FvH4_2g04030
MYB Family

nuclease HARBI1

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
fragaria_vesca
Fvb2
OG0000468
Physical Location & Seq
Forward (+)
3161074 .. 3163272
2199 bp
Loading structure...
UTR
Exon/CDS
Intron
FvH4_2g04030.t1

Sequence Viewer

Length: 1029 bp
ATGAGTCCTACGGAGGACTCCAGTGCGCTCAAGTTCCTCGCTTCTCTTCTCCTCGCCTGTGAAATTCCTCCTCTCATCGCCGATTCCAGACGGAGGACTCAACTGCTCAAGTACAAAAGACGAAGTTCCTCGCCTCTCTTACTCCTCGCTTGTGAAATTCCTCCTCTCGTTGCCGATTCCAGACATCAAACTCGTTTGAGTTATCTAGATAGTATCATAGGCAATAGTGACACCGAGTGTGTAAATGAATTGAAAATGGATAGAAGGTGTTTTGGCCTACTGTGTGAATTGTTGCGGACAGATGGTAGGGTAAAGAATGATGGTTTGGTGTCTGTGGAGGAGCAAAATTGCTTGGGGGCACTAGATGGAACTTACATTAGAGTACGTGTGCCTGCAATTGACAAGCCCAGATATCGAACAAGAAAGGGTGAAGTTGCTACCAATGTGTTGGCTGTTTGTTCTCGTGATTTACAATTCATATTTGTGTTACTGGGTTGGGAGGGATCAGCGTCTGACTCTAGAGTTCTTCATGATGCAGTCACTAGGACTAATGGATTAAGAGTTCCCACCGGTTATTATTACCTTGTAGATGGTGGTTACACGAATGGTGAAGGATTTCTTGCACCATATAGGGGAACAAGGTATCACTTATCGGAATGGGATAATGGAAATATGCCTAGGGATCATGTGGAATACTTTAATATGAAGCATTCCAAGGCAAGAAATGTCATAGAAAGGAGTTTTGGATTGCTAAAAGGAAGGAGAGAGATGTCTGTTGATCCAATGGAGAATGTAGTATTTCCTTTAGAACCACAAAACGTGGAAGACATTGATGTGGTTGGCACCGTTGAATCGTCTGATCAATGGACTACTTGGAGGAATGACTTAGCTTTACAGATGTTTAATGAGTGGAGGGGAAGAAGGCTTGCAAGGGAAGCAAGAGCTGCTGAGGTTGTAGAAATTACTACAAGGGCCAGGACAGCTGCGAGGGCTGCAACTGCAAAGAATGCAAGATCTGCTAGGGAATGA
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

343

Amino Acids

38.69

Weight (kDa)

8.63

Isoelectric Point (pI)

47.61

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
DUF8040 PF26138 63 - 115 5.8e-06 Domain of unknown function (DUF8040)
DDE_Tnp_1 PF01609 117 - 253 3.1e-06 Transposase DDE domain
DDE_Tnp_4 PF13359 121 - 254 2.7e-19 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
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)
AccB1I GGYRCC 1 cut(s) 842
AciI CCGC 1 cut(s) 295
AclWI GGATC 3 cut(s) 511, 690, 773
AcsI RAATTY 2 cut(s) 63, 156
AdeI CACNNNGTG 1 cut(s) 237
AfaI GTAC 2 cut(s) 113, 384
AfiI CCNNNNNNNGG 2 cut(s) 93, 632
AflIII ACRYGT 1 cut(s) 385
AgeI ACCGGT 1 cut(s) 569
AgsI TTSAA 2 cut(s) 253, 851
AjnI CCWGG 1 cut(s) 974
AjuI GAANNNNNNNTTGG 4 cut(s) 308, 340, 726, 758
AloI GAACNNNNNNTCC 2 cut(s) 546, 578
AluBI AGCT 3 cut(s) 890, 944, 983
AluI AGCT 3 cut(s) 890, 944, 983
AlwI GGATC 3 cut(s) 511, 690, 773
AlwNI CAGNNNCTG 1 cut(s) 512
AoxI GGCC 2 cut(s) 274, 972
ApeKI GCWGC 3 cut(s) 944, 983, 992
ApoI RAATTY 2 cut(s) 63, 156
AsiGI ACCGGT 1 cut(s) 569
Asp700I GAANNNNTTC 1 cut(s) 615
AspA2I CCTAGG 1 cut(s) 677
AspLEI GCGC 1 cut(s) 28
AspS9I GGNCC 1 cut(s) 972
AsuHPI GGTGA 2 cut(s) 440, 620
AvrII CCTAGG 1 cut(s) 677
BaeGI GKGCMC 1 cut(s) 361
BanI GGYRCC 1 cut(s) 842
BauI CACGAG 1 cut(s) 462
BbsI GAAGAC 1 cut(s) 831
BbvCI CCTCAGC 1 cut(s) 948
BbvI GCAGC 3 cut(s) 931, 970, 979
BccI CCATC 4 cut(s) 296, 314, 359, 584
BciT130I CCWGG 1 cut(s) 976
BclI TGATCA 1 cut(s) 859
BfaI CTAG 6 cut(s) 206, 362, 519, 543, 678, 1020
BglII AGATCT 1 cut(s) 1013
BisI GCNGC 3 cut(s) 945, 984, 993
BlnI CCTAGG 1 cut(s) 677
BlsI GCNGC 3 cut(s) 946, 985, 994
Bme1390I CCNGG 1 cut(s) 976
BmgT120I GGNCC 1 cut(s) 972
BmiI GGNNCC 1 cut(s) 844
BmrFI CCNGG 1 cut(s) 976
BmrI ACTGGG 1 cut(s) 500
BmsI GCATC 1 cut(s) 523
BmuI ACTGGG 1 cut(s) 500
BpiI GAAGAC 1 cut(s) 831
BpmI CTGGAG 1 cut(s) 4
Bpu10I CCTNAGC 1 cut(s) 948
BpuEI CTTGAG 2 cut(s) 14, 92
BsaAI YACGTR 1 cut(s) 386
BsaJI CCNNGG 2 cut(s) 677, 714
BsaWI WCCGGW 1 cut(s) 569
Bsc4I CCNNNNNNNGG 2 cut(s) 93, 632
Bse118I RCCGGY 1 cut(s) 569
Bse1I ACTGG 2 cut(s) 21, 495
BseBI CCWGG 1 cut(s) 976
BseDI CCNNGG 2 cut(s) 677, 714
BseLI CCNNNNNNNGG 2 cut(s) 93, 632
BseMII CTCAG 1 cut(s) 939
BseNI ACTGG 2 cut(s) 21, 495
BseRI GAGGAG 5 cut(s) 41, 60, 134, 153, 353
BseSI GKGCMC 1 cut(s) 361
BseXI GCAGC 3 cut(s) 931, 970, 979
BshFI GGCC 2 cut(s) 276, 974
BshNI GGYRCC 1 cut(s) 842
BshTI ACCGGT 1 cut(s) 569
BsiSI CCGG 1 cut(s) 570
BslI CCNNNNNNNGG 2 cut(s) 93, 632
BsmI GAATGC 2 cut(s) 709, 1012
BsnI GGCC 2 cut(s) 276, 974
Bsp1286I GDGCHC 1 cut(s) 361
Bsp143I GATC 5 cut(s) 503, 682, 778, 859, 1013
BspACI CCGC 1 cut(s) 295
BspANI GGCC 2 cut(s) 276, 974
BspCNI CTCAG 1 cut(s) 940
BspHI TCATGA 1 cut(s) 529
BspLI GGNNCC 1 cut(s) 844
BspPI GGATC 3 cut(s) 511, 690, 773
BspT107I GGYRCC 1 cut(s) 842
BsrFI RCCGGY 1 cut(s) 569
BsrI ACTGG 2 cut(s) 21, 495
BssAI RCCGGY 1 cut(s) 569
BssECI CCNNGG 2 cut(s) 677, 714
BssMI GATC 5 cut(s) 503, 682, 778, 859, 1013
BssSI CACGAG 1 cut(s) 462
BssT1I CCWWGG 2 cut(s) 677, 714
Bst2BI CACGAG 1 cut(s) 462
Bst2UI CCWGG 1 cut(s) 976
Bst4CI ACNGT 2 cut(s) 282, 847
Bst6I CTCTTC 1 cut(s) 51
BstAPI GCANNNNNTGC 3 cut(s) 944, 1007, 1016
BstBAI YACGTR 1 cut(s) 386
BstC8I GCNNGC 2 cut(s) 393, 927
BstDEI CTNAG 2 cut(s) 886, 948
BstHHI GCGC 1 cut(s) 28
BstKTI GATC 5 cut(s) 506, 685, 781, 862, 1016
BstMBI GATC 5 cut(s) 503, 682, 778, 859, 1013
BstMWI GCNNNNNNNGC 8 cut(s) 935, 944, 980, 989, 992, 998, 1007, 1016
BstNI CCWGG 1 cut(s) 976
BstSCI CCNGG 1 cut(s) 974
BstSLI GKGCMC 1 cut(s) 361
BstV1I GCAGC 3 cut(s) 931, 970, 979
BstV2I GAAGAC 1 cut(s) 831
BstX2I RGATCY 1 cut(s) 1013
BstXI CCANNNNNNTGG 1 cut(s) 448
BstYI RGATCY 1 cut(s) 1013
BsuRI GGCC 2 cut(s) 276, 974
BtgZI GCGATG 1 cut(s) 61
BtsIMutI CAGTG 1 cut(s) 28
Cac8I GCNNGC 2 cut(s) 393, 927
CaiI CAGNNNCTG 1 cut(s) 512
CciI TCATGA 1 cut(s) 529
CfoI GCGC 1 cut(s) 28
Cfr10I RCCGGY 1 cut(s) 569
Cfr13I GGNCC 1 cut(s) 972
CseI GACGC 1 cut(s) 498
Csp6I GTAC 2 cut(s) 112, 383
CspAI ACCGGT 1 cut(s) 569
CviAII CATG 2 cut(s) 530, 686
CviJI RGCY 9 cut(s) 276, 406, 452, 890, 925, 944, 974, 983, 992
CviKI_1 RGCY 9 cut(s) 276, 406, 452, 890, 925, 944, 974, 983, 992
CviQI GTAC 2 cut(s) 112, 383
DdeI CTNAG 2 cut(s) 886, 948
DpnI GATC 5 cut(s) 505, 684, 780, 861, 1015
DpnII GATC 5 cut(s) 503, 682, 778, 859, 1013
DraIII CACNNNGTG 1 cut(s) 237
Eam1104I CTCTTC 1 cut(s) 51
EarI CTCTTC 1 cut(s) 51
Eco130I CCWWGG 2 cut(s) 677, 714
Eco32I GATATC 1 cut(s) 413
EcoRII CCWGG 1 cut(s) 974
EcoRV GATATC 1 cut(s) 413
EcoT14I CCWWGG 2 cut(s) 677, 714
ErhI CCWWGG 2 cut(s) 677, 714
FaeI CATG 2 cut(s) 533, 689
FaiI YATR 9 cut(s) 218, 479, 531, 628, 630, 674, 687, 704, 731
FalI AAGNNNNNCTT 2 cut(s) 603, 635
FatI CATG 2 cut(s) 529, 685
FbaI TGATCA 1 cut(s) 859
Fnu4HI GCNGC 3 cut(s) 945, 984, 993
Fsp4HI GCNGC 3 cut(s) 945, 984, 993
FspBI CTAG 6 cut(s) 206, 362, 519, 543, 678, 1020
GlaI GCGC 1 cut(s) 27
GluI GCNGC 3 cut(s) 945, 984, 993
GsuI CTGGAG 1 cut(s) 4
HaeIII GGCC 2 cut(s) 276, 974
HapII CCGG 1 cut(s) 570
HgaI GACGC 1 cut(s) 498
HhaI GCGC 1 cut(s) 28
Hin1II CATG 2 cut(s) 533, 689
Hin6I GCGC 1 cut(s) 26
HinP1I GCGC 1 cut(s) 26
HinfI GANTC 7 cut(s) 4, 17, 83, 97, 176, 515, 851
HpaII CCGG 1 cut(s) 570
HphI GGTGA 2 cut(s) 440, 620
Hpy188I TCNGA 3 cut(s) 514, 655, 859
Hpy188III TCNNGA 6 cut(s) 87, 180, 206, 464, 519, 530
HpyAV CCTTC 4 cut(s) 258, 605, 753, 915
HpyCH4III ACNGT 2 cut(s) 282, 847
HpyCH4IV ACGT 2 cut(s) 385, 819
HpyCH4V TGCA 7 cut(s) 395, 536, 623, 929, 995, 1001, 1010
HpyF10VI GCNNNNNNNGC 8 cut(s) 935, 944, 980, 989, 992, 998, 1007, 1016
HpyF3I CTNAG 2 cut(s) 886, 948
HpySE526I ACGT 2 cut(s) 385, 819
Hsp92II CATG 2 cut(s) 533, 689
HspAI GCGC 1 cut(s) 26
Ksp22I TGATCA 1 cut(s) 859
Kzo9I GATC 5 cut(s) 503, 682, 778, 859, 1013
LmnI GCTCC 1 cut(s) 340
Lsp1109I GCAGC 3 cut(s) 931, 970, 979
LweI GCATC 1 cut(s) 523
MaeI CTAG 6 cut(s) 206, 362, 519, 543, 678, 1020
MaeII ACGT 2 cut(s) 385, 819
MaeIII GTNAC 4 cut(s) 227, 486, 538, 596
MalI GATC 5 cut(s) 505, 684, 780, 861, 1015
MboI GATC 5 cut(s) 503, 682, 778, 859, 1013
MboII GAAGA 4 cut(s) 38, 518, 836, 930
MfeI CAATTG 1 cut(s) 396
MflI RGATCY 1 cut(s) 1013
MhlI GDGCHC 1 cut(s) 361
MluCI AATT 8 cut(s) 63, 156, 248, 287, 346, 396, 473, 960
MlyI GAGTC 4 cut(s) 11, 13, 91, 509
MroXI GAANNNNTTC 1 cut(s) 615
MseI TTAA 3 cut(s) 557, 699, 903
MslI CAYNNNNRTG 2 cut(s) 482, 833
MspA1I CMGCKG 1 cut(s) 983
MspI CCGG 1 cut(s) 570
MspR9I CCNGG 1 cut(s) 976
MunI CAATTG 1 cut(s) 396
Mva1269I GAATGC 2 cut(s) 709, 1012
MvaI CCWGG 1 cut(s) 976
MwoI GCNNNNNNNGC 8 cut(s) 935, 944, 980, 989, 992, 998, 1007, 1016
NdeII GATC 5 cut(s) 503, 682, 778, 859, 1013
NlaIII CATG 2 cut(s) 533, 689
NlaIV GGNNCC 1 cut(s) 844
NmuCI GTSAC 2 cut(s) 227, 538
PagI TCATGA 1 cut(s) 529
PctI GAATGC 2 cut(s) 709, 1012
PdmI GAANNNNTTC 1 cut(s) 615
PfeI GAWTC 3 cut(s) 83, 176, 851
PinAI ACCGGT 1 cut(s) 569
PkrI GCNGC 3 cut(s) 946, 985, 994
PleI GAGTC 4 cut(s) 11, 12, 91, 509
PpsI GAGTC 4 cut(s) 11, 12, 91, 509
Ppu21I YACGTR 1 cut(s) 386
Psp6I CCWGG 1 cut(s) 974
PspGI CCWGG 1 cut(s) 974
PspN4I GGNNCC 1 cut(s) 844
PspPI GGNCC 1 cut(s) 972
PstNI CAGNNNCTG 1 cut(s) 512
PsuI RGATCY 1 cut(s) 1013
PvuII CAGCTG 1 cut(s) 983
RsaI GTAC 2 cut(s) 113, 384
RsaNI GTAC 2 cut(s) 112, 383
RseI CAYNNNNRTG 2 cut(s) 482, 833
SaqAI TTAA 3 cut(s) 557, 699, 903
SatI GCNGC 3 cut(s) 945, 984, 993
Sau3AI GATC 5 cut(s) 503, 682, 778, 859, 1013
Sau96I GGNCC 1 cut(s) 972
SchI GAGTC 4 cut(s) 11, 13, 91, 509
ScrFI CCNGG 1 cut(s) 976
SduI GDGCHC 1 cut(s) 361
SetI ASST 9 cut(s) 269, 388, 585, 644, 822, 892, 946, 954, 985
SfaNI GCATC 1 cut(s) 523
SmiMI CAYNNNNRTG 2 cut(s) 482, 833
SmlI CTYRAG 2 cut(s) 29, 107
SmoI CTYRAG 2 cut(s) 29, 107
Sse9I AATT 8 cut(s) 63, 156, 248, 287, 346, 396, 473, 960
SsiI CCGC 1 cut(s) 295
SspMI CTAG 6 cut(s) 206, 362, 519, 543, 678, 1020
StyD4I CCNGG 1 cut(s) 974
StyI CCWWGG 2 cut(s) 677, 714
TaaI ACNGT 2 cut(s) 282, 847
TaiI ACGT 2 cut(s) 388, 822
TaqI TCGA 1 cut(s) 415
TasI AATT 8 cut(s) 63, 156, 248, 287, 346, 396, 473, 960
TatI WGTACW 1 cut(s) 111
TfiI GAWTC 3 cut(s) 83, 176, 851
Tru1I TTAA 3 cut(s) 557, 699, 903
Tru9I TTAA 3 cut(s) 557, 699, 903
TscAI CASTG 1 cut(s) 28
TseFI GTSAC 2 cut(s) 227, 538
TseI GCWGC 3 cut(s) 944, 983, 992
Tsp45I GTSAC 2 cut(s) 227, 538
TspDTI ATGAA 4 cut(s) 261, 466, 518, 719
TspGWI ACGGA 2 cut(s) 26, 106
TspRI CASTG 1 cut(s) 28
XapI RAATTY 2 cut(s) 63, 156
XbaI TCTAGA 2 cut(s) 205, 518
XmaJI CCTAGG 1 cut(s) 677
XmnI GAANNNNTTC 1 cut(s) 615
XspI CTAG 6 cut(s) 206, 362, 519, 543, 678, 1020
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.