Rh5CG347100

HNH endonuclease

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr5C
OG0012307
Physical Location & Seq
Forward (+)
39986780 .. 39991470
4691 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh5CG347100.1

Sequence Viewer

Length: 879 bp
ATGGCACGGTTAGCTGCACGAGCAAATGTGAAGTCGCTCTTCAATGGTGAGGGAGTCCCATCATCAGGATCCGGGTTGGACCCAAAAGACCCATTGAGCTGCATGTTCACTTTCTCATCATCGATCAAACCCCAAAACCGCAGGCTCAGCTCATTTGACTCCACTAGGCTCTACTCCTCCTCCAACTCTTCTTCCAACAAGACCAAGCGTCTCAAGGCCGAGGTTCGTTTGTTTTTCGGGGATGAGGAGGATGTTAAGGGTGACAACAAGGTTGGTGAGCATGCCCATCATGGTGATGATGATGATGAGTTTGAGAGGGATGAGCTGTCCTGTTTCAGAGGTCTGGTTTTGGATATCTCATACAGGCCAATTAATGTGGTCTGCTGGAAACGTGCTATTTGTTTGGAATTCATGGATAAGGCGGATGTCCTAGAATACTATGATCAGACTGTTAATTCCCCAAGTGGATCCTTCTACATACCAGCTGTTTTAAGGATTCCCCATTTACTGCAAGTTGTAAAGAGAAGAAGAATTAAGTGCAATCTTAGTCGTAAAAATATACTTTGTCGGGACAGTTTCACTTGTCAGTACTGTTCTTCACGTGAAAACTTGACCATTGACCATGTTATACCAATTGCACGAGGTGGAGAATGGAAGTGGGAAAATCTGGTTACTGCATGTGCAAAATGCAACTCGAAGAAAGGGCAGAAGACATTGGAGGAAGCATGTATGAAGCTGATGAAAATTCCCAAGACTCCAAAAGACTATGACATACTTGCCATACCCCTAACAAGTGCGGCAGTAAAGATGCTGAAAATGAGAAAGGGAACTCCAGAAGAGTGGCTCCAATATCTATCGAAGCCTTCTTCAATGCCATGA
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

292

Amino Acids

33.08

Weight (kDa)

9.03

Isoelectric Point (pI)

53.02

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
HNH_5 PF14279 195 - 246 4.1e-17 HNH endonuclease
HNH PF01844 195 - 236 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, 422, 797
AclWI GGATC 4 cut(s) 63, 76, 462, 475
AcsI RAATTY 2 cut(s) 407, 744
AcvI CACGTG 1 cut(s) 602
AdeI CACNNNGTG 1 cut(s) 644
AfaI GTAC 1 cut(s) 590
AfiI CCNNNNNNNGG 1 cut(s) 65
AgsI TTSAA 2 cut(s) 43, 870
AhdI GACNNNNNGTC 1 cut(s) 207
AluBI AGCT 6 cut(s) 14, 99, 150, 325, 485, 736
AluI AGCT 6 cut(s) 14, 99, 150, 325, 485, 736
Alw26I GTCTC 1 cut(s) 215
AlwI GGATC 4 cut(s) 63, 76, 462, 475
AoxI GGCC 2 cut(s) 216, 365
ApeKI GCWGC 2 cut(s) 14, 99
ApoI RAATTY 2 cut(s) 407, 744
ArsI GACNNNNNNTTYG 2 cut(s) 17, 49
AseI ATTAAT 1 cut(s) 372
AspS9I GGNCC 1 cut(s) 79
AsuC2I CCSGG 1 cut(s) 73
AsuHPI GGTGA 4 cut(s) 59, 272, 287, 305
AvaII GGWCC 1 cut(s) 79
BamHI GGATCC 2 cut(s) 68, 467
BauI CACGAG 2 cut(s) 18, 639
BbrPI CACGTG 1 cut(s) 602
BbsI GAAGAC 1 cut(s) 716
BbvI GCAGC 1 cut(s) 86
BccI CCATC 2 cut(s) 67, 294
BclI TGATCA 1 cut(s) 442
BcnI CCSGG 1 cut(s) 73
BcoDI GTCTC 1 cut(s) 215
BfaI CTAG 2 cut(s) 165, 431
BisI GCNGC 3 cut(s) 15, 100, 798
BlpI GCTNAGC 1 cut(s) 146
BlsI GCNGC 3 cut(s) 16, 101, 799
BmcAI AGTACT 1 cut(s) 590
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, 469, 845
BmrFI CCNGG 1 cut(s) 73
BmsI GCATC 1 cut(s) 798
BpiI GAAGAC 1 cut(s) 716
BpmI CTGGAG 1 cut(s) 816
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) 602
BsaJI CCNNGG 1 cut(s) 219
BsaXI ACNNNNNCTCC 2 cut(s) 164, 194
Bsc4I CCNNNNNNNGG 1 cut(s) 65
BseCI ATCGAT 1 cut(s) 122
BseDI CCNNGG 1 cut(s) 219
BseGI GGATG 4 cut(s) 247, 256, 325, 430
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, 367
BshVI ATCGAT 1 cut(s) 122
BsiSI CCGG 1 cut(s) 72
BslFI GGGAC 2 cut(s) 41, 584
BslI CCNNNNNNNGG 1 cut(s) 65
BsmAI GTCTC 1 cut(s) 215
BsmBI CGTCTC 1 cut(s) 215
BsmFI GGGAC 2 cut(s) 41, 584
BsnI GGCC 2 cut(s) 218, 367
Bsp143I GATC 4 cut(s) 68, 123, 442, 467
Bsp1720I GCTNAGC 1 cut(s) 146
BspACI CCGC 3 cut(s) 139, 422, 797
BspANI GGCC 2 cut(s) 218, 367
BspCNI CTCAG 1 cut(s) 159
BspDI ATCGAT 1 cut(s) 122
BspLI GGNNCC 4 cut(s) 70, 81, 469, 845
BspPI GGATC 4 cut(s) 63, 76, 462, 475
BspQI GCTCTTC 1 cut(s) 44
BssECI CCNNGG 1 cut(s) 219
BssMI GATC 4 cut(s) 68, 123, 442, 467
BssSI CACGAG 2 cut(s) 18, 639
Bst2BI CACGAG 2 cut(s) 18, 639
Bst4CI ACNGT 4 cut(s) 9, 451, 575, 593
Bst6I CTCTTC 3 cut(s) 44, 193, 831
BstBAI YACGTR 1 cut(s) 602
BstC8I GCNNGC 2 cut(s) 143, 282
BstDEI CTNAG 2 cut(s) 146, 545
BstF5I GGATG 4 cut(s) 247, 256, 325, 430
BstKTI GATC 4 cut(s) 71, 126, 445, 470
BstMAI GTCTC 1 cut(s) 215
BstMBI GATC 4 cut(s) 68, 123, 442, 467
BstMWI GCNNNNNNNGC 3 cut(s) 11, 20, 147
BstNSI RCATGY 4 cut(s) 106, 284, 681, 729
BstSCI CCNGG 1 cut(s) 71
BstV1I GCAGC 1 cut(s) 86
BstV2I GAAGAC 1 cut(s) 716
BstX2I RGATCY 2 cut(s) 68, 467
BstXI CCANNNNNNTGG 1 cut(s) 840
BstYI RGATCY 2 cut(s) 68, 467
Bsu15I ATCGAT 1 cut(s) 122
BsuRI GGCC 2 cut(s) 218, 367
BsuTUI ATCGAT 1 cut(s) 122
BtsCI GGATG 4 cut(s) 247, 256, 325, 430
Cac8I GCNNGC 2 cut(s) 143, 282
Cfr13I GGNCC 1 cut(s) 79
ClaI ATCGAT 1 cut(s) 122
CseI GACGC 1 cut(s) 197
Csp6I GTAC 1 cut(s) 589
CspCI CAANNNNNGTGG 2 cut(s) 357, 392
CviAII CATG 8 cut(s) 103, 281, 290, 412, 623, 678, 726, 876
CviQI GTAC 1 cut(s) 589
DdeI CTNAG 2 cut(s) 146, 545
DpnI GATC 4 cut(s) 70, 125, 444, 469
DpnII GATC 4 cut(s) 68, 123, 442, 467
DraIII CACNNNGTG 1 cut(s) 644
DriI GACNNNNNGTC 1 cut(s) 207
Eam1104I CTCTTC 3 cut(s) 44, 193, 831
Eam1105I GACNNNNNGTC 1 cut(s) 207
EarI CTCTTC 3 cut(s) 44, 193, 831
EciI GGCGGA 1 cut(s) 437
Eco32I GATATC 1 cut(s) 355
Eco47I GGWCC 1 cut(s) 79
Eco72I CACGTG 1 cut(s) 602
EcoRI GAATTC 1 cut(s) 407
EcoRV GATATC 1 cut(s) 355
Esp3I CGTCTC 1 cut(s) 215
FaeI CATG 8 cut(s) 106, 284, 293, 415, 626, 681, 729, 879
FalI AAGNNNNNCTT 2 cut(s) 23, 55
FaqI GGGAC 2 cut(s) 41, 584
FatI CATG 8 cut(s) 102, 280, 289, 411, 622, 677, 725, 875
FbaI TGATCA 1 cut(s) 442
Fnu4HI GCNGC 3 cut(s) 15, 100, 798
FokI GGATG 4 cut(s) 254, 263, 332, 437
Fsp4HI GCNGC 3 cut(s) 15, 100, 798
FspBI CTAG 2 cut(s) 165, 431
GluI GCNGC 3 cut(s) 15, 100, 798
GsuI CTGGAG 1 cut(s) 816
HaeIII GGCC 2 cut(s) 218, 367
HapII CCGG 1 cut(s) 72
HgaI GACGC 1 cut(s) 197
Hin1II CATG 8 cut(s) 106, 284, 293, 415, 626, 681, 729, 879
HinfI GANTC 4 cut(s) 54, 158, 496, 754
HpaII CCGG 1 cut(s) 72
HphI GGTGA 4 cut(s) 59, 272, 287, 305
Hpy166II GTNNAC 1 cut(s) 108
Hpy188I TCNGA 2 cut(s) 338, 447
Hpy188III TCNNGA 3 cut(s) 66, 569, 833
Hpy8I GTNNAC 1 cut(s) 108
HpyAV CCTTC 2 cut(s) 481, 873
HpyCH4III ACNGT 4 cut(s) 9, 451, 575, 593
HpyCH4IV ACGT 2 cut(s) 391, 601
HpyCH4V TGCA 8 cut(s) 17, 102, 511, 540, 638, 677, 683, 690
HpyF10VI GCNNNNNNNGC 3 cut(s) 11, 20, 147
HpyF3I CTNAG 2 cut(s) 146, 545
HpySE526I ACGT 2 cut(s) 391, 601
Hsp92II CATG 8 cut(s) 106, 284, 293, 415, 626, 681, 729, 879
Ksp22I TGATCA 1 cut(s) 442
Kzo9I GATC 4 cut(s) 68, 123, 442, 467
LguI GCTCTTC 1 cut(s) 44
LmnI GCTCC 1 cut(s) 849
Lsp1109I GCAGC 1 cut(s) 86
LweI GCATC 1 cut(s) 798
MaeI CTAG 2 cut(s) 165, 431
MaeII ACGT 2 cut(s) 391, 601
MaeIII GTNAC 2 cut(s) 260, 670
MalI GATC 4 cut(s) 70, 125, 444, 469
MboI GATC 4 cut(s) 68, 123, 442, 467
MfeI CAATTG 1 cut(s) 633
MflI RGATCY 2 cut(s) 68, 467
MluCI AATT 6 cut(s) 369, 407, 454, 531, 633, 744
MlyI GAGTC 3 cut(s) 63, 152, 748
MmeI TCCRAC 3 cut(s) 57, 207, 219
MseI TTAA 5 cut(s) 255, 372, 453, 491, 534
MslI CAYNNNNRTG 2 cut(s) 291, 294
MspA1I CMGCKG 1 cut(s) 485
MspI CCGG 1 cut(s) 72
MspR9I CCNGG 1 cut(s) 73
MunI CAATTG 1 cut(s) 633
MwoI GCNNNNNNNGC 3 cut(s) 11, 20, 147
NciI CCSGG 1 cut(s) 73
NdeII GATC 4 cut(s) 68, 123, 442, 467
NlaIII CATG 8 cut(s) 106, 284, 293, 415, 626, 681, 729, 879
NlaIV GGNNCC 4 cut(s) 70, 81, 469, 845
NmeAIII GCCGAG 1 cut(s) 244
NmuCI GTSAC 1 cut(s) 260
NspI RCATGY 4 cut(s) 106, 284, 681, 729
PaeI GCATGC 1 cut(s) 284
PciSI GCTCTTC 1 cut(s) 44
PfeI GAWTC 1 cut(s) 496
PkrI GCNGC 3 cut(s) 16, 101, 799
PleI GAGTC 3 cut(s) 62, 152, 748
PmaCI CACGTG 1 cut(s) 602
PmlI CACGTG 1 cut(s) 602
PpsI GAGTC 3 cut(s) 62, 152, 748
Ppu21I YACGTR 1 cut(s) 602
PshBI ATTAAT 1 cut(s) 372
PspCI CACGTG 1 cut(s) 602
PspN4I GGNNCC 4 cut(s) 70, 81, 469, 845
PspPI GGNCC 1 cut(s) 79
PsuI RGATCY 2 cut(s) 68, 467
PvuII CAGCTG 1 cut(s) 485
RsaI GTAC 1 cut(s) 590
RsaNI GTAC 1 cut(s) 589
RseI CAYNNNNRTG 2 cut(s) 291, 294
SapI GCTCTTC 1 cut(s) 44
SaqAI TTAA 5 cut(s) 255, 372, 453, 491, 534
SatI GCNGC 3 cut(s) 15, 100, 798
Sau3AI GATC 4 cut(s) 68, 123, 442, 467
Sau96I GGNCC 1 cut(s) 79
ScaI AGTACT 1 cut(s) 590
SchI GAGTC 3 cut(s) 63, 152, 748
ScrFI CCNGG 1 cut(s) 73
SfaNI GCATC 1 cut(s) 798
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) 369, 407, 454, 531, 633, 744
SsiI CCGC 3 cut(s) 139, 422, 797
SspMI CTAG 2 cut(s) 165, 431
StyD4I CCNGG 1 cut(s) 71
TaaI ACNGT 4 cut(s) 9, 451, 575, 593
TaiI ACGT 2 cut(s) 394, 604
TaqI TCGA 3 cut(s) 122, 695, 857
TasI AATT 6 cut(s) 369, 407, 454, 531, 633, 744
TatI WGTACW 1 cut(s) 588
TauI GCSGC 1 cut(s) 800
TfiI GAWTC 1 cut(s) 496
Tru1I TTAA 5 cut(s) 255, 372, 453, 491, 534
Tru9I TTAA 5 cut(s) 255, 372, 453, 491, 534
TseFI GTSAC 1 cut(s) 260
TseI GCWGC 2 cut(s) 14, 99
Tsp45I GTSAC 1 cut(s) 260
TspDTI ATGAA 3 cut(s) 400, 746, 755
VpaK11BI GGWCC 1 cut(s) 79
VspI ATTAAT 1 cut(s) 372
XapI RAATTY 2 cut(s) 407, 744
XceI RCATGY 4 cut(s) 106, 284, 681, 729
XspI CTAG 2 cut(s) 165, 431
ZrmI AGTACT 1 cut(s) 590
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.