RLG00000034453

HNH endonuclease

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_laevigata
Chr7
OG0012307
Physical Location & Seq
Forward (+)
42884188 .. 42890494
6307 bp
Loading structure...
UTR
Exon/CDS
Intron
RLM00000034453

Sequence Viewer

Length: 1080 bp
ATGGGAATAGCTGGAACTGGAAGACTCAGCAGCCTACTTCTCTTATCAGTCAAGGCAACTAATGAAAGAGCCTGGCCGCAGTTGGATTTGAGGTCGAGAATTCAGTCCTTCCATTCTGTGTTGGCGAACAACCACACTCGCTTGCAGGCAAGGAAACCTTCATACTCGACGCTAGAAGAAAAGAAAAGTAAGCATTTGATCATGGCACGGTTAGCTGCACGGGCAAATGTGAAGTCACTCTTCAATGGTGAGGGAGTCCCATCATCAGGATCCGGGTTGGACCCAAAAGACCCATTGAGCTGCATGTTCACTTTCTCATCATCGATCAAACCCCAAAACCGCAGGCTCAGCTCATTTGACTCCACTAGGCTCTACTCCTCCTCCAACTCTTCTTCCAACAAGACCAAGCGTCTCAAGGCCGAGGTTCGTTTGTTTTTCGGGGATGAGGAGGATGTTAAGGGTGACAACAAGGATGGTGAGCATGCCCATCATGGTGATGATGAGGATGAGTTTGAGAGGGATGAGCTGTCCTGTTTCAGAGGTCTGGTTTTGGATATCTCATACAGGCCAATTAATGTGGTCTGCTGGAAACGTGCTATTTGTTTGGAATTCATGGATAAGGCGGATGTCCTAGAATACTATGATCAGACTGTTAATTCCCCAAGTGGATCCTTCTACATACCGGCTGTTTTAAGGATTCCCCATTTACTGCAAGTTGTAAAGCGAAGAAGAATTAAGTGCAATCTTAGTCGTAAAAATATACTTTGTCGGGACAGTTTCACTTGTCAGTACTGTTCTTCACGTGAAAACTTGACTATTGACCATGTTATACCAATTGCACGAGGTGGAGAATGGAAGTGGGAAAATCTGGTTACTGCATGTGCAAAATGCAACTCGAAGAAAGGGCAGAAGACGTTGGAGGAAGCATGTATGAAGCTGATGAAAATTCCTAAGACTCCAAAAGACTATGACATACTTGCCATACCCCTAACAAGTGCGGCAGTAAAGATGCTGAAAATGAGAAAGGGAACTCCAGAAGAGTGGCTCCAATATCTATCGAAGCCTTCTTCAATGCCATGA
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

360

Amino Acids

40.64

Weight (kDa)

9.35

Isoelectric Point (pI)

51.32

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
HNH_5 PF14279 262 - 313 5.6e-17 HNH endonuclease
HNH PF01844 262 - 303 2.6e-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 4 cut(s) 77, 340, 623, 998
AclWI GGATC 4 cut(s) 264, 277, 663, 676
AcoI YGGCCR 1 cut(s) 74
AcsI RAATTY 3 cut(s) 99, 608, 945
AcvI CACGTG 1 cut(s) 803
AdeI CACNNNGTG 1 cut(s) 845
AfaI GTAC 1 cut(s) 791
AfiI CCNNNNNNNGG 1 cut(s) 266
AgsI TTSAA 2 cut(s) 244, 1071
AhdI GACNNNNNGTC 1 cut(s) 408
AjnI CCWGG 1 cut(s) 71
AluBI AGCT 6 cut(s) 11, 215, 300, 351, 526, 937
AluI AGCT 6 cut(s) 11, 215, 300, 351, 526, 937
Alw26I GTCTC 1 cut(s) 416
AlwI GGATC 4 cut(s) 264, 277, 663, 676
AoxI GGCC 3 cut(s) 74, 417, 566
ApeKI GCWGC 3 cut(s) 30, 215, 300
ApoI RAATTY 3 cut(s) 99, 608, 945
ArsI GACNNNNNNTTYG 2 cut(s) 218, 250
AseI ATTAAT 1 cut(s) 573
AspS9I GGNCC 1 cut(s) 280
AsuC2I CCSGG 1 cut(s) 274
AsuHPI GGTGA 4 cut(s) 260, 473, 488, 506
AvaII GGWCC 1 cut(s) 280
BamHI GGATCC 2 cut(s) 269, 668
BauI CACGAG 1 cut(s) 840
BbrPI CACGTG 1 cut(s) 803
BbsI GAAGAC 2 cut(s) 28, 917
BbvI GCAGC 3 cut(s) 42, 202, 287
BccI CCATC 3 cut(s) 268, 467, 495
BciT130I CCWGG 1 cut(s) 73
BclI TGATCA 2 cut(s) 198, 643
BcnI CCSGG 1 cut(s) 274
BcoDI GTCTC 1 cut(s) 416
BfaI CTAG 3 cut(s) 173, 366, 632
BisI GCNGC 5 cut(s) 31, 77, 216, 301, 999
BlpI GCTNAGC 1 cut(s) 347
BlsI GCNGC 5 cut(s) 32, 78, 217, 302, 1000
BmcAI AGTACT 1 cut(s) 791
Bme1390I CCNGG 2 cut(s) 73, 274
Bme18I GGWCC 1 cut(s) 280
BmeRI GACNNNNNGTC 1 cut(s) 408
BmgT120I GGNCC 1 cut(s) 280
BmiI GGNNCC 4 cut(s) 271, 282, 670, 1046
BmrFI CCNGG 2 cut(s) 73, 274
BmsI GCATC 1 cut(s) 999
BpiI GAAGAC 2 cut(s) 28, 917
BpmI CTGGAG 1 cut(s) 1017
Bpu1102I GCTNAGC 1 cut(s) 347
BpuEI CTTGAG 1 cut(s) 398
BpuMI CCSGG 1 cut(s) 274
Bsa29I ATCGAT 1 cut(s) 323
BsaAI YACGTR 1 cut(s) 803
BsaJI CCNNGG 1 cut(s) 420
BsaXI ACNNNNNCTCC 2 cut(s) 365, 395
Bsc4I CCNNNNNNNGG 1 cut(s) 266
Bse118I RCCGGY 1 cut(s) 682
Bse1I ACTGG 1 cut(s) 22
BseBI CCWGG 1 cut(s) 73
BseCI ATCGAT 1 cut(s) 323
BseDI CCNNGG 1 cut(s) 420
BseGI GGATG 6 cut(s) 448, 457, 478, 511, 526, 631
BseLI CCNNNNNNNGG 1 cut(s) 266
BseMII CTCAG 2 cut(s) 40, 361
BseNI ACTGG 1 cut(s) 22
BseRI GAGGAG 3 cut(s) 367, 370, 461
BseXI GCAGC 3 cut(s) 42, 202, 287
BsgI GTGCAG 1 cut(s) 201
BshFI GGCC 3 cut(s) 76, 419, 568
BshVI ATCGAT 1 cut(s) 323
BsiSI CCGG 2 cut(s) 273, 683
BslFI GGGAC 2 cut(s) 242, 785
BslI CCNNNNNNNGG 1 cut(s) 266
BsmAI GTCTC 1 cut(s) 416
BsmBI CGTCTC 1 cut(s) 416
BsmFI GGGAC 2 cut(s) 242, 785
BsnI GGCC 3 cut(s) 76, 419, 568
Bsp143I GATC 5 cut(s) 198, 269, 324, 643, 668
Bsp1720I GCTNAGC 1 cut(s) 347
BspACI CCGC 4 cut(s) 77, 340, 623, 998
BspANI GGCC 3 cut(s) 76, 419, 568
BspCNI CTCAG 2 cut(s) 39, 360
BspDI ATCGAT 1 cut(s) 323
BspLI GGNNCC 4 cut(s) 271, 282, 670, 1046
BspPI GGATC 4 cut(s) 264, 277, 663, 676
BsrFI RCCGGY 1 cut(s) 682
BsrI ACTGG 1 cut(s) 22
BssAI RCCGGY 1 cut(s) 682
BssECI CCNNGG 1 cut(s) 420
BssMI GATC 5 cut(s) 198, 269, 324, 643, 668
BssSI CACGAG 1 cut(s) 840
Bst2BI CACGAG 1 cut(s) 840
Bst2UI CCWGG 1 cut(s) 73
Bst4CI ACNGT 4 cut(s) 210, 652, 776, 794
Bst6I CTCTTC 3 cut(s) 245, 394, 1032
BstBAI YACGTR 1 cut(s) 803
BstC8I GCNNGC 4 cut(s) 143, 147, 344, 483
BstDEI CTNAG 4 cut(s) 26, 347, 746, 951
BstF5I GGATG 6 cut(s) 448, 457, 478, 511, 526, 631
BstKTI GATC 5 cut(s) 201, 272, 327, 646, 671
BstMAI GTCTC 1 cut(s) 416
BstMBI GATC 5 cut(s) 198, 269, 324, 643, 668
BstMWI GCNNNNNNNGC 3 cut(s) 212, 221, 348
BstNI CCWGG 1 cut(s) 73
BstNSI RCATGY 4 cut(s) 307, 485, 882, 930
BstSCI CCNGG 2 cut(s) 71, 272
BstV1I GCAGC 3 cut(s) 42, 202, 287
BstV2I GAAGAC 2 cut(s) 28, 917
BstX2I RGATCY 2 cut(s) 269, 668
BstXI CCANNNNNNTGG 1 cut(s) 1041
BstYI RGATCY 2 cut(s) 269, 668
Bsu15I ATCGAT 1 cut(s) 323
BsuRI GGCC 3 cut(s) 76, 419, 568
BsuTUI ATCGAT 1 cut(s) 323
BtsCI GGATG 6 cut(s) 448, 457, 478, 511, 526, 631
Cac8I GCNNGC 4 cut(s) 143, 147, 344, 483
Cfr10I RCCGGY 1 cut(s) 682
Cfr13I GGNCC 1 cut(s) 280
ClaI ATCGAT 1 cut(s) 323
CseI GACGC 2 cut(s) 178, 398
Csp6I GTAC 1 cut(s) 790
CspCI CAANNNNNGTGG 2 cut(s) 558, 593
CviAII CATG 9 cut(s) 202, 304, 482, 491, 613, 824, 879, 927, 1077
CviQI GTAC 1 cut(s) 790
DdeI CTNAG 4 cut(s) 26, 347, 746, 951
DpnI GATC 5 cut(s) 200, 271, 326, 645, 670
DpnII GATC 5 cut(s) 198, 269, 324, 643, 668
DraIII CACNNNGTG 1 cut(s) 845
DriI GACNNNNNGTC 1 cut(s) 408
EaeI YGGCCR 1 cut(s) 74
Eam1104I CTCTTC 3 cut(s) 245, 394, 1032
Eam1105I GACNNNNNGTC 1 cut(s) 408
EarI CTCTTC 3 cut(s) 245, 394, 1032
EciI GGCGGA 1 cut(s) 638
Eco32I GATATC 1 cut(s) 556
Eco47I GGWCC 1 cut(s) 280
Eco72I CACGTG 1 cut(s) 803
EcoRI GAATTC 2 cut(s) 99, 608
EcoRII CCWGG 1 cut(s) 71
EcoRV GATATC 1 cut(s) 556
Esp3I CGTCTC 1 cut(s) 416
FaeI CATG 9 cut(s) 205, 307, 485, 494, 616, 827, 882, 930, 1080
FalI AAGNNNNNCTT 4 cut(s) 142, 174, 224, 256
FaqI GGGAC 2 cut(s) 242, 785
FatI CATG 9 cut(s) 201, 303, 481, 490, 612, 823, 878, 926, 1076
FbaI TGATCA 2 cut(s) 198, 643
Fnu4HI GCNGC 5 cut(s) 31, 77, 216, 301, 999
FokI GGATG 6 cut(s) 455, 464, 485, 518, 533, 638
Fsp4HI GCNGC 5 cut(s) 31, 77, 216, 301, 999
FspBI CTAG 3 cut(s) 173, 366, 632
GluI GCNGC 5 cut(s) 31, 77, 216, 301, 999
GsuI CTGGAG 1 cut(s) 1017
HaeIII GGCC 3 cut(s) 76, 419, 568
HapII CCGG 2 cut(s) 273, 683
HgaI GACGC 2 cut(s) 178, 398
Hin1II CATG 9 cut(s) 205, 307, 485, 494, 616, 827, 882, 930, 1080
HinfI GANTC 5 cut(s) 24, 255, 359, 697, 955
HpaII CCGG 2 cut(s) 273, 683
HphI GGTGA 4 cut(s) 260, 473, 488, 506
Hpy166II GTNNAC 1 cut(s) 309
Hpy188I TCNGA 2 cut(s) 539, 648
Hpy188III TCNNGA 4 cut(s) 96, 267, 770, 1034
Hpy8I GTNNAC 1 cut(s) 309
Hpy99I CGWCG 1 cut(s) 172
HpyAV CCTTC 4 cut(s) 118, 168, 682, 1074
HpyCH4III ACNGT 4 cut(s) 210, 652, 776, 794
HpyCH4IV ACGT 3 cut(s) 592, 802, 914
HpyCH4V TGCA 9 cut(s) 145, 218, 303, 712, 741, 839, 878, 884, 891
HpyF10VI GCNNNNNNNGC 3 cut(s) 212, 221, 348
HpyF3I CTNAG 4 cut(s) 26, 347, 746, 951
HpySE526I ACGT 3 cut(s) 592, 802, 914
Hsp92II CATG 9 cut(s) 205, 307, 485, 494, 616, 827, 882, 930, 1080
Ksp22I TGATCA 2 cut(s) 198, 643
Kzo9I GATC 5 cut(s) 198, 269, 324, 643, 668
LmnI GCTCC 1 cut(s) 1050
Lsp1109I GCAGC 3 cut(s) 42, 202, 287
LweI GCATC 1 cut(s) 999
MaeI CTAG 3 cut(s) 173, 366, 632
MaeII ACGT 3 cut(s) 592, 802, 914
MaeIII GTNAC 3 cut(s) 234, 461, 871
MalI GATC 5 cut(s) 200, 271, 326, 645, 670
MboI GATC 5 cut(s) 198, 269, 324, 643, 668
MfeI CAATTG 1 cut(s) 834
MflI RGATCY 2 cut(s) 269, 668
MluCI AATT 7 cut(s) 99, 570, 608, 655, 732, 834, 945
MlyI GAGTC 4 cut(s) 18, 264, 353, 949
MmeI TCCRAC 5 cut(s) 63, 258, 408, 420, 897
MseI TTAA 5 cut(s) 456, 573, 654, 692, 735
MslI CAYNNNNRTG 2 cut(s) 492, 495
MspI CCGG 2 cut(s) 273, 683
MspR9I CCNGG 2 cut(s) 73, 274
MunI CAATTG 1 cut(s) 834
MvaI CCWGG 1 cut(s) 73
MwoI GCNNNNNNNGC 3 cut(s) 212, 221, 348
NciI CCSGG 1 cut(s) 274
NdeII GATC 5 cut(s) 198, 269, 324, 643, 668
NlaIII CATG 9 cut(s) 205, 307, 485, 494, 616, 827, 882, 930, 1080
NlaIV GGNNCC 4 cut(s) 271, 282, 670, 1046
NmeAIII GCCGAG 1 cut(s) 445
NmuCI GTSAC 2 cut(s) 234, 461
NspI RCATGY 4 cut(s) 307, 485, 882, 930
PaeI GCATGC 1 cut(s) 485
PfeI GAWTC 1 cut(s) 697
PkrI GCNGC 5 cut(s) 32, 78, 217, 302, 1000
PleI GAGTC 4 cut(s) 18, 263, 353, 949
PmaCI CACGTG 1 cut(s) 803
PmlI CACGTG 1 cut(s) 803
PpsI GAGTC 4 cut(s) 18, 263, 353, 949
Ppu21I YACGTR 1 cut(s) 803
PshBI ATTAAT 1 cut(s) 573
Psp6I CCWGG 1 cut(s) 71
PspCI CACGTG 1 cut(s) 803
PspGI CCWGG 1 cut(s) 71
PspN4I GGNNCC 4 cut(s) 271, 282, 670, 1046
PspPI GGNCC 1 cut(s) 280
PsuI RGATCY 2 cut(s) 269, 668
RsaI GTAC 1 cut(s) 791
RsaNI GTAC 1 cut(s) 790
RseI CAYNNNNRTG 2 cut(s) 492, 495
SaqAI TTAA 5 cut(s) 456, 573, 654, 692, 735
SatI GCNGC 5 cut(s) 31, 77, 216, 301, 999
Sau3AI GATC 5 cut(s) 198, 269, 324, 643, 668
Sau96I GGNCC 1 cut(s) 280
ScaI AGTACT 1 cut(s) 791
SchI GAGTC 4 cut(s) 18, 264, 353, 949
ScrFI CCNGG 2 cut(s) 73, 274
SfaNI GCATC 1 cut(s) 999
SinI GGWCC 1 cut(s) 280
SmiMI CAYNNNNRTG 2 cut(s) 492, 495
SmlI CTYRAG 1 cut(s) 413
SmoI CTYRAG 1 cut(s) 413
SphI GCATGC 1 cut(s) 485
Sse9I AATT 7 cut(s) 99, 570, 608, 655, 732, 834, 945
SsiI CCGC 4 cut(s) 77, 340, 623, 998
SspMI CTAG 3 cut(s) 173, 366, 632
StyD4I CCNGG 2 cut(s) 71, 272
TaaI ACNGT 4 cut(s) 210, 652, 776, 794
TaiI ACGT 3 cut(s) 595, 805, 917
TaqI TCGA 5 cut(s) 95, 167, 323, 896, 1058
TasI AATT 7 cut(s) 99, 570, 608, 655, 732, 834, 945
TatI WGTACW 1 cut(s) 789
TauI GCSGC 2 cut(s) 79, 1001
TfiI GAWTC 1 cut(s) 697
Tru1I TTAA 5 cut(s) 456, 573, 654, 692, 735
Tru9I TTAA 5 cut(s) 456, 573, 654, 692, 735
TseFI GTSAC 2 cut(s) 234, 461
TseI GCWGC 3 cut(s) 30, 215, 300
Tsp45I GTSAC 2 cut(s) 234, 461
TspDTI ATGAA 5 cut(s) 78, 150, 601, 947, 956
VpaK11BI GGWCC 1 cut(s) 280
VspI ATTAAT 1 cut(s) 573
XapI RAATTY 3 cut(s) 99, 608, 945
XceI RCATGY 4 cut(s) 307, 485, 882, 930
XspI CTAG 3 cut(s) 173, 366, 632
ZrmI AGTACT 1 cut(s) 791
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.