 2 cut(s) 156, 578
DpnI GATC 2 cut(s) 265, 669
DpnII GATC 2 cut(s) 263, 667
DraI TTTAAA 1 cut(s) 102
Eam1104I CTCTTC 1 cut(s) 646
EarI CTCTTC 1 cut(s) 646
Eco130I CCWWGG 2 cut(s) 199, 254
Eco32I GATATC 2 cut(s) 404, 449
Eco57I CTGAAG 1 cut(s) 513
EcoRV GATATC 2 cut(s) 404, 449
EcoT14I CCWWGG 2 cut(s) 199, 254
ErhI CCWWGG 2 cut(s) 199, 254
FaeI CATG 3 cut(s) 236, 627, 716
FalI AAGNNNNNCTT 4 cut(s) 408, 440, 571, 603
FaqI GGGAC 1 cut(s) 229
FatI CATG 3 cut(s) 232, 623, 712
FblI GTMKAC 1 cut(s) 118
Fnu4HI GCNGC 3 cut(s) 357, 443, 628
Fsp4HI GCNGC 3 cut(s) 357, 443, 628
FspBI CTAG 3 cut(s) 255, 267, 525
GluI GCNGC 3 cut(s) 357, 443, 628
HapII CCGG 1 cut(s) 338
Hin1II CATG 3 cut(s) 236, 627, 716
HincII GTYRAC 1 cut(s) 247
HindII GTYRAC 1 cut(s) 247
HinfI GANTC 4 cut(s) 39, 362, 369, 743
HpaII CCGG 1 cut(s) 338
Hpy166II GTNNAC 2 cut(s) 119, 247
Hpy188I TCNGA 1 cut(s) 751
Hpy188III TCNNGA 4 cut(s) 7, 311, 366, 713
Hpy8I GTNNAC 2 cut(s) 119, 247
HpyAV CCTTC 4 cut(s) 383, 410, 464, 597
HpyCH4III ACNGT 1 cut(s) 129
HpyCH4IV ACGT 2 cut(s) 61, 565
HpyCH4V TGCA 5 cut(s) 20, 95, 319, 359, 623
HpyF3I CTNAG 2 cut(s) 156, 578
HpySE526I ACGT 2 cut(s) 61, 565
Hsp92II CATG 3 cut(s) 236, 627, 716
Kzo9I GATC 2 cut(s) 263, 667
LmnI GCTCC 1 cut(s) 203
LpnPI CCDG 6 cut(s) 51, 156, 162, 252, 351, 384
Lsp1109I GCAGC 3 cut(s) 343, 454, 614
LweI GCATC 1 cut(s) 385
MaeI CTAG 3 cut(s) 255, 267, 525
MaeII ACGT 2 cut(s) 61, 565
MaeIII GTNAC 3 cut(s) 333, 552, 561
MalI GATC 2 cut(s) 265, 669
MboI GATC 2 cut(s) 263, 667
MboII GAAGA 5 cut(s) 283, 506, 663, 713, 731
MluCI AATT 8 cut(s) 193, 279, 320, 573, 612, 695, 763, 817
MlyI GAGTC 3 cut(s) 48, 378, 737
MnlI CCTC 6 cut(s) 168, 340, 431, 496, 534, 762
MroXI GAANNNNTTC 2 cut(s) 420, 586
MseI TTAA 5 cut(s) 90, 101, 189, 504, 558
MslI CAYNNNNRTG 1 cut(s) 329
MspA1I CMGCKG 1 cut(s) 356
MspCI CTTAAG 1 cut(s) 557
MspI CCGG 1 cut(s) 338
MspR9I CCNGG 1 cut(s) 339
MvnI CGCG 1 cut(s) 367
NciI CCSGG 1 cut(s) 339
NdeII GATC 2 cut(s) 263, 667
NlaIII CATG 3 cut(s) 236, 627, 716
NlaIV GGNNCC 1 cut(s) 352
NruI TCGCGA 1 cut(s) 367
NspI RCATGY 2 cut(s) 236, 627
PaeI GCATGC 1 cut(s) 627
PagI TCATGA 1 cut(s) 712
PciI ACATGT 1 cut(s) 232
PdmI GAANNNNTTC 2 cut(s) 420, 586
PfeI GAWTC 1 cut(s) 362
PkrI GCNGC 3 cut(s) 358, 444, 629
PleI GAGTC 3 cut(s) 47, 377, 737
PpsI GAGTC 3 cut(s) 47, 377, 737
PscI ACATGT 1 cut(s) 232
PsiI TTATAA 1 cut(s) 647
PspN4I GGNNCC 1 cut(s) 352
PstI CTGCAG 1 cut(s) 361
PstNI CAGNNNCTG 1 cut(s) 155
RruI TCGCGA 1 cut(s) 367
RsaI GTAC 2 cut(s) 231, 237
RsaNI GTAC 2 cut(s) 230, 236
RseI CAYNNNNRTG 1 cut(s) 329
SaqAI TTAA 5 cut(s) 90, 101, 189, 504, 558
SatI GCNGC 3 cut(s) 357, 443, 628
Sau3AI GATC 2 cut(s) 263, 667
SchI GAGTC 3 cut(s) 48, 378, 737
ScrFI CCNGG 1 cut(s) 339
SetI ASST 9 cut(s) 64, 179, 260, 484, 488, 545, 568, 645, 790
SfaNI GCATC 1 cut(s) 385
SfcI CTRYAG 1 cut(s) 357
SmiMI CAYNNNNRTG 1 cut(s) 329
SmlI CTYRAG 2 cut(s) 309, 557
SmoI CTYRAG 2 cut(s) 309, 557
SphI GCATGC 1 cut(s) 627
Sse9I AATT 8 cut(s) 193, 279, 320, 573, 612, 695, 763, 817
SsiI CCGC 1 cut(s) 354
SspI AATATT 2 cut(s) 111, 500
SspMI CTAG 3 cut(s) 255, 267, 525
StyD4I CCNGG 1 cut(s) 337
StyI CCWWGG 2 cut(s) 199, 254
TaaI ACNGT 1 cut(s) 129
TaiI ACGT 2 cut(s) 64, 568
TaqI TCGA 3 cut(s) 262, 376, 610
TasI AATT 8 cut(s) 193, 279, 320, 573, 612, 695, 763, 817
TatI WGTACW 1 cut(s) 229
TfiI GAWTC 1 cut(s) 362
Tru1I TTAA 5 cut(s) 90, 101, 189, 504, 558
Tru9I TTAA 5 cut(s) 90, 101, 189, 504, 558
TscAI CASTG 1 cut(s) 156
TseI GCWGC 3 cut(s) 356, 442, 627
TspDTI ATGAA 5 cut(s) 291, 313, 524, 579, 732
TspRI CASTG 1 cut(s) 156
Vha464I CTTAAG 1 cut(s) 557
XceI RCATGY 2 cut(s) 236, 627
XmaJI CCTAGG 1 cut(s) 254
XmiI GTMKAC 1 cut(s) 118
XmnI GAANNNNTTC 2 cut(s) 420, 586
XspI CTAG 3 cut(s) 255, 267, 525
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.