Rw5G029150

HNH endonuclease

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_wichuraiana
Chr5
OG0012307
Physical Location & Seq
Forward (+)
44416489 .. 44421298
4810 bp
Loading structure...
UTR
Exon/CDS
Intron
Rw5G029150.1

Sequence Viewer

Length: 993 bp
ATGTTTGCAAAAATATGTGGTAGCGCTTATTTCCGTGGACTCCTTTTATTACCAGTGAAGGAAACCTTCATACTCAACACTACAAGAAAAGAAAGTAAGCGTTTGATCATGGCACGGTTAGCTGCACGAGCAAATGTGAAGTCACTCTTCAATGGTGAGGGAGTCCCATCATCAGGATCCGGGTTGGACCCAAAAGACCCATTGAGCTGCATGTTCACTTTCTCATCATCGATCAAACCCCAAAACCGCAGGCTCAGCTCATTTGACTCCACTAGGCTTTACTCCTCCTCCAACTCTTCTTCCAACAAGACCAAGCGTCTCAAGGCCGAGGTTCGTTTGTTTTTCGGGGATGAGGAGGATGTTAAGGGTGACAACAAGGTTGGTGAGCATGCCCATCATGGTGGTGATGATGATGATGATGAGTTTGAGAGGGATGAGCTGTCCTGTTTCAGAGGTCTGGTTTTGGATATCTCATACAGGCCAATTAATGTGGTCTGCTGGAAACGTGCTATTTGTTTGGAATTCATGGATAAGGCGGATGTCCTAGAATACTATGATCAGACTGTTAATTCCCCAAGTGGATCCTTCTACATACCGGCTGTTTTAAGGATTCCCCATTTACTGCAAGTTGTAAAGAGAAGAAGAATTAAGTGCAATCTTAGTCGTAAAAATATACTTTGTCGGGACTGTTTCACTTGTCAGTACTGTTCTTCACGTGAAAACTTGACCATTGACCATGTTATACCAATTGCACGAGGTGGAGAATGGAAGTGGGAAAATCTGGTTACTGCATGTGCAAAATGCAACTCGAAGAAAGGGCAGAAGACATTGGAGGAAGCATGTATGAAGCTGATGAAAATTCCCAAGACTCCAAAAGACTATGACATACTTGCCATACCCCTAACGAGTGCGGCAGTAAAGATGCTGAAAATGAGAAAGGGAACTCCAGAAGAGTGGCTCCAATATCTATCGAAGCCTTCTTCAATGCCATGA
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

330

Amino Acids

37.41

Weight (kDa)

9.18

Isoelectric Point (pI)

50.69

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
HNH_5 PF14279 233 - 284 4.9e-17 HNH endonuclease
HNH PF01844 233 - 274 2.3e-14 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)
AciI CCGC 3 cut(s) 247, 536, 911
AclWI GGATC 4 cut(s) 171, 184, 576, 589
AcsI RAATTY 2 cut(s) 521, 858
AcvI CACGTG 1 cut(s) 716
AdeI CACNNNGTG 1 cut(s) 758
AfaI GTAC 1 cut(s) 704
AfeI AGCGCT 1 cut(s) 25
AfiI CCNNNNNNNGG 1 cut(s) 173
AgsI TTSAA 2 cut(s) 151, 984
AhdI GACNNNNNGTC 1 cut(s) 315
AluBI AGCT 5 cut(s) 122, 207, 258, 439, 850
AluI AGCT 5 cut(s) 122, 207, 258, 439, 850
Alw26I GTCTC 1 cut(s) 323
AlwI GGATC 4 cut(s) 171, 184, 576, 589
Aor51HI AGCGCT 1 cut(s) 25
AoxI GGCC 2 cut(s) 324, 479
ApeKI GCWGC 2 cut(s) 122, 207
ApoI RAATTY 2 cut(s) 521, 858
ArsI GACNNNNNNTTYG 2 cut(s) 125, 157
AseI ATTAAT 1 cut(s) 486
AspLEI GCGC 1 cut(s) 26
AspS9I GGNCC 1 cut(s) 187
AsuC2I CCSGG 1 cut(s) 181
AsuHPI GGTGA 4 cut(s) 167, 380, 395, 416
AvaII GGWCC 1 cut(s) 187
BamHI GGATCC 2 cut(s) 176, 581
BauI CACGAG 2 cut(s) 126, 753
BbrPI CACGTG 1 cut(s) 716
BbsI GAAGAC 1 cut(s) 830
BbvI GCAGC 2 cut(s) 109, 194
BccI CCATC 2 cut(s) 175, 402
BclI TGATCA 2 cut(s) 105, 556
BcnI CCSGG 1 cut(s) 181
BcoDI GTCTC 1 cut(s) 323
BfaI CTAG 2 cut(s) 273, 545
BfoI RGCGCY 1 cut(s) 27
BisI GCNGC 3 cut(s) 123, 208, 912
BlpI GCTNAGC 1 cut(s) 254
BlsI GCNGC 3 cut(s) 124, 209, 913
BmcAI AGTACT 1 cut(s) 704
Bme1390I CCNGG 1 cut(s) 181
Bme18I GGWCC 1 cut(s) 187
BmeRI GACNNNNNGTC 1 cut(s) 315
BmgT120I GGNCC 1 cut(s) 187
BmiI GGNNCC 4 cut(s) 178, 189, 583, 959
BmrFI CCNGG 1 cut(s) 181
BmsI GCATC 1 cut(s) 912
BpiI GAAGAC 1 cut(s) 830
BpmI CTGGAG 1 cut(s) 930
Bpu1102I GCTNAGC 1 cut(s) 254
BpuEI CTTGAG 1 cut(s) 305
BpuMI CCSGG 1 cut(s) 181
Bsa29I ATCGAT 1 cut(s) 230
BsaAI YACGTR 1 cut(s) 716
BsaJI CCNNGG 2 cut(s) 34, 327
BsaXI ACNNNNNCTCC 2 cut(s) 272, 302
Bsc4I CCNNNNNNNGG 1 cut(s) 173
Bse118I RCCGGY 1 cut(s) 595
Bse1I ACTGG 1 cut(s) 53
BseCI ATCGAT 1 cut(s) 230
BseDI CCNNGG 2 cut(s) 34, 327
BseGI GGATG 4 cut(s) 355, 364, 439, 544
BseLI CCNNNNNNNGG 1 cut(s) 173
BseMII CTCAG 1 cut(s) 268
BseNI ACTGG 1 cut(s) 53
BseRI GAGGAG 3 cut(s) 274, 277, 368
BseXI GCAGC 2 cut(s) 109, 194
BsgI GTGCAG 1 cut(s) 108
BshFI GGCC 2 cut(s) 326, 481
BshVI ATCGAT 1 cut(s) 230
BsiSI CCGG 2 cut(s) 180, 596
BslFI GGGAC 2 cut(s) 149, 698
BslI CCNNNNNNNGG 1 cut(s) 173
BsmAI GTCTC 1 cut(s) 323
BsmBI CGTCTC 1 cut(s) 323
BsmFI GGGAC 2 cut(s) 149, 698
BsnI GGCC 2 cut(s) 326, 481
Bsp143I GATC 5 cut(s) 105, 176, 231, 556, 581
Bsp1720I GCTNAGC 1 cut(s) 254
BspACI CCGC 3 cut(s) 247, 536, 911
BspANI GGCC 2 cut(s) 326, 481
BspCNI CTCAG 1 cut(s) 267
BspDI ATCGAT 1 cut(s) 230
BspLI GGNNCC 4 cut(s) 178, 189, 583, 959
BspPI GGATC 4 cut(s) 171, 184, 576, 589
BsrFI RCCGGY 1 cut(s) 595
BsrI ACTGG 1 cut(s) 53
BssAI RCCGGY 1 cut(s) 595
BssECI CCNNGG 2 cut(s) 34, 327
BssMI GATC 5 cut(s) 105, 176, 231, 556, 581
BssSI CACGAG 2 cut(s) 126, 753
Bst2BI CACGAG 2 cut(s) 126, 753
Bst4CI ACNGT 4 cut(s) 117, 565, 689, 707
Bst6I CTCTTC 3 cut(s) 152, 301, 945
BstBAI YACGTR 1 cut(s) 716
BstC8I GCNNGC 2 cut(s) 251, 390
BstDEI CTNAG 2 cut(s) 254, 659
BstDSI CCRYGG 1 cut(s) 34
BstF5I GGATG 4 cut(s) 355, 364, 439, 544
BstH2I RGCGCY 1 cut(s) 27
BstHHI GCGC 1 cut(s) 26
BstKTI GATC 5 cut(s) 108, 179, 234, 559, 584
BstMAI GTCTC 1 cut(s) 323
BstMBI GATC 5 cut(s) 105, 176, 231, 556, 581
BstMWI GCNNNNNNNGC 3 cut(s) 119, 128, 255
BstNSI RCATGY 4 cut(s) 214, 392, 795, 843
BstSCI CCNGG 1 cut(s) 179
BstV1I GCAGC 2 cut(s) 109, 194
BstV2I GAAGAC 1 cut(s) 830
BstX2I RGATCY 2 cut(s) 176, 581
BstXI CCANNNNNNTGG 2 cut(s) 401, 954
BstYI RGATCY 2 cut(s) 176, 581
Bsu15I ATCGAT 1 cut(s) 230
BsuRI GGCC 2 cut(s) 326, 481
BsuTUI ATCGAT 1 cut(s) 230
BtgI CCRYGG 1 cut(s) 34
BtsCI GGATG 4 cut(s) 355, 364, 439, 544
BtsIMutI CAGTG 1 cut(s) 60
Cac8I GCNNGC 2 cut(s) 251, 390
CfoI GCGC 1 cut(s) 26
Cfr10I RCCGGY 1 cut(s) 595
Cfr13I GGNCC 1 cut(s) 187
ClaI ATCGAT 1 cut(s) 230
CseI GACGC 1 cut(s) 305
Csp6I GTAC 1 cut(s) 703
CspCI CAANNNNNGTGG 2 cut(s) 471, 506
CviAII CATG 9 cut(s) 109, 211, 389, 398, 526, 737, 792, 840, 990
CviQI GTAC 1 cut(s) 703
DdeI CTNAG 2 cut(s) 254, 659
DpnI GATC 5 cut(s) 107, 178, 233, 558, 583
DpnII GATC 5 cut(s) 105, 176, 231, 556, 581
DraIII CACNNNGTG 1 cut(s) 758
DriI GACNNNNNGTC 1 cut(s) 315
Eam1104I CTCTTC 3 cut(s) 152, 301, 945
Eam1105I GACNNNNNGTC 1 cut(s) 315
EarI CTCTTC 3 cut(s) 152, 301, 945
EciI GGCGGA 1 cut(s) 551
Eco32I GATATC 1 cut(s) 469
Eco47I GGWCC 1 cut(s) 187
Eco47III AGCGCT 1 cut(s) 25
Eco72I CACGTG 1 cut(s) 716
EcoRI GAATTC 1 cut(s) 521
EcoRV GATATC 1 cut(s) 469
Esp3I CGTCTC 1 cut(s) 323
FaeI CATG 9 cut(s) 112, 214, 392, 401, 529, 740, 795, 843, 993
FalI AAGNNNNNCTT 4 cut(s) 50, 82, 131, 163
FaqI GGGAC 2 cut(s) 149, 698
FatI CATG 9 cut(s) 108, 210, 388, 397, 525, 736, 791, 839, 989
FbaI TGATCA 2 cut(s) 105, 556
Fnu4HI GCNGC 3 cut(s) 123, 208, 912
FokI GGATG 4 cut(s) 362, 371, 446, 551
Fsp4HI GCNGC 3 cut(s) 123, 208, 912
FspBI CTAG 2 cut(s) 273, 545
GlaI GCGC 1 cut(s) 25
GluI GCNGC 3 cut(s) 123, 208, 912
GsuI CTGGAG 1 cut(s) 930
HaeII RGCGCY 1 cut(s) 27
HaeIII GGCC 2 cut(s) 326, 481
HapII CCGG 2 cut(s) 180, 596
HgaI GACGC 1 cut(s) 305
HhaI GCGC 1 cut(s) 26
Hin1II CATG 9 cut(s) 112, 214, 392, 401, 529, 740, 795, 843, 993
Hin6I GCGC 1 cut(s) 24
HinP1I GCGC 1 cut(s) 24
HinfI GANTC 5 cut(s) 39, 162, 266, 610, 868
HpaII CCGG 2 cut(s) 180, 596
HphI GGTGA 4 cut(s) 167, 380, 395, 416
Hpy166II GTNNAC 2 cut(s) 38, 216
Hpy188I TCNGA 2 cut(s) 452, 561
Hpy188III TCNNGA 3 cut(s) 174, 683, 947
Hpy8I GTNNAC 2 cut(s) 38, 216
HpyAV CCTTC 4 cut(s) 52, 76, 595, 987
HpyCH4III ACNGT 4 cut(s) 117, 565, 689, 707
HpyCH4IV ACGT 2 cut(s) 505, 715
HpyCH4V TGCA 9 cut(s) 8, 125, 210, 625, 654, 752, 791, 797, 804
HpyF10VI GCNNNNNNNGC 3 cut(s) 119, 128, 255
HpyF3I CTNAG 2 cut(s) 254, 659
HpySE526I ACGT 2 cut(s) 505, 715
Hsp92II CATG 9 cut(s) 112, 214, 392, 401, 529, 740, 795, 843, 993
HspAI GCGC 1 cut(s) 24
Ksp22I TGATCA 2 cut(s) 105, 556
Kzo9I GATC 5 cut(s) 105, 176, 231, 556, 581
LmnI GCTCC 1 cut(s) 963
Lsp1109I GCAGC 2 cut(s) 109, 194
LweI GCATC 1 cut(s) 912
MaeI CTAG 2 cut(s) 273, 545
MaeII ACGT 2 cut(s) 505, 715
MaeIII GTNAC 3 cut(s) 141, 368, 784
MalI GATC 5 cut(s) 107, 178, 233, 558, 583
MboI GATC 5 cut(s) 105, 176, 231, 556, 581
MfeI CAATTG 1 cut(s) 747
MflI RGATCY 2 cut(s) 176, 581
MluCI AATT 6 cut(s) 483, 521, 568, 645, 747, 858
MlyI GAGTC 4 cut(s) 33, 171, 260, 862
MmeI TCCRAC 3 cut(s) 165, 315, 327
MseI TTAA 5 cut(s) 363, 486, 567, 605, 648
MslI CAYNNNNRTG 2 cut(s) 399, 402
MspI CCGG 2 cut(s) 180, 596
MspR9I CCNGG 1 cut(s) 181
MunI CAATTG 1 cut(s) 747
MwoI GCNNNNNNNGC 3 cut(s) 119, 128, 255
NciI CCSGG 1 cut(s) 181
NdeII GATC 5 cut(s) 105, 176, 231, 556, 581
NlaIII CATG 9 cut(s) 112, 214, 392, 401, 529, 740, 795, 843, 993
NlaIV GGNNCC 4 cut(s) 178, 189, 583, 959
NmeAIII GCCGAG 1 cut(s) 352
NmuCI GTSAC 2 cut(s) 141, 368
NspI RCATGY 4 cut(s) 214, 392, 795, 843
PaeI GCATGC 1 cut(s) 392
PfeI GAWTC 1 cut(s) 610
PkrI GCNGC 3 cut(s) 124, 209, 913
PleI GAGTC 4 cut(s) 33, 170, 260, 862
PmaCI CACGTG 1 cut(s) 716
PmlI CACGTG 1 cut(s) 716
PpsI GAGTC 4 cut(s) 33, 170, 260, 862
Ppu21I YACGTR 1 cut(s) 716
PshBI ATTAAT 1 cut(s) 486
PspCI CACGTG 1 cut(s) 716
PspN4I GGNNCC 4 cut(s) 178, 189, 583, 959
PspPI GGNCC 1 cut(s) 187
PsuI RGATCY 2 cut(s) 176, 581
RsaI GTAC 1 cut(s) 704
RsaNI GTAC 1 cut(s) 703
RseI CAYNNNNRTG 2 cut(s) 399, 402
SaqAI TTAA 5 cut(s) 363, 486, 567, 605, 648
SatI GCNGC 3 cut(s) 123, 208, 912
Sau3AI GATC 5 cut(s) 105, 176, 231, 556, 581
Sau96I GGNCC 1 cut(s) 187
ScaI AGTACT 1 cut(s) 704
SchI GAGTC 4 cut(s) 33, 171, 260, 862
ScrFI CCNGG 1 cut(s) 181
SfaNI GCATC 1 cut(s) 912
SinI GGWCC 1 cut(s) 187
SmiMI CAYNNNNRTG 2 cut(s) 399, 402
SmlI CTYRAG 1 cut(s) 320
SmoI CTYRAG 1 cut(s) 320
SphI GCATGC 1 cut(s) 392
Sse9I AATT 6 cut(s) 483, 521, 568, 645, 747, 858
SsiI CCGC 3 cut(s) 247, 536, 911
SspMI CTAG 2 cut(s) 273, 545
StyD4I CCNGG 1 cut(s) 179
TaaI ACNGT 4 cut(s) 117, 565, 689, 707
TaiI ACGT 2 cut(s) 508, 718
TaqI TCGA 3 cut(s) 230, 809, 971
TasI AATT 6 cut(s) 483, 521, 568, 645, 747, 858
TatI WGTACW 1 cut(s) 702
TauI GCSGC 1 cut(s) 914
TfiI GAWTC 1 cut(s) 610
Tru1I TTAA 5 cut(s) 363, 486, 567, 605, 648
Tru9I TTAA 5 cut(s) 363, 486, 567, 605, 648
TscAI CASTG 1 cut(s) 60
TseFI GTSAC 2 cut(s) 141, 368
TseI GCWGC 2 cut(s) 122, 207
Tsp45I GTSAC 2 cut(s) 141, 368
TspDTI ATGAA 4 cut(s) 58, 514, 860, 869
TspGWI ACGGA 1 cut(s) 23
TspRI CASTG 1 cut(s) 60
VpaK11BI GGWCC 1 cut(s) 187
VspI ATTAAT 1 cut(s) 486
XapI RAATTY 2 cut(s) 521, 858
XceI RCATGY 4 cut(s) 214, 392, 795, 843
XspI CTAG 2 cut(s) 273, 545
ZrmI AGTACT 1 cut(s) 704
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.