Rw6G003010
MYB Family

nuclease HARBI1

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_wichuraiana
Chr6
OG0000468
Physical Location & Seq
Forward (+)
4845693 .. 4847202
1510 bp
Loading structure...
UTR
Exon/CDS
Intron
Rw6G003010.1

Sequence Viewer

Length: 1305 bp
ATGGATCGAAGGCAAATTATGTTGCTCTTATTGGTGGAGCTGTGGCACCTAGAGACAATGTGTGCTTGTACTATGCTTGTGCTATTGATGTTTAATTTGAGACGAAGACGTGCTGAAAGACATGCTCTAAATAATCGTTCATTCGTTAGACGTGAGACTCGTTTGAGTTATCTAGATAGTATTATAGGCAATAGTGACACCGAATGTGTACATGAATTAAGAATGGATAGAAGGACTTTTGGCCTTTTGTGTGAACTGCTTCGCACAGATGGAAAGATAAAGAGTGATGGTTTGGTGTCTGTGGAAGAGCAAGTATGTATGTTTTTACATATACTTTCACATCATGTGAAGAATCGTACTATTAGAGGTAGATTTTTTCGATCCGGAGAGACTATTAGTAGGTATTTCCATTCTATATTACAAGGTGTTTTACGATTGCAAGTTAGTTTGTTGAGAGTACCTGATCCGGTACTTGCTGACTGCACAGATCGTAGATGGAAGTGCTTTAAGAATTGCTTGGGAGCACTAGATGGAACTTACATTAGAGTGCGTGTACCTGCAATTGACAAGCCAAGATACCGCACAAGAAAGGGTGAAGTTGCTACAAATGTGTTAGCTGCTTGTTCTCGTGATATGCAGTTCATATTTGTCTTACCGGGTTGGGAGGGATCGGCATCAGACTCTAGAGTTCTTCACGATGCAGTGACTAGGCCGAATGGATTAAGAGTTCCCACTGGTTATTATTACCTTGTAGATGGTGGTTACACAAATGGTGAGGGATTTCTTGCACCATATAGAGGAACAAGGTATCATTTGTCGGAATGGGATGAAAGAAATATGCCTAGGGATCATGTGGAATATTTTAACATGAAGCATTCGAAGGCAAGGAATGTCATAGAACGGTGTTTTGGAATACTAAAAGGAAGGTGGGGAATACTAAGGAGTCCATCATTTTATCCAATAAAGACACAATGCCGCATAATTACGGTTTGTTGTCTTTTACATAATTTTATTAGGAGAGAGATGTCCATTGATCCAATGGAGTATGCAGTATGTGAATTAGATGCACAAAATGGGGAAGAAGTTGATGTAGTTGGCACGGTTGAAGCATCTAATCAATGGACTACTTGGAGGAATGAATTAGCTTTACAAATGCATAATGAATGGACGGGAAGAAGGGCTTACCGGGATGCTGGAGATACAGGGGTTTCAGGTGCTGCTGCAAGGGCTGTAAGGGATGCAAGAGCTGCAAGGGATGCAAGAGCTGGAAGGGACGGAAGAGCTGCAAGGGACGGAAGAGTTTGA
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

434

Amino Acids

50.05

Weight (kDa)

9.45

Isoelectric Point (pI)

47.13

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
DUF8040 PF26138 56 - 144 4.6e-24 Domain of unknown function (DUF8040)
DDE_Tnp_1 PF01609 172 - 334 3.7e-10 Transposase DDE domain
DDE_Tnp_4 PF13359 176 - 336 8e-28 DDE superfamily endonuclease
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)
Acc36I ACCTGC 1 cut(s) 565
AccB1I GGYRCC 1 cut(s) 45
AccIII TCCGGA 1 cut(s) 383
AciI CCGC 2 cut(s) 580, 976
AclWI GGATC 6 cut(s) 12, 375, 458, 676, 855, 1028
AfaI GTAC 6 cut(s) 70, 210, 358, 459, 471, 555
AfiI CCNNNNNNNGG 1 cut(s) 797
AgsI TTSAA 1 cut(s) 1106
AjiI CACGTC 2 cut(s) 110, 152
AjuI GAANNNNNNNTTGG 2 cut(s) 891, 923
AloI GAACNNNNNNTCC 2 cut(s) 711, 743
AluBI AGCT 6 cut(s) 40, 617, 1145, 1247, 1265, 1283
AluI AGCT 6 cut(s) 40, 617, 1145, 1247, 1265, 1283
Alw21I GWGCWC 1 cut(s) 526
Alw26I GTCTC 4 cut(s) 47, 94, 149, 383
AlwI GGATC 6 cut(s) 12, 375, 458, 676, 855, 1028
AlwNI CAGNNNCTG 1 cut(s) 1217
Aor13HI TCCGGA 1 cut(s) 383
AoxI GGCC 2 cut(s) 241, 710
ApeKI GCWGC 5 cut(s) 617, 1217, 1220, 1247, 1283
Asp700I GAANNNNTTC 1 cut(s) 258
AspA2I CCTAGG 1 cut(s) 842
AsuC2I CCSGG 2 cut(s) 657, 1187
AsuHPI GGTGA 2 cut(s) 605, 785
AsuII TTCGAA 1 cut(s) 878
AvrII CCTAGG 1 cut(s) 842
BaeI ACNNNNGTAYC 2 cut(s) 1191, 1224
BanI GGYRCC 1 cut(s) 45
BauI CACGAG 1 cut(s) 627
BbsI GAAGAC 1 cut(s) 112
Bbv12I GWGCWC 1 cut(s) 526
BbvI GCAGC 5 cut(s) 604, 1204, 1207, 1234, 1270
BccI CCATC 6 cut(s) 263, 281, 489, 524, 749, 955
BcnI CCSGG 2 cut(s) 657, 1187
BcoDI GTCTC 4 cut(s) 47, 94, 149, 383
BfaI CTAG 6 cut(s) 50, 173, 527, 684, 708, 843
BfuAI ACCTGC 1 cut(s) 565
BisI GCNGC 6 cut(s) 618, 976, 1218, 1221, 1248, 1284
BlnI CCTAGG 1 cut(s) 842
BlsI GCNGC 6 cut(s) 619, 977, 1219, 1222, 1249, 1285
Bme1390I CCNGG 2 cut(s) 657, 1187
BmgBI CACGTC 2 cut(s) 110, 152
BmiI GGNNCC 1 cut(s) 47
BmrFI CCNGG 2 cut(s) 657, 1187
BmsI GCATC 7 cut(s) 683, 688, 1054, 1118, 1180, 1228, 1246
BpiI GAAGAC 1 cut(s) 112
BpmI CTGGAG 1 cut(s) 1215
Bpu14I TTCGAA 1 cut(s) 878
BpuMI CCSGG 2 cut(s) 657, 1187
BsaBI GATNNNNATC 1 cut(s) 673
BsaJI CCNNGG 1 cut(s) 842
BsaWI WCCGGW 2 cut(s) 383, 466
Bsc4I CCNNNNNNNGG 1 cut(s) 797
Bse1I ACTGG 1 cut(s) 739
Bse8I GATNNNNATC 1 cut(s) 673
BseAI TCCGGA 1 cut(s) 383
BseDI CCNNGG 1 cut(s) 842
BseGI GGATG 4 cut(s) 832, 1195, 1243, 1261
BseJI GATNNNNATC 1 cut(s) 673
BseLI CCNNNNNNNGG 1 cut(s) 797
BseNI ACTGG 1 cut(s) 739
BseXI GCAGC 5 cut(s) 604, 1204, 1207, 1234, 1270
BsgI GTGCAG 1 cut(s) 466
BshFI GGCC 2 cut(s) 243, 712
BshNI GGYRCC 1 cut(s) 45
BsiHKAI GWGCWC 1 cut(s) 526
BsiSI CCGG 4 cut(s) 384, 467, 656, 1186
BslFI GGGAC 1 cut(s) 1286
BslI CCNNNNNNNGG 1 cut(s) 797
BsmAI GTCTC 4 cut(s) 47, 94, 149, 383
BsmBI CGTCTC 1 cut(s) 94
BsmFI GGGAC 1 cut(s) 1286
BsmI GAATGC 1 cut(s) 874
BsnI GGCC 2 cut(s) 243, 712
Bsp119I TTCGAA 1 cut(s) 878
Bsp1286I GDGCHC 1 cut(s) 526
Bsp13I TCCGGA 1 cut(s) 383
Bsp1407I TGTACA 1 cut(s) 208
Bsp143I GATC 7 cut(s) 4, 380, 463, 487, 668, 847, 1033
BspACI CCGC 2 cut(s) 580, 976
BspANI GGCC 2 cut(s) 243, 712
BspEI TCCGGA 1 cut(s) 383
BspLI GGNNCC 1 cut(s) 47
BspMI ACCTGC 1 cut(s) 565
BspPI GGATC 6 cut(s) 12, 375, 458, 676, 855, 1028
BspQI GCTCTTC 2 cut(s) 300, 1273
BspT104I TTCGAA 1 cut(s) 878
BspT107I GGYRCC 1 cut(s) 45
BsrGI TGTACA 1 cut(s) 208
BsrI ACTGG 1 cut(s) 739
BssECI CCNNGG 1 cut(s) 842
BssMI GATC 7 cut(s) 4, 380, 463, 487, 668, 847, 1033
BssSI CACGAG 1 cut(s) 627
BssT1I CCWWGG 1 cut(s) 842
Bst2BI CACGAG 1 cut(s) 627
Bst4CI ACNGT 3 cut(s) 903, 988, 1102
Bst6I CTCTTC 3 cut(s) 300, 1273, 1291
BstAPI GCANNNNNTGC 2 cut(s) 1247, 1256
BstAUI TGTACA 1 cut(s) 208
BstBI TTCGAA 1 cut(s) 878
BstDEI CTNAG 1 cut(s) 938
BstF5I GGATG 4 cut(s) 832, 1195, 1243, 1261
BstKTI GATC 7 cut(s) 7, 383, 466, 490, 671, 850, 1036
BstMAI GTCTC 4 cut(s) 47, 94, 149, 383
BstMBI GATC 7 cut(s) 4, 380, 463, 487, 668, 847, 1033
BstMWI GCNNNNNNNGC 3 cut(s) 1226, 1247, 1256
BstNSI RCATGY 1 cut(s) 125
BstSCI CCNGG 2 cut(s) 655, 1185
BstV1I GCAGC 5 cut(s) 604, 1204, 1207, 1234, 1270
BstV2I GAAGAC 1 cut(s) 112
BsuRI GGCC 2 cut(s) 243, 712
BtrI CACGTC 2 cut(s) 110, 152
BtsCI GGATG 4 cut(s) 832, 1195, 1243, 1261
BtsI GCAGTG 1 cut(s) 708
BtsIMutI CAGTG 2 cut(s) 708, 732
BveI ACCTGC 1 cut(s) 565
CaiI CAGNNNCTG 1 cut(s) 1217
Csp6I GTAC 6 cut(s) 69, 209, 357, 458, 470, 554
CviAII CATG 5 cut(s) 122, 212, 344, 851, 868
CviQI GTAC 6 cut(s) 69, 209, 357, 458, 470, 554
DdeI CTNAG 1 cut(s) 938
DpnI GATC 7 cut(s) 6, 382, 465, 489, 670, 849, 1035
DpnII GATC 7 cut(s) 4, 380, 463, 487, 668, 847, 1033
Eam1104I CTCTTC 3 cut(s) 300, 1273, 1291
EarI CTCTTC 3 cut(s) 300, 1273, 1291
Eco130I CCWWGG 1 cut(s) 842
EcoT14I CCWWGG 1 cut(s) 842
EcoT22I ATGCAT 1 cut(s) 1158
ErhI CCWWGG 1 cut(s) 842
Esp3I CGTCTC 1 cut(s) 94
FaeI CATG 5 cut(s) 125, 215, 347, 854, 871
FalI AAGNNNNNCTT 4 cut(s) 500, 532, 1165, 1197
FaqI GGGAC 1 cut(s) 1286
FatI CATG 5 cut(s) 121, 211, 343, 850, 867
Fnu4HI GCNGC 6 cut(s) 618, 976, 1218, 1221, 1248, 1284
FokI GGATG 4 cut(s) 839, 1202, 1250, 1268
Fsp4HI GCNGC 6 cut(s) 618, 976, 1218, 1221, 1248, 1284
FspBI CTAG 6 cut(s) 50, 173, 527, 684, 708, 843
GluI GCNGC 6 cut(s) 618, 976, 1218, 1221, 1248, 1284
GsuI CTGGAG 1 cut(s) 1215
HaeIII GGCC 2 cut(s) 243, 712
HapII CCGG 4 cut(s) 384, 467, 656, 1186
Hin1II CATG 5 cut(s) 125, 215, 347, 854, 871
HinfI GANTC 4 cut(s) 157, 352, 680, 943
HpaII CCGG 4 cut(s) 384, 467, 656, 1186
HphI GGTGA 2 cut(s) 605, 785
Hpy166II GTNNAC 3 cut(s) 209, 254, 554
Hpy188I TCNGA 2 cut(s) 679, 820
Hpy188III TCNNGA 5 cut(s) 173, 384, 629, 684, 695
Hpy8I GTNNAC 3 cut(s) 209, 254, 554
HpyAV CCTTC 6 cut(s) 3, 225, 874, 918, 1170, 1263
HpyCH4III ACNGT 3 cut(s) 903, 988, 1102
HpyCH4IV ACGT 2 cut(s) 109, 151
HpyF10VI GCNNNNNNNGC 3 cut(s) 1226, 1247, 1256
HpyF3I CTNAG 1 cut(s) 938
HpySE526I ACGT 2 cut(s) 109, 151
Hsp92II CATG 5 cut(s) 125, 215, 347, 854, 871
Kpn2I TCCGGA 1 cut(s) 383
Kzo9I GATC 7 cut(s) 4, 380, 463, 487, 668, 847, 1033
LguI GCTCTTC 2 cut(s) 300, 1273
LmnI GCTCC 2 cut(s) 37, 521
Lsp1109I GCAGC 5 cut(s) 604, 1204, 1207, 1234, 1270
LweI GCATC 7 cut(s) 683, 688, 1054, 1118, 1180, 1228, 1246
MaeI CTAG 6 cut(s) 50, 173, 527, 684, 708, 843
MaeII ACGT 2 cut(s) 109, 151
MaeIII GTNAC 3 cut(s) 194, 703, 761
MalI GATC 7 cut(s) 6, 382, 465, 489, 670, 849, 1035
MboI GATC 7 cut(s) 4, 380, 463, 487, 668, 847, 1033
MboII GAAGA 7 cut(s) 117, 317, 361, 683, 1091, 1185, 1290
MfeI CAATTG 1 cut(s) 561
MhlI GDGCHC 1 cut(s) 526
MluCI AATT 9 cut(s) 15, 94, 215, 511, 561, 981, 1006, 1058, 1139
MlyI GAGTC 3 cut(s) 151, 674, 952
MmeI TCCRAC 1 cut(s) 798
MnlI CCTC 5 cut(s) 359, 658, 769, 791, 1125
Mph1103I ATGCAT 1 cut(s) 1158
MroI TCCGGA 1 cut(s) 383
MroXI GAANNNNTTC 1 cut(s) 258
MseI TTAA 5 cut(s) 93, 218, 507, 722, 864
MslI CAYNNNNRTG 1 cut(s) 545
MspI CCGG 4 cut(s) 384, 467, 656, 1186
MspR9I CCNGG 2 cut(s) 657, 1187
MunI CAATTG 1 cut(s) 561
Mva1269I GAATGC 1 cut(s) 874
MwoI GCNNNNNNNGC 3 cut(s) 1226, 1247, 1256
NciI CCSGG 2 cut(s) 657, 1187
NdeII GATC 7 cut(s) 4, 380, 463, 487, 668, 847, 1033
NlaIII CATG 5 cut(s) 125, 215, 347, 854, 871
NlaIV GGNNCC 1 cut(s) 47
NmuCI GTSAC 2 cut(s) 194, 703
NsiI ATGCAT 1 cut(s) 1158
NspI RCATGY 1 cut(s) 125
NspV TTCGAA 1 cut(s) 878
PciSI GCTCTTC 2 cut(s) 300, 1273
PcsI WCGNNNNNNNCGW 1 cut(s) 157
PctI GAATGC 1 cut(s) 874
PdmI GAANNNNTTC 1 cut(s) 258
PfeI GAWTC 1 cut(s) 352
PkrI GCNGC 6 cut(s) 619, 977, 1219, 1222, 1249, 1285
PleI GAGTC 3 cut(s) 151, 674, 951
PpsI GAGTC 3 cut(s) 151, 674, 951
PspN4I GGNNCC 1 cut(s) 47
PstNI CAGNNNCTG 1 cut(s) 1217
RsaI GTAC 6 cut(s) 70, 210, 358, 459, 471, 555
RsaNI GTAC 6 cut(s) 69, 209, 357, 458, 470, 554
RseI CAYNNNNRTG 1 cut(s) 545
SapI GCTCTTC 2 cut(s) 300, 1273
SaqAI TTAA 5 cut(s) 93, 218, 507, 722, 864
SatI GCNGC 6 cut(s) 618, 976, 1218, 1221, 1248, 1284
Sau3AI GATC 7 cut(s) 4, 380, 463, 487, 668, 847, 1033
SchI GAGTC 3 cut(s) 151, 674, 952
ScrFI CCNGG 2 cut(s) 657, 1187
SduI GDGCHC 1 cut(s) 526
SfaNI GCATC 7 cut(s) 683, 688, 1054, 1118, 1180, 1228, 1246
SfuI TTCGAA 1 cut(s) 878
SmiMI CAYNNNNRTG 1 cut(s) 545
Sse9I AATT 9 cut(s) 15, 94, 215, 511, 561, 981, 1006, 1058, 1139
SsiI CCGC 2 cut(s) 580, 976
SspI AATATT 1 cut(s) 860
SspMI CTAG 6 cut(s) 50, 173, 527, 684, 708, 843
StyD4I CCNGG 2 cut(s) 655, 1185
StyI CCWWGG 1 cut(s) 842
TaaI ACNGT 3 cut(s) 903, 988, 1102
TaiI ACGT 2 cut(s) 112, 154
TaqI TCGA 3 cut(s) 7, 379, 878
TasI AATT 9 cut(s) 15, 94, 215, 511, 561, 981, 1006, 1058, 1139
TatI WGTACW 2 cut(s) 68, 208
TauI GCSGC 1 cut(s) 978
TfiI GAWTC 1 cut(s) 352
Tru1I TTAA 5 cut(s) 93, 218, 507, 722, 864
Tru9I TTAA 5 cut(s) 93, 218, 507, 722, 864
TscAI CASTG 2 cut(s) 708, 739
TseFI GTSAC 2 cut(s) 194, 703
TseI GCWGC 5 cut(s) 617, 1217, 1220, 1247, 1283
Tsp45I GTSAC 2 cut(s) 194, 703
TspDTI ATGAA 7 cut(s) 129, 228, 631, 843, 884, 1152, 1176
TspGWI ACGGA 1 cut(s) 1290
TspRI CASTG 2 cut(s) 708, 739
XbaI TCTAGA 2 cut(s) 172, 683
XceI RCATGY 1 cut(s) 125
XcmI CCANNNNNNNNNTGG 1 cut(s) 1036
XmaJI CCTAGG 1 cut(s) 842
XmnI GAANNNNTTC 1 cut(s) 258
XspI CTAG 6 cut(s) 50, 173, 527, 684, 708, 843
Zsp2I ATGCAT 1 cut(s) 1158
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.