FvH4_3g25250

HNH endonuclease

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
fragaria_vesca
Fvb3
OG0012307
Physical Location & Seq
Reverse (-)
18200964 .. 18206164
5201 bp
Loading structure...
UTR
Exon/CDS
Intron
FvH4_3g25250.t2

Sequence Viewer

Length: 870 bp
ATGGCACGCTTAGCTGCACAAGCCAATGTGAAGTCGCTCTTCAATGGTGAAGGGGTCCCAAGTACCGGATCCGGGTCGGACCCAAAAGACCCATTTAGCTGCATGTTCACTTTCTCATCCTTGAAGCCCCAGAAGCGCAGGCTCACCTCATTGGACTCCACCAGGATTTACTCTTCGTCTTCTGCTTCGAACAAGACCAAGCGCCTCAATGCCGAGGTTCGTTTGTTTTTCGGGGACGAGGTGGCTGACAAGAAGGGTGGACTTGGTGATAGTGAATATGATGATGTTGATGATGATGATGAGTTTGAGAGGGATGACCTGTCCTGTTTCAGAGGTCTGGTTTTGGATATCTCGTACAGGCCAATTAATGTGGTCTGCTGGAAACGTGCTATTTGTTTGGAATTCATGGATAAGGCGGATGTTCTAGAATACTATGATCAGACTGTTAATTCCCCAAGTGGATCCTTCTATATACCGGCTGTATTAAGGGTTCCCCATCTACTGCAGGTTGTCAAGAGAAGAAGAATTAAGTGCAATCTCAGTCGTAAAAATATACTTTGTCGGGACAGTTTCACTTGTCAGTACTGCTCTTCACGTGAAAACTTGACTATTGACCATGTTATACCAATTGCACGAGGTGGAGAATGGAAATGGGATAATCTGGTTACTGCATGTGCAAAATGCAACTCAAAAAAAGGGCAGAAGACAGTGGAGGAAGCATGTATGAAGCTGATGAAAATTCCCAAGGCTCCAAAAGACTATGACATACTTGCCATACCCCTAACAAATGCAGCAGTAAGAATGCTGAGAATGAGAAAGGGAACTCCAGAAGAGTGGCTCCAATACCTATCAAACTCTTCAATGCCATGA
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
HNH_5

Protein Analysis

290

Amino Acids

32.66

Weight (kDa)

8.79

Isoelectric Point (pI)

52.19

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
HNH_5 PF14279 193 - 224 4.5e-08 HNH endonuclease
HNH PF01844 193 - 221 1e-06 HNH 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: OG0012307)

Species Orthologous Gene IDs
arabidopsis_thaliana AT2G23840
fragaria_vesca FvH4_3g25250 FvH4_3g25250
malus_domestica MD12G1002500.v1.1
prunus_persica Prupe.7G002400_v2.0.a1 Prupe.7G002400_v2.0.a1 Prupe.7G002400_v2.0.a1 Prupe.7G002400_v2.0.a1
pyrus_communis pycom12g00220
rosa_chinensis RchiOBHm_Chr5g0046891
rosa_laevigata RLG00000034453
rosa_multiflora Rmu_sc0005233.1_g000003
rosa_roxburghii Rroxscaffold_1G00034500
rosa_rugosa Rorug05G0232400
rosa_samantha Rh5AG311900 Rh5BG320900 Rh5CG347100 Rh5DG331600
rosa_wichuraiana Rw5G029150

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc36I ACCTGC 1 cut(s) 496
AciI CCGC 1 cut(s) 416
AclWI GGATC 4 cut(s) 63, 76, 456, 469
AcsI RAATTY 2 cut(s) 401, 738
AcvI CACGTG 1 cut(s) 596
AdeI CACNNNGTG 1 cut(s) 638
AfaI GTAC 3 cut(s) 64, 356, 584
AfiI CCNNNNNNNGG 2 cut(s) 65, 72
AgsI TTSAA 3 cut(s) 43, 124, 861
AjnI CCWGG 1 cut(s) 161
AluBI AGCT 3 cut(s) 14, 99, 730
AluI AGCT 3 cut(s) 14, 99, 730
AlwI GGATC 4 cut(s) 63, 76, 456, 469
AoxI GGCC 1 cut(s) 359
ApeKI GCWGC 3 cut(s) 14, 99, 791
ApoI RAATTY 2 cut(s) 401, 738
AseI ATTAAT 1 cut(s) 366
AspLEI GCGC 2 cut(s) 138, 204
AspS9I GGNCC 2 cut(s) 55, 79
AsuC2I CCSGG 1 cut(s) 73
AsuHPI GGTGA 3 cut(s) 59, 136, 278
AsuII TTCGAA 1 cut(s) 188
AvaII GGWCC 2 cut(s) 55, 79
BamHI GGATCC 2 cut(s) 68, 461
BauI CACGAG 1 cut(s) 633
BbrPI CACGTG 1 cut(s) 596
BbsI GAAGAC 2 cut(s) 171, 710
BbvI GCAGC 2 cut(s) 86, 803
BccI CCATC 1 cut(s) 504
BciT130I CCWGG 1 cut(s) 163
BclI TGATCA 1 cut(s) 436
BcnI CCSGG 1 cut(s) 73
BfaI CTAG 1 cut(s) 425
BfmI CTRYAG 1 cut(s) 503
BfoI RGCGCY 1 cut(s) 205
BfuAI ACCTGC 1 cut(s) 496
BisI GCNGC 3 cut(s) 15, 100, 792
BlpI GCTNAGC 1 cut(s) 10
BlsI GCNGC 3 cut(s) 16, 101, 793
BmcAI AGTACT 1 cut(s) 584
Bme1390I CCNGG 2 cut(s) 73, 163
Bme18I GGWCC 2 cut(s) 55, 79
BmgT120I GGNCC 2 cut(s) 55, 79
BmiI GGNNCC 8 cut(s) 56, 57, 70, 81, 463, 492, 750, 839
BmrFI CCNGG 2 cut(s) 73, 163
BpiI GAAGAC 2 cut(s) 171, 710
BpmI CTGGAG 1 cut(s) 810
Bpu1102I GCTNAGC 1 cut(s) 10
Bpu14I TTCGAA 1 cut(s) 188
BpuMI CCSGG 1 cut(s) 73
BsaAI YACGTR 1 cut(s) 596
BsaJI CCNNGG 2 cut(s) 213, 744
BsaWI WCCGGW 1 cut(s) 65
Bsc4I CCNNNNNNNGG 2 cut(s) 65, 72
Bse118I RCCGGY 1 cut(s) 475
BseBI CCWGG 1 cut(s) 163
BseDI CCNNGG 2 cut(s) 213, 744
BseGI GGATG 3 cut(s) 116, 319, 424
BseLI CCNNNNNNNGG 2 cut(s) 65, 72
BseMII CTCAG 2 cut(s) 553, 797
BseXI GCAGC 2 cut(s) 86, 803
BshFI GGCC 1 cut(s) 361
BsiSI CCGG 3 cut(s) 66, 72, 476
BslFI GGGAC 3 cut(s) 41, 248, 578
BslI CCNNNNNNNGG 2 cut(s) 65, 72
BsmFI GGGAC 3 cut(s) 41, 248, 578
BsmI GAATGC 1 cut(s) 807
BsnI GGCC 1 cut(s) 361
Bsp119I TTCGAA 1 cut(s) 188
Bsp143I GATC 3 cut(s) 68, 436, 461
Bsp1720I GCTNAGC 1 cut(s) 10
BspACI CCGC 1 cut(s) 416
BspANI GGCC 1 cut(s) 361
BspCNI CTCAG 2 cut(s) 552, 798
BspLI GGNNCC 8 cut(s) 56, 57, 70, 81, 463, 492, 750, 839
BspMAI CTGCAG 1 cut(s) 507
BspMI ACCTGC 1 cut(s) 496
BspPI GGATC 4 cut(s) 63, 76, 456, 469
BspQI GCTCTTC 2 cut(s) 44, 595
BspT104I TTCGAA 1 cut(s) 188
BsrFI RCCGGY 1 cut(s) 475
BssAI RCCGGY 1 cut(s) 475
BssECI CCNNGG 2 cut(s) 213, 744
BssMI GATC 3 cut(s) 68, 436, 461
BssSI CACGAG 1 cut(s) 633
BssT1I CCWWGG 1 cut(s) 744
Bst2BI CACGAG 1 cut(s) 633
Bst2UI CCWGG 1 cut(s) 163
Bst4CI ACNGT 3 cut(s) 445, 569, 709
Bst6I CTCTTC 5 cut(s) 44, 178, 595, 825, 862
BstBAI YACGTR 1 cut(s) 596
BstBI TTCGAA 1 cut(s) 188
BstC8I GCNNGC 2 cut(s) 7, 140
BstDEI CTNAG 3 cut(s) 10, 539, 806
BstF5I GGATG 3 cut(s) 116, 319, 424
BstH2I RGCGCY 1 cut(s) 205
BstHHI GCGC 2 cut(s) 138, 204
BstKTI GATC 3 cut(s) 71, 439, 464
BstMBI GATC 3 cut(s) 68, 436, 461
BstMWI GCNNNNNNNGC 3 cut(s) 11, 20, 133
BstNI CCWGG 1 cut(s) 163
BstNSI RCATGY 3 cut(s) 106, 675, 723
BstSCI CCNGG 2 cut(s) 71, 161
BstSFI CTRYAG 1 cut(s) 503
BstV1I GCAGC 2 cut(s) 86, 803
BstV2I GAAGAC 2 cut(s) 171, 710
BstX2I RGATCY 2 cut(s) 68, 461
BstXI CCANNNNNNTGG 1 cut(s) 834
BstYI RGATCY 2 cut(s) 68, 461
BsuRI GGCC 1 cut(s) 361
BtsCI GGATG 3 cut(s) 116, 319, 424
BtsIMutI CAGTG 1 cut(s) 714
BveI ACCTGC 1 cut(s) 496
Cac8I GCNNGC 2 cut(s) 7, 140
CfoI GCGC 2 cut(s) 138, 204
Cfr10I RCCGGY 1 cut(s) 475
Cfr13I GGNCC 2 cut(s) 55, 79
Csp6I GTAC 3 cut(s) 63, 355, 583
CspCI CAANNNNNGTGG 4 cut(s) 238, 273, 351, 386
CviAII CATG 6 cut(s) 103, 406, 617, 672, 720, 867
CviQI GTAC 3 cut(s) 63, 355, 583
DdeI CTNAG 3 cut(s) 10, 539, 806
DpnI GATC 3 cut(s) 70, 438, 463
DpnII GATC 3 cut(s) 68, 436, 461
DraIII CACNNNGTG 1 cut(s) 638
Eam1104I CTCTTC 5 cut(s) 44, 178, 595, 825, 862
EarI CTCTTC 5 cut(s) 44, 178, 595, 825, 862
EciI GGCGGA 1 cut(s) 431
Eco130I CCWWGG 1 cut(s) 744
Eco32I GATATC 1 cut(s) 349
Eco47I GGWCC 2 cut(s) 55, 79
Eco72I CACGTG 1 cut(s) 596
EcoO109I RGGNCCY 1 cut(s) 55
EcoRI GAATTC 1 cut(s) 401
EcoRII CCWGG 1 cut(s) 161
EcoRV GATATC 1 cut(s) 349
EcoT14I CCWWGG 1 cut(s) 744
ErhI CCWWGG 1 cut(s) 744
FaeI CATG 6 cut(s) 106, 409, 620, 675, 723, 870
FalI AAGNNNNNCTT 2 cut(s) 23, 55
FaqI GGGAC 3 cut(s) 41, 248, 578
FatI CATG 6 cut(s) 102, 405, 616, 671, 719, 866
FbaI TGATCA 1 cut(s) 436
Fnu4HI GCNGC 3 cut(s) 15, 100, 792
FokI GGATG 3 cut(s) 103, 326, 431
Fsp4HI GCNGC 3 cut(s) 15, 100, 792
FspBI CTAG 1 cut(s) 425
GlaI GCGC 2 cut(s) 137, 203
GluI GCNGC 3 cut(s) 15, 100, 792
GsuI CTGGAG 1 cut(s) 810
HaeII RGCGCY 1 cut(s) 205
HaeIII GGCC 1 cut(s) 361
HapII CCGG 3 cut(s) 66, 72, 476
HhaI GCGC 2 cut(s) 138, 204
Hin1II CATG 6 cut(s) 106, 409, 620, 675, 723, 870
Hin6I GCGC 2 cut(s) 136, 202
HinP1I GCGC 2 cut(s) 136, 202
HinfI GANTC 1 cut(s) 155
HpaII CCGG 3 cut(s) 66, 72, 476
HphI GGTGA 3 cut(s) 59, 136, 278
Hpy166II GTNNAC 2 cut(s) 108, 260
Hpy188I TCNGA 3 cut(s) 79, 332, 441
Hpy188III TCNNGA 4 cut(s) 425, 514, 563, 827
Hpy8I GTNNAC 2 cut(s) 108, 260
HpyAV CCTTC 3 cut(s) 44, 247, 475
HpyCH4III ACNGT 3 cut(s) 445, 569, 709
HpyCH4IV ACGT 2 cut(s) 385, 595
HpyCH4V TGCA 9 cut(s) 17, 102, 505, 534, 632, 671, 677, 684, 791
HpyF10VI GCNNNNNNNGC 3 cut(s) 11, 20, 133
HpyF3I CTNAG 3 cut(s) 10, 539, 806
HpySE526I ACGT 2 cut(s) 385, 595
Hsp92II CATG 6 cut(s) 106, 409, 620, 675, 723, 870
HspAI GCGC 2 cut(s) 136, 202
KflI GGGWCCC 1 cut(s) 55
Ksp22I TGATCA 1 cut(s) 436
Kzo9I GATC 3 cut(s) 68, 436, 461
LguI GCTCTTC 2 cut(s) 44, 595
LmnI GCTCC 2 cut(s) 754, 843
Lsp1109I GCAGC 2 cut(s) 86, 803
MaeI CTAG 1 cut(s) 425
MaeII ACGT 2 cut(s) 385, 595
MaeIII GTNAC 1 cut(s) 664
MalI GATC 3 cut(s) 70, 438, 463
MboI GATC 3 cut(s) 68, 436, 461
MboII GAAGA 9 cut(s) 31, 165, 171, 531, 534, 582, 715, 842, 849
MfeI CAATTG 1 cut(s) 627
MflI RGATCY 2 cut(s) 68, 461
MluCI AATT 6 cut(s) 363, 401, 448, 525, 627, 738
MlyI GAGTC 1 cut(s) 149
MmeI TCCRAC 1 cut(s) 57
MnlI CCTC 8 cut(s) 157, 208, 215, 232, 303, 326, 629, 706
MseI TTAA 4 cut(s) 366, 447, 485, 528
MspI CCGG 3 cut(s) 66, 72, 476
MspR9I CCNGG 2 cut(s) 73, 163
MunI CAATTG 1 cut(s) 627
Mva1269I GAATGC 1 cut(s) 807
MvaI CCWGG 1 cut(s) 163
MwoI GCNNNNNNNGC 3 cut(s) 11, 20, 133
NciI CCSGG 1 cut(s) 73
NdeII GATC 3 cut(s) 68, 436, 461
NlaIII CATG 6 cut(s) 106, 409, 620, 675, 723, 870
NlaIV GGNNCC 8 cut(s) 56, 57, 70, 81, 463, 492, 750, 839
NmeAIII GCCGAG 1 cut(s) 238
NspI RCATGY 3 cut(s) 106, 675, 723
NspV TTCGAA 1 cut(s) 188
PciSI GCTCTTC 2 cut(s) 44, 595
PctI GAATGC 1 cut(s) 807
PkrI GCNGC 3 cut(s) 16, 101, 793
PleI GAGTC 1 cut(s) 149
PmaCI CACGTG 1 cut(s) 596
PmlI CACGTG 1 cut(s) 596
PpsI GAGTC 1 cut(s) 149
Ppu21I YACGTR 1 cut(s) 596
PpuMI RGGWCCY 1 cut(s) 55
PshBI ATTAAT 1 cut(s) 366
Psp5II RGGWCCY 1 cut(s) 55
Psp6I CCWGG 1 cut(s) 161
PspCI CACGTG 1 cut(s) 596
PspGI CCWGG 1 cut(s) 161
PspN4I GGNNCC 8 cut(s) 56, 57, 70, 81, 463, 492, 750, 839
PspPI GGNCC 2 cut(s) 55, 79
PspPPI RGGWCCY 1 cut(s) 55
PsrI GAACNNNNNNTAC 2 cut(s) 474, 506
PstI CTGCAG 1 cut(s) 507
PsuI RGATCY 2 cut(s) 68, 461
RsaI GTAC 3 cut(s) 64, 356, 584
RsaNI GTAC 3 cut(s) 63, 355, 583
SapI GCTCTTC 2 cut(s) 44, 595
SaqAI TTAA 4 cut(s) 366, 447, 485, 528
SatI GCNGC 3 cut(s) 15, 100, 792
Sau3AI GATC 3 cut(s) 68, 436, 461
Sau96I GGNCC 2 cut(s) 55, 79
ScaI AGTACT 1 cut(s) 584
SchI GAGTC 1 cut(s) 149
ScrFI CCNGG 2 cut(s) 73, 163
SfcI CTRYAG 1 cut(s) 503
SfuI TTCGAA 1 cut(s) 188
SinI GGWCC 2 cut(s) 55, 79
Sse9I AATT 6 cut(s) 363, 401, 448, 525, 627, 738
SsiI CCGC 1 cut(s) 416
SspMI CTAG 1 cut(s) 425
StyD4I CCNGG 2 cut(s) 71, 161
StyI CCWWGG 1 cut(s) 744
TaaI ACNGT 3 cut(s) 445, 569, 709
TaiI ACGT 2 cut(s) 388, 598
TaqI TCGA 1 cut(s) 188
TasI AATT 6 cut(s) 363, 401, 448, 525, 627, 738
TatI WGTACW 1 cut(s) 582
Tru1I TTAA 4 cut(s) 366, 447, 485, 528
Tru9I TTAA 4 cut(s) 366, 447, 485, 528
TscAI CASTG 1 cut(s) 714
TseI GCWGC 3 cut(s) 14, 99, 791
TspDTI ATGAA 3 cut(s) 394, 740, 749
TspRI CASTG 1 cut(s) 714
VpaK11BI GGWCC 2 cut(s) 55, 79
VspI ATTAAT 1 cut(s) 366
XapI RAATTY 2 cut(s) 401, 738
XbaI TCTAGA 1 cut(s) 424
XceI RCATGY 3 cut(s) 106, 675, 723
XspI CTAG 1 cut(s) 425
ZrmI AGTACT 1 cut(s) 584
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.