Rw6G021220
MYB Family

nuclease HARBI1

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_wichuraiana
Chr6
OG0000468
Physical Location & Seq
Forward (+)
42456602 .. 42457980
1379 bp
Loading structure...
UTR
Exon/CDS
Intron
Rw6G021220.1

Sequence Viewer

Length: 1104 bp
ATGGCTCGTAGAAAGTTGTCGAAGACAAAAATGATTCTTCTAATGCTGGACAATATTAAGGATTTGATTAACTTTGTCTATATATTGAAATCACCATCTTTTTATGATGCTTTGTCAAGAATTGGAAATGTTCAACGAATGGTGTATGCAAGCGATGTAAGATGCATAAACAGTCTCCGCATGGATAGGCATACATTTAGCTTATTGTGCTCTATGTTACGCACATCTGGTAAATTAGGAGACACAAGAAATGTATCTGTAGATGAAATGGTGGCTATGTTCTTGCATATTCTTGCGCACCATGAAAAGAACAGAATCATACAAGATAGATTTGTGCGTTCTGGGGAAACAATTAGCAGATATTTTGACGCGGTATTAAGAGCAGTCCTATGTCTACAAGGACAATTGTTAAAAACACCAGAACCTGTTCCAGAAAACTCATATGATGAGAAGTGGAAATGGTTTAAGAATTGTCTCGGGGCGCTAGATGGGACATATATTAGAGTACATGTGCCAGAAGCAGACAAGCCTAGGTACCGAAGTAGGAAGAATGAAATTGCTACTAATGTCTTGGGAGTATGCTCCCAACATATGCAATTCATTTATGTGTTACCTGGTTGGGAGGGTTCGGCTGCAGATTCACGAGTACTACGATATTACTACCTTGTTGATGCTGGGTATCCAAATGGGGAGGGGTTTCTTGCTCCATATAGAGGCCAGAGATACCATTTAAATGATTGGAGAGAAGGATATCAACCTACCACCCCCGAAGAATTTTTTAATATGAAGCATTCTTCTGTTAGGAATGTGATAGAGAGATGTTTTGGGTTACTTAAGATGCGATGGGCAATTCTAAGGAGCCCTTCATTTTTTCCAGTGAAGACGCAGTGCCGAATTGTAATAGCGTGTTGCTTGCTGCACAACCTTATAAGAAGGGAAATGGCAATTGATCCCTTAGAAAATGAACTGAATGCCACTGTGAATAACCAAGATGATGATGATATAATCAATTTTATCAACTCATCAGAACAATGGAATGATTGGAGAAGAGAGTTGGCAACACAAATGTTCAATGAATGGAGAGGAACTAGGAGCAGAAGATGA
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

367

Amino Acids

43.04

Weight (kDa)

9.21

Isoelectric Point (pI)

48.73

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
DUF8040 PF26138 43 - 130 1.1e-28 Domain of unknown function (DUF8040)
DDE_Tnp_4 PF13359 162 - 308 7.3e-22 DDE superfamily endonuclease
Plant_tran PF04827 255 - 310 4.9e-06 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) 929
Acc16I TGCGCA 1 cut(s) 297
Acc65I GGTACC 1 cut(s) 534
AccB1I GGYRCC 1 cut(s) 534
AccI GTMKAC 1 cut(s) 394
AccII CGCG 1 cut(s) 371
AciI CCGC 2 cut(s) 178, 371
AclWI GGATC 1 cut(s) 944
AcsI RAATTY 1 cut(s) 773
AfaI GTAC 3 cut(s) 507, 536, 648
AfiI CCNNNNNNNGG 1 cut(s) 713
AflII CTTAAG 1 cut(s) 833
AflIII ACRYGT 1 cut(s) 508
AgsI TTSAA 3 cut(s) 88, 134, 1072
AjnI CCWGG 1 cut(s) 613
AluBI AGCT 1 cut(s) 201
AluI AGCT 1 cut(s) 201
Alw21I GWGCWC 1 cut(s) 212
Alw26I GTCTC 3 cut(s) 179, 234, 479
AlwI GGATC 1 cut(s) 944
AlwNI CAGNNNCTG 1 cut(s) 425
Ama87I CYCGRG 1 cut(s) 476
AoxI GGCC 1 cut(s) 715
ApeKI GCWGC 2 cut(s) 632, 916
ApoI RAATTY 1 cut(s) 773
Asp700I GAANNNNTTC 1 cut(s) 426
Asp718I GGTACC 1 cut(s) 534
AspA2I CCTAGG 1 cut(s) 530
AspLEI GCGC 2 cut(s) 298, 484
AsuHPI GGTGA 1 cut(s) 84
AvaI CYCGRG 1 cut(s) 476
AvrII CCTAGG 1 cut(s) 530
BaeI ACNNNNGTAYC 2 cut(s) 526, 559
BanI GGYRCC 1 cut(s) 534
BanII GRGCYC 1 cut(s) 863
BauI CACGAG 1 cut(s) 642
BbsI GAAGAC 2 cut(s) 29, 887
Bbv12I GWGCWC 1 cut(s) 212
BbvI GCAGC 2 cut(s) 619, 903
BccI CCATC 3 cut(s) 103, 482, 837
BciT130I CCWGG 1 cut(s) 615
BciVI GTATCC 1 cut(s) 690
BcoDI GTCTC 3 cut(s) 179, 234, 479
BfaI CTAG 3 cut(s) 485, 531, 1089
BfmI CTRYAG 2 cut(s) 258, 633
BfoI RGCGCY 1 cut(s) 485
BfrI CTTAAG 1 cut(s) 833
BfuI GTATCC 1 cut(s) 690
BisI GCNGC 2 cut(s) 633, 917
BlnI CCTAGG 1 cut(s) 530
BlsI GCNGC 2 cut(s) 634, 918
BmcAI AGTACT 1 cut(s) 648
Bme1390I CCNGG 1 cut(s) 615
BmeT110I CYCGRG 1 cut(s) 476
BmiI GGNNCC 2 cut(s) 536, 860
BmrFI CCNGG 1 cut(s) 615
BmsI GCATC 4 cut(s) 97, 152, 661, 828
BpiI GAAGAC 2 cut(s) 29, 887
BsaJI CCNNGG 1 cut(s) 530
Bsc4I CCNNNNNNNGG 1 cut(s) 713
Bse1I ACTGG 1 cut(s) 875
BseBI CCWGG 1 cut(s) 615
BseDI CCNNGG 1 cut(s) 530
BseLI CCNNNNNNNGG 1 cut(s) 713
BseNI ACTGG 1 cut(s) 875
BseXI GCAGC 2 cut(s) 619, 903
BseYI CCCAGC 1 cut(s) 674
BsgI GTGCAG 1 cut(s) 902
Bsh1236I CGCG 1 cut(s) 371
BshFI GGCC 1 cut(s) 717
BshNI GGYRCC 1 cut(s) 534
BsiHKAI GWGCWC 1 cut(s) 212
BsiHKCI CYCGRG 1 cut(s) 476
BslFI GGGAC 1 cut(s) 505
BslI CCNNNNNNNGG 1 cut(s) 713
BsmAI GTCTC 3 cut(s) 179, 234, 479
BsmFI GGGAC 1 cut(s) 505
BsmI GAATGC 2 cut(s) 790, 976
BsnI GGCC 1 cut(s) 717
BsoBI CYCGRG 1 cut(s) 476
Bsp1286I GDGCHC 2 cut(s) 212, 863
Bsp143I GATC 1 cut(s) 949
BspACI CCGC 2 cut(s) 178, 371
BspANI GGCC 1 cut(s) 717
BspFNI CGCG 1 cut(s) 371
BspLI GGNNCC 2 cut(s) 536, 860
BspMAI CTGCAG 1 cut(s) 637
BspPI GGATC 1 cut(s) 944
BspT107I GGYRCC 1 cut(s) 534
BspTI CTTAAG 1 cut(s) 833
BsrI ACTGG 1 cut(s) 875
BssECI CCNNGG 1 cut(s) 530
BssMI GATC 1 cut(s) 949
BssSI CACGAG 1 cut(s) 642
BssT1I CCWWGG 1 cut(s) 530
Bst2BI CACGAG 1 cut(s) 642
Bst2UI CCWGG 1 cut(s) 615
Bst4CI ACNGT 2 cut(s) 173, 979
Bst6I CTCTTC 1 cut(s) 1042
BstAFI CTTAAG 1 cut(s) 833
BstC8I GCNNGC 2 cut(s) 151, 914
BstDEI CTNAG 2 cut(s) 854, 955
BstFNI CGCG 1 cut(s) 371
BstH2I RGCGCY 1 cut(s) 485
BstHHI GCGC 2 cut(s) 298, 484
BstKTI GATC 1 cut(s) 952
BstMAI GTCTC 3 cut(s) 179, 234, 479
BstMBI GATC 1 cut(s) 949
BstMWI GCNNNNNNNGC 1 cut(s) 207
BstNI CCWGG 1 cut(s) 615
BstNSI RCATGY 1 cut(s) 512
BstSCI CCNGG 1 cut(s) 613
BstSFI CTRYAG 2 cut(s) 258, 633
BstUI CGCG 1 cut(s) 371
BstV1I GCAGC 2 cut(s) 619, 903
BstV2I GAAGAC 2 cut(s) 29, 887
BsuI GTATCC 1 cut(s) 690
BsuRI GGCC 1 cut(s) 717
BtgZI GCGATG 2 cut(s) 168, 856
BtsI GCAGTG 1 cut(s) 893
BtsIMutI CAGTG 3 cut(s) 882, 893, 975
Cac8I GCNNGC 2 cut(s) 151, 914
CaiI CAGNNNCTG 1 cut(s) 425
CfoI GCGC 2 cut(s) 298, 484
CseI GACGC 2 cut(s) 377, 892
CsiI ACCWGGT 1 cut(s) 613
Csp6I GTAC 3 cut(s) 506, 535, 647
CviAII CATG 3 cut(s) 181, 302, 509
CviJI RGCY 7 cut(s) 5, 201, 275, 529, 632, 717, 861
CviKI_1 RGCY 7 cut(s) 5, 201, 275, 529, 632, 717, 861
CviQI GTAC 3 cut(s) 506, 535, 647
DdeI CTNAG 2 cut(s) 854, 955
DpnI GATC 1 cut(s) 951
DpnII GATC 1 cut(s) 949
DraI TTTAAA 1 cut(s) 732
Eam1104I CTCTTC 1 cut(s) 1042
EarI CTCTTC 1 cut(s) 1042
Eco130I CCWWGG 1 cut(s) 530
Eco24I GRGCYC 1 cut(s) 863
Eco32I GATATC 1 cut(s) 752
Eco88I CYCGRG 1 cut(s) 476
EcoRII CCWGG 1 cut(s) 613
EcoRV GATATC 1 cut(s) 752
EcoT14I CCWWGG 1 cut(s) 530
EcoT22I ATGCAT 1 cut(s) 167
EcoT38I GRGCYC 1 cut(s) 863
ErhI CCWWGG 1 cut(s) 530
FaeI CATG 3 cut(s) 184, 305, 512
FalI AAGNNNNNCTT 2 cut(s) 847, 879
FaqI GGGAC 1 cut(s) 505
FatI CATG 3 cut(s) 180, 301, 508
FauNDI CATATG 2 cut(s) 442, 591
FblI GTMKAC 1 cut(s) 394
Fnu4HI GCNGC 2 cut(s) 633, 917
FriOI GRGCYC 1 cut(s) 863
Fsp4HI GCNGC 2 cut(s) 633, 917
FspBI CTAG 3 cut(s) 485, 531, 1089
FspI TGCGCA 1 cut(s) 297
GlaI GCGC 2 cut(s) 297, 483
GluI GCNGC 2 cut(s) 633, 917
GsaI CCCAGC 1 cut(s) 678
HaeII RGCGCY 1 cut(s) 485
HaeIII GGCC 1 cut(s) 717
HgaI GACGC 2 cut(s) 377, 892
HhaI GCGC 2 cut(s) 298, 484
Hin1II CATG 3 cut(s) 184, 305, 512
Hin6I GCGC 2 cut(s) 296, 482
HinP1I GCGC 2 cut(s) 296, 482
HinfI GANTC 3 cut(s) 34, 315, 638
HphI GGTGA 1 cut(s) 84
Hpy166II GTNNAC 1 cut(s) 395
Hpy188I TCNGA 1 cut(s) 1027
Hpy188III TCNNGA 3 cut(s) 117, 431, 642
Hpy8I GTNNAC 1 cut(s) 395
HpyAV CCTTC 3 cut(s) 740, 873, 927
HpyCH4III ACNGT 2 cut(s) 173, 979
HpyCH4V TGCA 6 cut(s) 149, 165, 286, 595, 635, 919
HpyF10VI GCNNNNNNNGC 1 cut(s) 207
HpyF3I CTNAG 2 cut(s) 854, 955
Hsp92II CATG 3 cut(s) 184, 305, 512
HspAI GCGC 2 cut(s) 296, 482
KpnI GGTACC 1 cut(s) 538
Kzo9I GATC 1 cut(s) 949
LmnI GCTCC 4 cut(s) 587, 709, 858, 1092
Lsp1109I GCAGC 2 cut(s) 619, 903
LweI GCATC 4 cut(s) 97, 152, 661, 828
MabI ACCWGGT 1 cut(s) 613
MaeI CTAG 3 cut(s) 485, 531, 1089
MaeIII GTNAC 3 cut(s) 216, 609, 828
MalI GATC 1 cut(s) 951
MboI GATC 1 cut(s) 949
MboII GAAGA 7 cut(s) 29, 34, 559, 782, 786, 892, 1059
MfeI CAATTG 2 cut(s) 404, 945
MhlI GDGCHC 2 cut(s) 212, 863
MnlI CCTC 4 cut(s) 616, 685, 707, 1076
Mph1103I ATGCAT 1 cut(s) 167
MroXI GAANNNNTTC 1 cut(s) 426
MseI TTAA 8 cut(s) 57, 69, 377, 410, 465, 731, 780, 834
MslI CAYNNNNRTG 2 cut(s) 605, 732
MspCI CTTAAG 1 cut(s) 833
MspR9I CCNGG 1 cut(s) 615
MunI CAATTG 2 cut(s) 404, 945
Mva1269I GAATGC 2 cut(s) 790, 976
MvaI CCWGG 1 cut(s) 615
MvnI CGCG 1 cut(s) 371
MwoI GCNNNNNNNGC 1 cut(s) 207
NdeI CATATG 2 cut(s) 442, 591
NdeII GATC 1 cut(s) 949
NlaIII CATG 3 cut(s) 184, 305, 512
NlaIV GGNNCC 2 cut(s) 536, 860
NsbI TGCGCA 1 cut(s) 297
NsiI ATGCAT 1 cut(s) 167
NspI RCATGY 1 cut(s) 512
PciI ACATGT 1 cut(s) 508
PcsI WCGNNNNNNNCGW 1 cut(s) 649
PctI GAATGC 2 cut(s) 790, 976
PdmI GAANNNNTTC 1 cut(s) 426
PfeI GAWTC 3 cut(s) 34, 315, 638
PkrI GCNGC 2 cut(s) 634, 918
PscI ACATGT 1 cut(s) 508
PsiI TTATAA 1 cut(s) 929
Psp6I CCWGG 1 cut(s) 613
PspFI CCCAGC 1 cut(s) 674
PspGI CCWGG 1 cut(s) 613
PspN4I GGNNCC 2 cut(s) 536, 860
PstI CTGCAG 1 cut(s) 637
PstNI CAGNNNCTG 1 cut(s) 425
RsaI GTAC 3 cut(s) 507, 536, 648
RsaNI GTAC 3 cut(s) 506, 535, 647
RseI CAYNNNNRTG 2 cut(s) 605, 732
SaqAI TTAA 8 cut(s) 57, 69, 377, 410, 465, 731, 780, 834
SatI GCNGC 2 cut(s) 633, 917
Sau3AI GATC 1 cut(s) 949
ScaI AGTACT 1 cut(s) 648
ScrFI CCNGG 1 cut(s) 615
SduI GDGCHC 2 cut(s) 212, 863
SetI ASST 7 cut(s) 203, 427, 536, 616, 666, 760, 927
SexAI ACCWGGT 1 cut(s) 613
SfaNI GCATC 4 cut(s) 97, 152, 661, 828
SfcI CTRYAG 2 cut(s) 258, 633
SmiI ATTTAAAT 1 cut(s) 732
SmiMI CAYNNNNRTG 2 cut(s) 605, 732
SmlI CTYRAG 1 cut(s) 833
SmoI CTYRAG 1 cut(s) 833
SsiI CCGC 2 cut(s) 178, 371
SspI AATATT 1 cut(s) 55
SspMI CTAG 3 cut(s) 485, 531, 1089
StyD4I CCNGG 1 cut(s) 613
StyI CCWWGG 1 cut(s) 530
SwaI ATTTAAAT 1 cut(s) 732
TaaI ACNGT 2 cut(s) 173, 979
TaqI TCGA 1 cut(s) 20
TatI WGTACW 2 cut(s) 505, 646
TfiI GAWTC 3 cut(s) 34, 315, 638
Tru1I TTAA 8 cut(s) 57, 69, 377, 410, 465, 731, 780, 834
Tru9I TTAA 8 cut(s) 57, 69, 377, 410, 465, 731, 780, 834
TscAI CASTG 3 cut(s) 882, 893, 982
TseI GCWGC 2 cut(s) 632, 916
TspDTI ATGAA 8 cut(s) 279, 318, 567, 589, 800, 855, 978, 1089
TspRI CASTG 3 cut(s) 882, 893, 982
Vha464I CTTAAG 1 cut(s) 833
XapI RAATTY 1 cut(s) 773
XceI RCATGY 1 cut(s) 512
XmaJI CCTAGG 1 cut(s) 530
XmiI GTMKAC 1 cut(s) 394
XmnI GAANNNNTTC 1 cut(s) 426
XspI CTAG 3 cut(s) 485, 531, 1089
ZrmI AGTACT 1 cut(s) 648
Zsp2I ATGCAT 1 cut(s) 167
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.