Rw6G003290
MYB Family

nuclease HARBI1

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_wichuraiana
Chr6
OG0000468
Physical Location & Seq
Reverse (-)
5241569 .. 5242959
1391 bp
Loading structure...
UTR
Exon/CDS
Intron
Rw6G003290.1

Sequence Viewer

Length: 1209 bp
ATGGCTCGTAGAAAGTTGTCGAAGACAAAAAGGATTCTTCTAATGCTGGACAATATTAAGGATTTGCTTAACTTTGTCGTGATGATATACATTATGATGTATATCATTGTAGAAAGACATTATCGGAAGTATATATTGAAATCACCATCTTTTTATGATGCTTTGTCAAGAATTGGAAATGTTCAACGAATGGTGTATGCAAGCGATGTCAGATGCATAAACAGTCTCCTCATGGATAGGCATACATTTAGCTTATTGTGCTCTATGTTACGCACATCTGGTAAATTAAGAGACACAAGAAATGTATCTGTAGATGAAATGGTGGCTATGTTCTTGCATATTCTTGCGCACCATGAAAAGAACAGAATCATACAAGATAGATTTTTGCGTTCTGGGGAAACAATTAGCAGATATTTTAACGCAGTATTAAGAGCAGTCCTATGTCTACAAGGACAATTGTTAAAAACACCAGAACCTGTTCTAGAAAACTCATCTGATGAGAAGTGGAAATGGTTTAAGAATTGTCTCGGGGCGCTAGATGGGACATATATTAGAGTACATGTGCCAGAAGTGGACAAGCCTAGGTACCGAAGTAGGAAGAATGAAATTGCTACTAATGTCTTGGGAGTATGCTCCCAAGATATGCAATTCATTTATGTGTTACCTGGTTGGGAGGGTTCGGCTGCAGATTCACGAGTACTATGTGATGCCATTAGTAGGAGACATGGTTTCCGAGTTCCCCATGGATATTACTACCTTGTTGATGCTGGGTATCCAAATGGGGAGGGGTTTCTTGCTCCATATAGAGGCCAGAGATACCATTTAAATGATTGGAGAGAAGGATATCAACCTACCACCCCTGAAGAATTTTTTAATATGAAGCATTCTTCTGCTAGGAATGTGATAGAGAGATGTTTTGGGTTACTTAAGATGCGATGGGCAATTCTAAGGAGCCCTTCATTTTTTCCAGTGAAGACGCAGTGCCGAATTGTAATAGCATGTTGCTTGCTGCACAACCTTATAAGAAGGGAAATGGCAATTGATCCCTTAGAAAATGAACTGAATGCCACTGTGAATAACCAAGATGATGATGATGATGATGATGATATAATCAATTTTATCGATTCATTAGGACAATGGAATGATTGGAGAAGAGAGTTGGCAACACAAATGTTCAATGAATGGAGAGGAACTAGGAGCAGAAGATGA
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

402

Amino Acids

47.24

Weight (kDa)

9.14

Isoelectric Point (pI)

47.84

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
DUF8040 PF26138 60 - 147 4.7e-28 Domain of unknown function (DUF8040)
DDE_Tnp_1 PF01609 172 - 336 2.7e-08 Transposase DDE domain
DDE_Tnp_4 PF13359 179 - 339 6.4e-27 DDE superfamily endonuclease
Plant_tran PF04827 286 - 341 3.5e-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
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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
Acc16I TGCGCA 1 cut(s) 348
Acc65I GGTACC 1 cut(s) 585
AccB1I GGYRCC 1 cut(s) 585
AccI GTMKAC 1 cut(s) 445
AclWI GGATC 1 cut(s) 1037
AcsI RAATTY 1 cut(s) 866
AcuI CTGAAG 1 cut(s) 882
AfaI GTAC 3 cut(s) 558, 587, 699
AfiI CCNNNNNNNGG 2 cut(s) 717, 806
AflII CTTAAG 1 cut(s) 926
AflIII ACRYGT 1 cut(s) 559
AgsI TTSAA 3 cut(s) 139, 185, 1177
AjnI CCWGG 1 cut(s) 664
AluBI AGCT 1 cut(s) 252
AluI AGCT 1 cut(s) 252
Alw21I GWGCWC 1 cut(s) 263
Alw26I GTCTC 4 cut(s) 230, 285, 530, 715
AlwI GGATC 1 cut(s) 1037
AlwNI CAGNNNCTG 1 cut(s) 476
Ama87I CYCGRG 1 cut(s) 527
AoxI GGCC 1 cut(s) 808
ApeKI GCWGC 2 cut(s) 683, 1009
ApoI RAATTY 1 cut(s) 866
Asp700I GAANNNNTTC 1 cut(s) 477
Asp718I GGTACC 1 cut(s) 585
AspA2I CCTAGG 1 cut(s) 581
AspLEI GCGC 2 cut(s) 349, 535
AsuHPI GGTGA 1 cut(s) 135
AvaI CYCGRG 1 cut(s) 527
AvrII CCTAGG 1 cut(s) 581
BaeI ACNNNNGTAYC 2 cut(s) 577, 610
BanI GGYRCC 1 cut(s) 585
BanII GRGCYC 1 cut(s) 956
BauI CACGAG 1 cut(s) 693
BbsI GAAGAC 2 cut(s) 29, 980
Bbv12I GWGCWC 1 cut(s) 263
BbvI GCAGC 2 cut(s) 670, 996
BccI CCATC 3 cut(s) 154, 533, 930
BciT130I CCWGG 1 cut(s) 666
BciVI GTATCC 1 cut(s) 783
BcoDI GTCTC 4 cut(s) 230, 285, 530, 715
BfaI CTAG 5 cut(s) 482, 536, 582, 894, 1194
BfmI CTRYAG 2 cut(s) 309, 684
BfoI RGCGCY 1 cut(s) 536
BfrI CTTAAG 1 cut(s) 926
BfuI GTATCC 1 cut(s) 783
BisI GCNGC 2 cut(s) 684, 1010
BlnI CCTAGG 1 cut(s) 581
BlsI GCNGC 2 cut(s) 685, 1011
BmcAI AGTACT 1 cut(s) 699
Bme1390I CCNGG 1 cut(s) 666
BmeT110I CYCGRG 1 cut(s) 527
BmiI GGNNCC 2 cut(s) 587, 953
BmrFI CCNGG 1 cut(s) 666
BmsI GCATC 5 cut(s) 148, 203, 697, 754, 921
BpiI GAAGAC 2 cut(s) 29, 980
Bsa29I ATCGAT 1 cut(s) 1122
BsaBI GATNNNNATC 1 cut(s) 101
BsaJI CCNNGG 2 cut(s) 581, 742
BsaXI ACNNNNNCTCC 2 cut(s) 712, 742
Bsc4I CCNNNNNNNGG 2 cut(s) 717, 806
Bse1I ACTGG 1 cut(s) 968
Bse8I GATNNNNATC 1 cut(s) 101
BseBI CCWGG 1 cut(s) 666
BseCI ATCGAT 1 cut(s) 1122
BseDI CCNNGG 2 cut(s) 581, 742
BseJI GATNNNNATC 1 cut(s) 101
BseLI CCNNNNNNNGG 2 cut(s) 717, 806
BseNI ACTGG 1 cut(s) 968
BseRI GAGGAG 1 cut(s) 218
BseXI GCAGC 2 cut(s) 670, 996
BseYI CCCAGC 1 cut(s) 767
BsgI GTGCAG 1 cut(s) 995
BshFI GGCC 1 cut(s) 810
BshNI GGYRCC 1 cut(s) 585
BshVI ATCGAT 1 cut(s) 1122
BsiHKAI GWGCWC 1 cut(s) 263
BsiHKCI CYCGRG 1 cut(s) 527
BslFI GGGAC 1 cut(s) 556
BslI CCNNNNNNNGG 2 cut(s) 717, 806
BsmAI GTCTC 4 cut(s) 230, 285, 530, 715
BsmFI GGGAC 1 cut(s) 556
BsmI GAATGC 2 cut(s) 883, 1069
BsnI GGCC 1 cut(s) 810
BsoBI CYCGRG 1 cut(s) 527
Bsp1286I GDGCHC 2 cut(s) 263, 956
Bsp143I GATC 1 cut(s) 1042
Bsp19I CCATGG 1 cut(s) 742
BspANI GGCC 1 cut(s) 810
BspDI ATCGAT 1 cut(s) 1122
BspLI GGNNCC 2 cut(s) 587, 953
BspMAI CTGCAG 1 cut(s) 688
BspPI GGATC 1 cut(s) 1037
BspT107I GGYRCC 1 cut(s) 585
BspTI CTTAAG 1 cut(s) 926
BsrI ACTGG 1 cut(s) 968
BssECI CCNNGG 2 cut(s) 581, 742
BssMI GATC 1 cut(s) 1042
BssSI CACGAG 1 cut(s) 693
BssT1I CCWWGG 2 cut(s) 581, 742
Bst2BI CACGAG 1 cut(s) 693
Bst2UI CCWGG 1 cut(s) 666
Bst4CI ACNGT 2 cut(s) 224, 1072
Bst6I CTCTTC 1 cut(s) 1147
BstAFI CTTAAG 1 cut(s) 926
BstC8I GCNNGC 2 cut(s) 202, 1007
BstDEI CTNAG 2 cut(s) 947, 1048
BstDSI CCRYGG 1 cut(s) 742
BstH2I RGCGCY 1 cut(s) 536
BstHHI GCGC 2 cut(s) 349, 535
BstKTI GATC 1 cut(s) 1045
BstMAI GTCTC 4 cut(s) 230, 285, 530, 715
BstMBI GATC 1 cut(s) 1042
BstMWI GCNNNNNNNGC 1 cut(s) 258
BstNI CCWGG 1 cut(s) 666
BstNSI RCATGY 2 cut(s) 563, 1002
BstSCI CCNGG 1 cut(s) 664
BstSFI CTRYAG 2 cut(s) 309, 684
BstV1I GCAGC 2 cut(s) 670, 996
BstV2I GAAGAC 2 cut(s) 29, 980
Bsu15I ATCGAT 1 cut(s) 1122
BsuI GTATCC 1 cut(s) 783
BsuRI GGCC 1 cut(s) 810
BsuTUI ATCGAT 1 cut(s) 1122
BtgI CCRYGG 1 cut(s) 742
BtgZI GCGATG 2 cut(s) 219, 949
BtsI GCAGTG 1 cut(s) 986
BtsIMutI CAGTG 3 cut(s) 975, 986, 1068
Cac8I GCNNGC 2 cut(s) 202, 1007
CaiI CAGNNNCTG 1 cut(s) 476
CfoI GCGC 2 cut(s) 349, 535
ClaI ATCGAT 1 cut(s) 1122
CseI GACGC 1 cut(s) 985
CsiI ACCWGGT 1 cut(s) 664
Csp6I GTAC 3 cut(s) 557, 586, 698
CviAII CATG 6 cut(s) 232, 353, 560, 725, 743, 999
CviJI RGCY 7 cut(s) 5, 252, 326, 580, 683, 810, 954
CviKI_1 RGCY 7 cut(s) 5, 252, 326, 580, 683, 810, 954
CviQI GTAC 3 cut(s) 557, 586, 698
DdeI CTNAG 2 cut(s) 947, 1048
DpnI GATC 1 cut(s) 1044
DpnII GATC 1 cut(s) 1042
DraI TTTAAA 1 cut(s) 825
Eam1104I CTCTTC 1 cut(s) 1147
EarI CTCTTC 1 cut(s) 1147
Eco130I CCWWGG 2 cut(s) 581, 742
Eco24I GRGCYC 1 cut(s) 956
Eco32I GATATC 1 cut(s) 845
Eco57I CTGAAG 1 cut(s) 882
Eco88I CYCGRG 1 cut(s) 527
EcoRII CCWGG 1 cut(s) 664
EcoRV GATATC 1 cut(s) 845
EcoT14I CCWWGG 2 cut(s) 581, 742
EcoT22I ATGCAT 1 cut(s) 218
EcoT38I GRGCYC 1 cut(s) 956
ErhI CCWWGG 2 cut(s) 581, 742
FaeI CATG 6 cut(s) 235, 356, 563, 728, 746, 1002
FalI AAGNNNNNCTT 2 cut(s) 940, 972
FaqI GGGAC 1 cut(s) 556
FatI CATG 6 cut(s) 231, 352, 559, 724, 742, 998
FblI GTMKAC 1 cut(s) 445
Fnu4HI GCNGC 2 cut(s) 684, 1010
FriOI GRGCYC 1 cut(s) 956
Fsp4HI GCNGC 2 cut(s) 684, 1010
FspBI CTAG 5 cut(s) 482, 536, 582, 894, 1194
FspI TGCGCA 1 cut(s) 348
GlaI GCGC 2 cut(s) 348, 534
GluI GCNGC 2 cut(s) 684, 1010
GsaI CCCAGC 1 cut(s) 771
HaeII RGCGCY 1 cut(s) 536
HaeIII GGCC 1 cut(s) 810
HgaI GACGC 1 cut(s) 985
HhaI GCGC 2 cut(s) 349, 535
Hin1II CATG 6 cut(s) 235, 356, 563, 728, 746, 1002
Hin6I GCGC 2 cut(s) 347, 533
HinP1I GCGC 2 cut(s) 347, 533
HinfI GANTC 4 cut(s) 34, 366, 689, 1124
HphI GGTGA 1 cut(s) 135
Hpy166II GTNNAC 2 cut(s) 446, 574
Hpy188I TCNGA 4 cut(s) 126, 212, 496, 734
Hpy188III TCNNGA 4 cut(s) 79, 168, 482, 693
Hpy8I GTNNAC 2 cut(s) 446, 574
HpyAV CCTTC 3 cut(s) 833, 966, 1020
HpyCH4III ACNGT 2 cut(s) 224, 1072
HpyCH4V TGCA 6 cut(s) 200, 216, 337, 646, 686, 1012
HpyF10VI GCNNNNNNNGC 1 cut(s) 258
HpyF3I CTNAG 2 cut(s) 947, 1048
Hsp92II CATG 6 cut(s) 235, 356, 563, 728, 746, 1002
HspAI GCGC 2 cut(s) 347, 533
KpnI GGTACC 1 cut(s) 589
Kzo9I GATC 1 cut(s) 1042
LmnI GCTCC 4 cut(s) 638, 802, 951, 1197
Lsp1109I GCAGC 2 cut(s) 670, 996
LweI GCATC 5 cut(s) 148, 203, 697, 754, 921
MabI ACCWGGT 1 cut(s) 664
MaeI CTAG 5 cut(s) 482, 536, 582, 894, 1194
MaeIII GTNAC 3 cut(s) 267, 660, 921
MalI GATC 1 cut(s) 1044
MboI GATC 1 cut(s) 1042
MboII GAAGA 7 cut(s) 29, 34, 610, 875, 879, 985, 1164
MfeI CAATTG 2 cut(s) 455, 1038
MhlI GDGCHC 2 cut(s) 263, 956
MnlI CCTC 5 cut(s) 239, 667, 778, 800, 1181
Mph1103I ATGCAT 1 cut(s) 218
MroXI GAANNNNTTC 1 cut(s) 477
MslI CAYNNNNRTG 3 cut(s) 95, 656, 825
MspCI CTTAAG 1 cut(s) 926
MspR9I CCNGG 1 cut(s) 666
MunI CAATTG 2 cut(s) 455, 1038
Mva1269I GAATGC 2 cut(s) 883, 1069
MvaI CCWGG 1 cut(s) 666
MwoI GCNNNNNNNGC 1 cut(s) 258
NcoI CCATGG 1 cut(s) 742
NdeII GATC 1 cut(s) 1042
NlaIII CATG 6 cut(s) 235, 356, 563, 728, 746, 1002
NlaIV GGNNCC 2 cut(s) 587, 953
NsbI TGCGCA 1 cut(s) 348
NsiI ATGCAT 1 cut(s) 218
NspI RCATGY 2 cut(s) 563, 1002
PciI ACATGT 1 cut(s) 559
PctI GAATGC 2 cut(s) 883, 1069
PdmI GAANNNNTTC 1 cut(s) 477
PfeI GAWTC 4 cut(s) 34, 366, 689, 1124
PkrI GCNGC 2 cut(s) 685, 1011
PscI ACATGT 1 cut(s) 559
PsiI TTATAA 1 cut(s) 1022
Psp6I CCWGG 1 cut(s) 664
PspFI CCCAGC 1 cut(s) 767
PspGI CCWGG 1 cut(s) 664
PspN4I GGNNCC 2 cut(s) 587, 953
PstI CTGCAG 1 cut(s) 688
PstNI CAGNNNCTG 1 cut(s) 476
RsaI GTAC 3 cut(s) 558, 587, 699
RsaNI GTAC 3 cut(s) 557, 586, 698
RseI CAYNNNNRTG 3 cut(s) 95, 656, 825
SatI GCNGC 2 cut(s) 684, 1010
Sau3AI GATC 1 cut(s) 1042
ScaI AGTACT 1 cut(s) 699
ScrFI CCNGG 1 cut(s) 666
SduI GDGCHC 2 cut(s) 263, 956
SetI ASST 7 cut(s) 254, 478, 587, 667, 759, 853, 1020
SexAI ACCWGGT 1 cut(s) 664
SfaNI GCATC 5 cut(s) 148, 203, 697, 754, 921
SfcI CTRYAG 2 cut(s) 309, 684
SmiI ATTTAAAT 1 cut(s) 825
SmiMI CAYNNNNRTG 3 cut(s) 95, 656, 825
SmlI CTYRAG 1 cut(s) 926
SmoI CTYRAG 1 cut(s) 926
SspI AATATT 1 cut(s) 55
SspMI CTAG 5 cut(s) 482, 536, 582, 894, 1194
StyD4I CCNGG 1 cut(s) 664
StyI CCWWGG 2 cut(s) 581, 742
SwaI ATTTAAAT 1 cut(s) 825
TaaI ACNGT 2 cut(s) 224, 1072
TaqI TCGA 2 cut(s) 20, 1122
TatI WGTACW 2 cut(s) 556, 697
TfiI GAWTC 4 cut(s) 34, 366, 689, 1124
TscAI CASTG 3 cut(s) 975, 986, 1075
TseI GCWGC 2 cut(s) 683, 1009
TspDTI ATGAA 9 cut(s) 330, 369, 618, 640, 893, 948, 1071, 1116, 1194
TspRI CASTG 3 cut(s) 975, 986, 1075
Vha464I CTTAAG 1 cut(s) 926
XapI RAATTY 1 cut(s) 866
XbaI TCTAGA 1 cut(s) 481
XceI RCATGY 2 cut(s) 563, 1002
XmaJI CCTAGG 1 cut(s) 581
XmiI GTMKAC 1 cut(s) 445
XmnI GAANNNNTTC 1 cut(s) 477
XspI CTAG 5 cut(s) 482, 536, 582, 894, 1194
ZrmI AGTACT 1 cut(s) 699
Zsp2I ATGCAT 1 cut(s) 218
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.