Rh5AG311900

HNH endonuclease

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr5A
OG0012307
Physical Location & Seq
Forward (+)
45008167 .. 45012878
4712 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh5AG311900.1

Sequence Viewer

Length: 885 bp
ATGGCACGGTTAGCTGCACGAGCAAATGTGAAGTCACTCTTCAATGGTGAGGGAGTCCCATCATCAGGATCCGGGTTGGACCCAAAAGACCCATTGAGCTGCATGTTCACTTTCTCATCATCGATCAAACCCCAAAACCGCAGGCTCAGCTCATTTGACTCCACTAGGCTTTACTCCTCCTCCAACTCTTCTTCCAACAAGACCAAGCGTCTCAAGGCCGAGGTTCGTTTGTTTTTCGGGGATGAGGAGGATGTTAAGGGTGACAACAAGGTTGGTGAGCATGCCCATCATGGTGGTGATGATGATGATGATGAGTTTGAGAGGGATGAGCTGTCCTGTTTCAGAGGTCTGGTTTTGGATATCTCATACAGGCCAATTAATGTGGTCTGCTGGAAACGTGCTATTTGTTTGGAATTCATGGATAAGGCGGATGTCCTAGAATACTATGATCAGACTGTTAATTCCCCAAGTGGATCCTTCTACATACCGGCTGTTTTAAGGATTCCCCATTTACTGCAAGTTGTAAAGAGAAGAAGAATTAAGTGCAATCTTAGTCGTAAAAATATACTTTGTCGGGACTGTTTCACTTGTCAGTACTGTTCTTCACGTGAAAACTTGACCATTGACCATGTTATACCAATTGCACGAGGTGGAGAATGGAAGTGGGAAAATCTGGTTACTGCATGTGCAAAATGCAACTCGAAGAAAGGGCAGAAGACATTGGAGGAAGCATGTATGAAGCTGATGAAAATTCCCAAGACTCCAAAAGACTATGACATACTTGCCATACCCCTAACGAGTGCGGCAGTAAAGATGCTGAAAATGAGAAAGGGAACTCCAGAAGAGTGGCTCCAATATCTATCGAAGCCTTCTTCAATGCCATGA
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

294

Amino Acids

33.26

Weight (kDa)

8.92

Isoelectric Point (pI)

52.49

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
HNH_5 PF14279 197 - 248 4.1e-17 HNH endonuclease
HNH PF01844 197 - 238 1.9e-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) 139, 428, 803
AclWI GGATC 4 cut(s) 63, 76, 468, 481
AcsI RAATTY 2 cut(s) 413, 750
AcvI CACGTG 1 cut(s) 608
AdeI CACNNNGTG 1 cut(s) 650
AfaI GTAC 1 cut(s) 596
AfiI CCNNNNNNNGG 1 cut(s) 65
AgsI TTSAA 2 cut(s) 43, 876
AhdI GACNNNNNGTC 1 cut(s) 207
AluBI AGCT 5 cut(s) 14, 99, 150, 331, 742
AluI AGCT 5 cut(s) 14, 99, 150, 331, 742
Alw26I GTCTC 1 cut(s) 215
AlwI GGATC 4 cut(s) 63, 76, 468, 481
AoxI GGCC 2 cut(s) 216, 371
ApeKI GCWGC 2 cut(s) 14, 99
ApoI RAATTY 2 cut(s) 413, 750
ArsI GACNNNNNNTTYG 2 cut(s) 17, 49
AseI ATTAAT 1 cut(s) 378
AspS9I GGNCC 1 cut(s) 79
AsuC2I CCSGG 1 cut(s) 73
AsuHPI GGTGA 4 cut(s) 59, 272, 287, 308
AvaII GGWCC 1 cut(s) 79
BamHI GGATCC 2 cut(s) 68, 473
BauI CACGAG 2 cut(s) 18, 645
BbrPI CACGTG 1 cut(s) 608
BbsI GAAGAC 1 cut(s) 722
BbvI GCAGC 1 cut(s) 86
BccI CCATC 2 cut(s) 67, 294
BclI TGATCA 1 cut(s) 448
BcnI CCSGG 1 cut(s) 73
BcoDI GTCTC 1 cut(s) 215
BfaI CTAG 2 cut(s) 165, 437
BisI GCNGC 3 cut(s) 15, 100, 804
BlpI GCTNAGC 1 cut(s) 146
BlsI GCNGC 3 cut(s) 16, 101, 805
BmcAI AGTACT 1 cut(s) 596
Bme1390I CCNGG 1 cut(s) 73
Bme18I GGWCC 1 cut(s) 79
BmeRI GACNNNNNGTC 1 cut(s) 207
BmgT120I GGNCC 1 cut(s) 79
BmiI GGNNCC 4 cut(s) 70, 81, 475, 851
BmrFI CCNGG 1 cut(s) 73
BmsI GCATC 1 cut(s) 804
BpiI GAAGAC 1 cut(s) 722
BpmI CTGGAG 1 cut(s) 822
Bpu1102I GCTNAGC 1 cut(s) 146
BpuEI CTTGAG 1 cut(s) 197
BpuMI CCSGG 1 cut(s) 73
Bsa29I ATCGAT 1 cut(s) 122
BsaAI YACGTR 1 cut(s) 608
BsaJI CCNNGG 1 cut(s) 219
BsaXI ACNNNNNCTCC 2 cut(s) 164, 194
Bsc4I CCNNNNNNNGG 1 cut(s) 65
Bse118I RCCGGY 1 cut(s) 487
BseCI ATCGAT 1 cut(s) 122
BseDI CCNNGG 1 cut(s) 219
BseGI GGATG 4 cut(s) 247, 256, 331, 436
BseLI CCNNNNNNNGG 1 cut(s) 65
BseMII CTCAG 1 cut(s) 160
BseRI GAGGAG 3 cut(s) 166, 169, 260
BseXI GCAGC 1 cut(s) 86
BshFI GGCC 2 cut(s) 218, 373
BshVI ATCGAT 1 cut(s) 122
BsiSI CCGG 2 cut(s) 72, 488
BslFI GGGAC 2 cut(s) 41, 590
BslI CCNNNNNNNGG 1 cut(s) 65
BsmAI GTCTC 1 cut(s) 215
BsmBI CGTCTC 1 cut(s) 215
BsmFI GGGAC 2 cut(s) 41, 590
BsnI GGCC 2 cut(s) 218, 373
Bsp143I GATC 4 cut(s) 68, 123, 448, 473
Bsp1720I GCTNAGC 1 cut(s) 146
BspACI CCGC 3 cut(s) 139, 428, 803
BspANI GGCC 2 cut(s) 218, 373
BspCNI CTCAG 1 cut(s) 159
BspDI ATCGAT 1 cut(s) 122
BspLI GGNNCC 4 cut(s) 70, 81, 475, 851
BspPI GGATC 4 cut(s) 63, 76, 468, 481
BsrFI RCCGGY 1 cut(s) 487
BssAI RCCGGY 1 cut(s) 487
BssECI CCNNGG 1 cut(s) 219
BssMI GATC 4 cut(s) 68, 123, 448, 473
BssSI CACGAG 2 cut(s) 18, 645
Bst2BI CACGAG 2 cut(s) 18, 645
Bst4CI ACNGT 4 cut(s) 9, 457, 581, 599
Bst6I CTCTTC 3 cut(s) 44, 193, 837
BstBAI YACGTR 1 cut(s) 608
BstC8I GCNNGC 2 cut(s) 143, 282
BstDEI CTNAG 2 cut(s) 146, 551
BstF5I GGATG 4 cut(s) 247, 256, 331, 436
BstKTI GATC 4 cut(s) 71, 126, 451, 476
BstMAI GTCTC 1 cut(s) 215
BstMBI GATC 4 cut(s) 68, 123, 448, 473
BstMWI GCNNNNNNNGC 3 cut(s) 11, 20, 147
BstNSI RCATGY 4 cut(s) 106, 284, 687, 735
BstSCI CCNGG 1 cut(s) 71
BstV1I GCAGC 1 cut(s) 86
BstV2I GAAGAC 1 cut(s) 722
BstX2I RGATCY 2 cut(s) 68, 473
BstXI CCANNNNNNTGG 2 cut(s) 293, 846
BstYI RGATCY 2 cut(s) 68, 473
Bsu15I ATCGAT 1 cut(s) 122
BsuRI GGCC 2 cut(s) 218, 373
BsuTUI ATCGAT 1 cut(s) 122
BtsCI GGATG 4 cut(s) 247, 256, 331, 436
Cac8I GCNNGC 2 cut(s) 143, 282
Cfr10I RCCGGY 1 cut(s) 487
Cfr13I GGNCC 1 cut(s) 79
ClaI ATCGAT 1 cut(s) 122
CseI GACGC 1 cut(s) 197
Csp6I GTAC 1 cut(s) 595
CspCI CAANNNNNGTGG 2 cut(s) 363, 398
CviAII CATG 8 cut(s) 103, 281, 290, 418, 629, 684, 732, 882
CviQI GTAC 1 cut(s) 595
DdeI CTNAG 2 cut(s) 146, 551
DpnI GATC 4 cut(s) 70, 125, 450, 475
DpnII GATC 4 cut(s) 68, 123, 448, 473
DraIII CACNNNGTG 1 cut(s) 650
DriI GACNNNNNGTC 1 cut(s) 207
Eam1104I CTCTTC 3 cut(s) 44, 193, 837
Eam1105I GACNNNNNGTC 1 cut(s) 207
EarI CTCTTC 3 cut(s) 44, 193, 837
EciI GGCGGA 1 cut(s) 443
Eco32I GATATC 1 cut(s) 361
Eco47I GGWCC 1 cut(s) 79
Eco72I CACGTG 1 cut(s) 608
EcoRI GAATTC 1 cut(s) 413
EcoRV GATATC 1 cut(s) 361
Esp3I CGTCTC 1 cut(s) 215
FaeI CATG 8 cut(s) 106, 284, 293, 421, 632, 687, 735, 885
FalI AAGNNNNNCTT 2 cut(s) 23, 55
FaqI GGGAC 2 cut(s) 41, 590
FatI CATG 8 cut(s) 102, 280, 289, 417, 628, 683, 731, 881
FbaI TGATCA 1 cut(s) 448
Fnu4HI GCNGC 3 cut(s) 15, 100, 804
FokI GGATG 4 cut(s) 254, 263, 338, 443
Fsp4HI GCNGC 3 cut(s) 15, 100, 804
FspBI CTAG 2 cut(s) 165, 437
GluI GCNGC 3 cut(s) 15, 100, 804
GsuI CTGGAG 1 cut(s) 822
HaeIII GGCC 2 cut(s) 218, 373
HapII CCGG 2 cut(s) 72, 488
HgaI GACGC 1 cut(s) 197
Hin1II CATG 8 cut(s) 106, 284, 293, 421, 632, 687, 735, 885
HinfI GANTC 4 cut(s) 54, 158, 502, 760
HpaII CCGG 2 cut(s) 72, 488
HphI GGTGA 4 cut(s) 59, 272, 287, 308
Hpy166II GTNNAC 1 cut(s) 108
Hpy188I TCNGA 2 cut(s) 344, 453
Hpy188III TCNNGA 3 cut(s) 66, 575, 839
Hpy8I GTNNAC 1 cut(s) 108
HpyAV CCTTC 2 cut(s) 487, 879
HpyCH4III ACNGT 4 cut(s) 9, 457, 581, 599
HpyCH4IV ACGT 2 cut(s) 397, 607
HpyCH4V TGCA 8 cut(s) 17, 102, 517, 546, 644, 683, 689, 696
HpyF10VI GCNNNNNNNGC 3 cut(s) 11, 20, 147
HpyF3I CTNAG 2 cut(s) 146, 551
HpySE526I ACGT 2 cut(s) 397, 607
Hsp92II CATG 8 cut(s) 106, 284, 293, 421, 632, 687, 735, 885
Ksp22I TGATCA 1 cut(s) 448
Kzo9I GATC 4 cut(s) 68, 123, 448, 473
LmnI GCTCC 1 cut(s) 855
Lsp1109I GCAGC 1 cut(s) 86
LweI GCATC 1 cut(s) 804
MaeI CTAG 2 cut(s) 165, 437
MaeII ACGT 2 cut(s) 397, 607
MaeIII GTNAC 3 cut(s) 33, 260, 676
MalI GATC 4 cut(s) 70, 125, 450, 475
MboI GATC 4 cut(s) 68, 123, 448, 473
MfeI CAATTG 1 cut(s) 639
MflI RGATCY 2 cut(s) 68, 473
MluCI AATT 6 cut(s) 375, 413, 460, 537, 639, 750
MlyI GAGTC 3 cut(s) 63, 152, 754
MmeI TCCRAC 3 cut(s) 57, 207, 219
MseI TTAA 5 cut(s) 255, 378, 459, 497, 540
MslI CAYNNNNRTG 2 cut(s) 291, 294
MspI CCGG 2 cut(s) 72, 488
MspR9I CCNGG 1 cut(s) 73
MunI CAATTG 1 cut(s) 639
MwoI GCNNNNNNNGC 3 cut(s) 11, 20, 147
NciI CCSGG 1 cut(s) 73
NdeII GATC 4 cut(s) 68, 123, 448, 473
NlaIII CATG 8 cut(s) 106, 284, 293, 421, 632, 687, 735, 885
NlaIV GGNNCC 4 cut(s) 70, 81, 475, 851
NmeAIII GCCGAG 1 cut(s) 244
NmuCI GTSAC 2 cut(s) 33, 260
NspI RCATGY 4 cut(s) 106, 284, 687, 735
PaeI GCATGC 1 cut(s) 284
PfeI GAWTC 1 cut(s) 502
PkrI GCNGC 3 cut(s) 16, 101, 805
PleI GAGTC 3 cut(s) 62, 152, 754
PmaCI CACGTG 1 cut(s) 608
PmlI CACGTG 1 cut(s) 608
PpsI GAGTC 3 cut(s) 62, 152, 754
Ppu21I YACGTR 1 cut(s) 608
PshBI ATTAAT 1 cut(s) 378
PspCI CACGTG 1 cut(s) 608
PspN4I GGNNCC 4 cut(s) 70, 81, 475, 851
PspPI GGNCC 1 cut(s) 79
PsuI RGATCY 2 cut(s) 68, 473
RsaI GTAC 1 cut(s) 596
RsaNI GTAC 1 cut(s) 595
RseI CAYNNNNRTG 2 cut(s) 291, 294
SaqAI TTAA 5 cut(s) 255, 378, 459, 497, 540
SatI GCNGC 3 cut(s) 15, 100, 804
Sau3AI GATC 4 cut(s) 68, 123, 448, 473
Sau96I GGNCC 1 cut(s) 79
ScaI AGTACT 1 cut(s) 596
SchI GAGTC 3 cut(s) 63, 152, 754
ScrFI CCNGG 1 cut(s) 73
SfaNI GCATC 1 cut(s) 804
SinI GGWCC 1 cut(s) 79
SmiMI CAYNNNNRTG 2 cut(s) 291, 294
SmlI CTYRAG 1 cut(s) 212
SmoI CTYRAG 1 cut(s) 212
SphI GCATGC 1 cut(s) 284
Sse9I AATT 6 cut(s) 375, 413, 460, 537, 639, 750
SsiI CCGC 3 cut(s) 139, 428, 803
SspMI CTAG 2 cut(s) 165, 437
StyD4I CCNGG 1 cut(s) 71
TaaI ACNGT 4 cut(s) 9, 457, 581, 599
TaiI ACGT 2 cut(s) 400, 610
TaqI TCGA 3 cut(s) 122, 701, 863
TasI AATT 6 cut(s) 375, 413, 460, 537, 639, 750
TatI WGTACW 1 cut(s) 594
TauI GCSGC 1 cut(s) 806
TfiI GAWTC 1 cut(s) 502
Tru1I TTAA 5 cut(s) 255, 378, 459, 497, 540
Tru9I TTAA 5 cut(s) 255, 378, 459, 497, 540
TseFI GTSAC 2 cut(s) 33, 260
TseI GCWGC 2 cut(s) 14, 99
Tsp45I GTSAC 2 cut(s) 33, 260
TspDTI ATGAA 3 cut(s) 406, 752, 761
VpaK11BI GGWCC 1 cut(s) 79
VspI ATTAAT 1 cut(s) 378
XapI RAATTY 2 cut(s) 413, 750
XceI RCATGY 4 cut(s) 106, 284, 687, 735
XspI CTAG 2 cut(s) 165, 437
ZrmI AGTACT 1 cut(s) 596
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.