Rw5G010830
MYB Family

nuclease HARBI1

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_wichuraiana
Chr5
OG0000468
Physical Location & Seq
Reverse (-)
11942486 .. 11943604
1119 bp
Loading structure...
UTR
Exon/CDS
Intron
Rw5G010830.1

Sequence Viewer

Length: 939 bp
ATGTTACGCACATCTGGTAAATTAAGAGACACAAGAAATGTAGTTGTAGATGAAATGGTGGCTATGTTCTTGCATATTCTTGCGCACCATGAAAAGAACAGAATCATACAAGATAGATTTTTGCGTTCTGGGGAAACAATTAGCAGATATTTTAACGCAGTATTAAGAGCAGTCCTATGTCTACAAGGACAATTGTTAAAAACACCAAAACCTGTTCCAGAAAACTCATCTGATGAGAAGTGGCAATGGTTTAAGAATTGTCTCGGGGCGCTAGATGAGACATATATTAGAGAACATGTGCCAGAAGCGGACAAGCCTAGGTACCGAAGTAGGAAGAATGAAATTGCTACTAATGTCTTGGGAGTATGCTCCCAAGATATGCAATTCATTTATGTATTACCGGGTTGGGAGGGTTCGGCTGCAGATTCACGAGTACTACGTGATGCCATTAGTAGGAGACATGGGTTCCGAGTCCCCCATGGATATTACTACCTTGTTGATGCTGGGTATCCAAATGGGGAGGGCTTTCTTGCTCCATATAGAGGCCAGAGATATCATTTAAATGATTGGAGAGAAGGATACCAACCTACCACCCCTGAAGAATTTTTTAATATGAAGCATTCTTCTGCTAGGAATGTGATAGAGAGATGTTTTGGGTTACTTAAGATGCGATGGGCAATTCTAAGGAGCCCTTCATTTTTTCCAGTGAAGACGCAGTGCCGAATTGTTATAGCATGTTGCTTGCTTCACAACCTTATAAGAAGGGAAATGGCAATTGATCCCTTAGAAAATGAACTGAATGCCATTGTGAATAACCAAGATGATGATGATGATGATATAATCAATTTTATCGACTCATCAGAACAATGGAATGATTGGAGAAGAGAGTTGGCAACACAAATGTTCAATGAATGGAGAGGAAATAGGAACACAAGATGA
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

312

Amino Acids

36.66

Weight (kDa)

8.13

Isoelectric Point (pI)

44.87

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
DUF8040 PF26138 2 - 59 5e-19 Domain of unknown function (DUF8040)
DDE_Tnp_1 PF01609 85 - 248 6.2e-08 Transposase DDE domain
DDE_Tnp_4 PF13359 97 - 251 3.2e-26 DDE superfamily endonuclease
Plant_tran PF04827 197 - 253 9.2e-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) 758
Acc16I TGCGCA 1 cut(s) 84
Acc65I GGTACC 1 cut(s) 321
AccB1I GGYRCC 1 cut(s) 321
AccI GTMKAC 1 cut(s) 181
AciI CCGC 1 cut(s) 308
AclWI GGATC 1 cut(s) 773
AcsI RAATTY 1 cut(s) 602
AcuI CTGAAG 1 cut(s) 618
AfaI GTAC 2 cut(s) 323, 435
AfiI CCNNNNNNNGG 2 cut(s) 453, 542
AflII CTTAAG 1 cut(s) 662
AflIII ACRYGT 1 cut(s) 295
AgsI TTSAA 1 cut(s) 907
Alw26I GTCTC 4 cut(s) 21, 266, 272, 451
AlwI GGATC 1 cut(s) 773
Ama87I CYCGRG 1 cut(s) 263
AoxI GGCC 1 cut(s) 544
ApeKI GCWGC 1 cut(s) 419
ApoI RAATTY 1 cut(s) 602
Asp718I GGTACC 1 cut(s) 321
AspA2I CCTAGG 1 cut(s) 317
AspLEI GCGC 2 cut(s) 85, 271
AsuC2I CCSGG 1 cut(s) 402
AvaI CYCGRG 1 cut(s) 263
AvrII CCTAGG 1 cut(s) 317
BaeI ACNNNNGTAYC 2 cut(s) 313, 346
BanI GGYRCC 1 cut(s) 321
BanII GRGCYC 1 cut(s) 692
BauI CACGAG 1 cut(s) 429
BbsI GAAGAC 1 cut(s) 716
BbvI GCAGC 1 cut(s) 406
BccI CCATC 1 cut(s) 666
BciVI GTATCC 2 cut(s) 519, 572
BcnI CCSGG 1 cut(s) 402
BcoDI GTCTC 4 cut(s) 21, 266, 272, 451
BfaI CTAG 3 cut(s) 272, 318, 630
BfmI CTRYAG 1 cut(s) 420
BfoI RGCGCY 1 cut(s) 272
BfrI CTTAAG 1 cut(s) 662
BfuI GTATCC 2 cut(s) 519, 572
BisI GCNGC 1 cut(s) 420
BlnI CCTAGG 1 cut(s) 317
BlsI GCNGC 1 cut(s) 421
BmcAI AGTACT 1 cut(s) 435
Bme1390I CCNGG 1 cut(s) 402
BmeT110I CYCGRG 1 cut(s) 263
BmiI GGNNCC 3 cut(s) 323, 467, 689
BmrFI CCNGG 1 cut(s) 402
BmsI GCATC 3 cut(s) 433, 490, 657
BpiI GAAGAC 1 cut(s) 716
BpuMI CCSGG 1 cut(s) 402
BsaAI YACGTR 1 cut(s) 440
BsaJI CCNNGG 2 cut(s) 317, 478
Bsc4I CCNNNNNNNGG 2 cut(s) 453, 542
Bse1I ACTGG 1 cut(s) 704
Bse3DI GCAATG 1 cut(s) 251
BseDI CCNNGG 2 cut(s) 317, 478
BseLI CCNNNNNNNGG 2 cut(s) 453, 542
BseMI GCAATG 1 cut(s) 251
BseNI ACTGG 1 cut(s) 704
BseXI GCAGC 1 cut(s) 406
BseYI CCCAGC 1 cut(s) 503
BshFI GGCC 1 cut(s) 546
BshNI GGYRCC 1 cut(s) 321
BsiHKCI CYCGRG 1 cut(s) 263
BsiSI CCGG 1 cut(s) 401
BslFI GGGAC 1 cut(s) 458
BslI CCNNNNNNNGG 2 cut(s) 453, 542
BsmAI GTCTC 4 cut(s) 21, 266, 272, 451
BsmFI GGGAC 1 cut(s) 458
BsmI GAATGC 2 cut(s) 619, 805
BsnI GGCC 1 cut(s) 546
BsoBI CYCGRG 1 cut(s) 263
Bsp1286I GDGCHC 1 cut(s) 692
Bsp143I GATC 1 cut(s) 778
Bsp19I CCATGG 1 cut(s) 478
BspACI CCGC 1 cut(s) 308
BspANI GGCC 1 cut(s) 546
BspLI GGNNCC 3 cut(s) 323, 467, 689
BspMAI CTGCAG 1 cut(s) 424
BspPI GGATC 1 cut(s) 773
BspT107I GGYRCC 1 cut(s) 321
BspTI CTTAAG 1 cut(s) 662
BsrDI GCAATG 1 cut(s) 251
BsrI ACTGG 1 cut(s) 704
BssECI CCNNGG 2 cut(s) 317, 478
BssMI GATC 1 cut(s) 778
BssSI CACGAG 1 cut(s) 429
BssT1I CCWWGG 2 cut(s) 317, 478
Bst2BI CACGAG 1 cut(s) 429
Bst6I CTCTTC 1 cut(s) 877
BstAFI CTTAAG 1 cut(s) 662
BstBAI YACGTR 1 cut(s) 440
BstC8I GCNNGC 1 cut(s) 743
BstDEI CTNAG 2 cut(s) 683, 784
BstDSI CCRYGG 1 cut(s) 478
BstH2I RGCGCY 1 cut(s) 272
BstHHI GCGC 2 cut(s) 85, 271
BstKTI GATC 1 cut(s) 781
BstMAI GTCTC 4 cut(s) 21, 266, 272, 451
BstMBI GATC 1 cut(s) 778
BstNSI RCATGY 2 cut(s) 299, 738
BstSCI CCNGG 1 cut(s) 400
BstSFI CTRYAG 1 cut(s) 420
BstV1I GCAGC 1 cut(s) 406
BstV2I GAAGAC 1 cut(s) 716
BsuI GTATCC 2 cut(s) 519, 572
BsuRI GGCC 1 cut(s) 546
BtgI CCRYGG 1 cut(s) 478
BtgZI GCGATG 1 cut(s) 685
BtsI GCAGTG 1 cut(s) 722
BtsIMutI CAGTG 2 cut(s) 711, 722
Cac8I GCNNGC 1 cut(s) 743
CfoI GCGC 2 cut(s) 85, 271
CseI GACGC 1 cut(s) 721
Csp6I GTAC 2 cut(s) 322, 434
CviAII CATG 5 cut(s) 89, 296, 461, 479, 735
CviJI RGCY 6 cut(s) 62, 316, 419, 525, 546, 690
CviKI_1 RGCY 6 cut(s) 62, 316, 419, 525, 546, 690
CviQI GTAC 2 cut(s) 322, 434
DdeI CTNAG 2 cut(s) 683, 784
DpnI GATC 1 cut(s) 780
DpnII GATC 1 cut(s) 778
DraI TTTAAA 1 cut(s) 561
Eam1104I CTCTTC 1 cut(s) 877
EarI CTCTTC 1 cut(s) 877
Eco130I CCWWGG 2 cut(s) 317, 478
Eco24I GRGCYC 1 cut(s) 692
Eco32I GATATC 1 cut(s) 554
Eco57I CTGAAG 1 cut(s) 618
Eco88I CYCGRG 1 cut(s) 263
EcoRV GATATC 1 cut(s) 554
EcoT14I CCWWGG 2 cut(s) 317, 478
EcoT38I GRGCYC 1 cut(s) 692
ErhI CCWWGG 2 cut(s) 317, 478
FaeI CATG 5 cut(s) 92, 299, 464, 482, 738
FalI AAGNNNNNCTT 2 cut(s) 676, 708
FaqI GGGAC 1 cut(s) 458
FatI CATG 5 cut(s) 88, 295, 460, 478, 734
FblI GTMKAC 1 cut(s) 181
Fnu4HI GCNGC 1 cut(s) 420
FriOI GRGCYC 1 cut(s) 692
Fsp4HI GCNGC 1 cut(s) 420
FspBI CTAG 3 cut(s) 272, 318, 630
FspI TGCGCA 1 cut(s) 84
GlaI GCGC 2 cut(s) 84, 270
GluI GCNGC 1 cut(s) 420
GsaI CCCAGC 1 cut(s) 507
HaeII RGCGCY 1 cut(s) 272
HaeIII GGCC 1 cut(s) 546
HapII CCGG 1 cut(s) 401
HgaI GACGC 1 cut(s) 721
HhaI GCGC 2 cut(s) 85, 271
Hin1II CATG 5 cut(s) 92, 299, 464, 482, 738
Hin6I GCGC 2 cut(s) 83, 269
HinP1I GCGC 2 cut(s) 83, 269
HinfI GANTC 4 cut(s) 102, 425, 471, 854
HpaII CCGG 1 cut(s) 401
Hpy166II GTNNAC 1 cut(s) 182
Hpy188I TCNGA 3 cut(s) 232, 470, 862
Hpy188III TCNNGA 2 cut(s) 218, 429
Hpy8I GTNNAC 1 cut(s) 182
HpyAV CCTTC 3 cut(s) 569, 702, 756
HpyCH4IV ACGT 1 cut(s) 439
HpyCH4V TGCA 3 cut(s) 73, 382, 422
HpyF3I CTNAG 2 cut(s) 683, 784
HpySE526I ACGT 1 cut(s) 439
Hsp92II CATG 5 cut(s) 92, 299, 464, 482, 738
HspAI GCGC 2 cut(s) 83, 269
KpnI GGTACC 1 cut(s) 325
Kzo9I GATC 1 cut(s) 778
LmnI GCTCC 3 cut(s) 374, 538, 687
LpnPI CCDG 9 cut(s) 114, 225, 231, 315, 414, 489, 560, 609, 717
Lsp1109I GCAGC 1 cut(s) 406
LweI GCATC 3 cut(s) 433, 490, 657
MaeI CTAG 3 cut(s) 272, 318, 630
MaeII ACGT 1 cut(s) 439
MaeIII GTNAC 2 cut(s) 3, 657
MalI GATC 1 cut(s) 780
MboI GATC 1 cut(s) 778
MboII GAAGA 5 cut(s) 346, 611, 615, 721, 894
MfeI CAATTG 2 cut(s) 191, 774
MhlI GDGCHC 1 cut(s) 692
MlyI GAGTC 2 cut(s) 480, 848
MnlI CCTC 4 cut(s) 403, 514, 536, 911
MseI TTAA 8 cut(s) 23, 153, 164, 197, 252, 560, 609, 663
MslI CAYNNNNRTG 1 cut(s) 561
MspCI CTTAAG 1 cut(s) 662
MspI CCGG 1 cut(s) 401
MspR9I CCNGG 1 cut(s) 402
MunI CAATTG 2 cut(s) 191, 774
Mva1269I GAATGC 2 cut(s) 619, 805
NciI CCSGG 1 cut(s) 402
NcoI CCATGG 1 cut(s) 478
NdeII GATC 1 cut(s) 778
NlaIII CATG 5 cut(s) 92, 299, 464, 482, 738
NlaIV GGNNCC 3 cut(s) 323, 467, 689
NsbI TGCGCA 1 cut(s) 84
NspI RCATGY 2 cut(s) 299, 738
PciI ACATGT 1 cut(s) 295
PcsI WCGNNNNNNNCGW 1 cut(s) 436
PctI GAATGC 2 cut(s) 619, 805
PfeI GAWTC 2 cut(s) 102, 425
PkrI GCNGC 1 cut(s) 421
PleI GAGTC 2 cut(s) 479, 848
PpsI GAGTC 2 cut(s) 479, 848
Ppu21I YACGTR 1 cut(s) 440
PscI ACATGT 1 cut(s) 295
PsiI TTATAA 1 cut(s) 758
PspFI CCCAGC 1 cut(s) 503
PspN4I GGNNCC 3 cut(s) 323, 467, 689
PstI CTGCAG 1 cut(s) 424
RsaI GTAC 2 cut(s) 323, 435
RsaNI GTAC 2 cut(s) 322, 434
RseI CAYNNNNRTG 1 cut(s) 561
SaqAI TTAA 8 cut(s) 23, 153, 164, 197, 252, 560, 609, 663
SatI GCNGC 1 cut(s) 420
Sau3AI GATC 1 cut(s) 778
ScaI AGTACT 1 cut(s) 435
SchI GAGTC 2 cut(s) 480, 848
ScrFI CCNGG 1 cut(s) 402
SduI GDGCHC 1 cut(s) 692
SetI ASST 6 cut(s) 214, 323, 442, 495, 589, 756
SfaNI GCATC 3 cut(s) 433, 490, 657
SfcI CTRYAG 1 cut(s) 420
SmiI ATTTAAAT 1 cut(s) 561
SmiMI CAYNNNNRTG 1 cut(s) 561
SmlI CTYRAG 1 cut(s) 662
SmoI CTYRAG 1 cut(s) 662
SsiI CCGC 1 cut(s) 308
SspMI CTAG 3 cut(s) 272, 318, 630
StyD4I CCNGG 1 cut(s) 400
StyI CCWWGG 2 cut(s) 317, 478
SwaI ATTTAAAT 1 cut(s) 561
TaiI ACGT 1 cut(s) 442
TaqI TCGA 1 cut(s) 852
TatI WGTACW 1 cut(s) 433
TfiI GAWTC 2 cut(s) 102, 425
Tru1I TTAA 8 cut(s) 23, 153, 164, 197, 252, 560, 609, 663
Tru9I TTAA 8 cut(s) 23, 153, 164, 197, 252, 560, 609, 663
TscAI CASTG 2 cut(s) 711, 722
TseI GCWGC 1 cut(s) 419
TspDTI ATGAA 8 cut(s) 66, 105, 354, 376, 629, 684, 807, 924
TspRI CASTG 2 cut(s) 711, 722
Vha464I CTTAAG 1 cut(s) 662
XapI RAATTY 1 cut(s) 602
XceI RCATGY 2 cut(s) 299, 738
XmaJI CCTAGG 1 cut(s) 317
XmiI GTMKAC 1 cut(s) 181
XspI CTAG 3 cut(s) 272, 318, 630
ZrmI AGTACT 1 cut(s) 435
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.