Rh5DG331600

HNH endonuclease

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr5D
OG0012307
Physical Location & Seq
Forward (+)
43731377 .. 43736099
4723 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh5DG331600.1

Sequence Viewer

Length: 996 bp
ATGTTTGCAAAAATATGTGGTAGCGCTTATTTCCGTGGACTGGTAATAAGAGTGAAGGAAACCTTCATACTCAACACTAGAAGAAAAGAAAAGAAAAGTAGGCATTTGATCATGGCACGGTTAGCTGCACGAGCAAATGTGAAGTCACTCTTCAATGGTGAGGGAGTCCCATCATCAGGATCCGGGTTGGACCCAAAAGACCCATTGAGCTGCATGTTCACTTTCTCATCATCGATCAAACCCCAAAACCGCAGGCTCAGCTCATTTGACTCCACTAGGCTTTACTCCTCCTCCAACTCTTCTTCCAACAAGACCAAGCGTCTCAAGGCCGAGGTTCGTTTGTTTTTCGGGGATGAGGAGGATGTTAAGGGTGACAACAAGGTTGGTGAGCATGCCCATCATGGTGGTGGTGATGATGATGATGAGTTTGAGAGGGATGAGCTGTCCTGTTTCAGAGGTCTGGTTTTGGATATCTCATACAGGCCAATTAATGTGGTCTGCTGGAAACGTGCTATTTGTTTGGAATTCATGGATAAGGCGGATGTCCTAGAATACTATGATCAGACTGTTAATTCCCCAAGTGGATCCTTCTACATACCGGCTGTTTTAAGGATTCCCCATTTACTGCAAGTTGTAAAGAGAAGAAGAATTAAGTGCAATCTTAGTCGTAAAAATATACTTTGTCGGGACAGTTTCACTTGTCAGTACTGTTCTTCACGTGAAAACTTGACTATTGACCATGTTATACCAATTGCACGAGGTGGAGAATGGAAGTGGGAAAATCTGGTTACTGCATGTGCAAAATGCAACTCGAAGAAAGGGCAGAAGACATTGGAGGAAGCATGTATGAAGCTGATGAAAATTCCTAAGACTCCAAAAGACTATGACATACTTGCCATACCCCTAACAAGTGCGGCAGTAAAGATGCTGAAAATGAGAAAGGGAACTCCAGAAGAGTGGCTCCAATATCTATCGAAGCCTTCTTCAATGCCATGA
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

331

Amino Acids

37.58

Weight (kDa)

9.42

Isoelectric Point (pI)

51.69

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
HNH_5 PF14279 234 - 285 4.9e-17 HNH endonuclease
HNH PF01844 234 - 275 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) 250, 539, 914
AclWI GGATC 4 cut(s) 174, 187, 579, 592
AcsI RAATTY 2 cut(s) 524, 861
AcvI CACGTG 1 cut(s) 719
AdeI CACNNNGTG 1 cut(s) 761
AfaI GTAC 1 cut(s) 707
AfeI AGCGCT 1 cut(s) 25
AfiI CCNNNNNNNGG 2 cut(s) 40, 176
AgsI TTSAA 2 cut(s) 154, 987
AhdI GACNNNNNGTC 1 cut(s) 318
AluBI AGCT 5 cut(s) 125, 210, 261, 442, 853
AluI AGCT 5 cut(s) 125, 210, 261, 442, 853
Alw26I GTCTC 1 cut(s) 326
AlwI GGATC 4 cut(s) 174, 187, 579, 592
Aor51HI AGCGCT 1 cut(s) 25
AoxI GGCC 2 cut(s) 327, 482
ApeKI GCWGC 2 cut(s) 125, 210
ApoI RAATTY 2 cut(s) 524, 861
ArsI GACNNNNNNTTYG 2 cut(s) 128, 160
AseI ATTAAT 1 cut(s) 489
AspLEI GCGC 1 cut(s) 26
AspS9I GGNCC 1 cut(s) 190
AsuC2I CCSGG 1 cut(s) 184
AsuHPI GGTGA 4 cut(s) 170, 383, 398, 422
AvaII GGWCC 1 cut(s) 190
BamHI GGATCC 2 cut(s) 179, 584
BauI CACGAG 2 cut(s) 129, 756
BbrPI CACGTG 1 cut(s) 719
BbsI GAAGAC 1 cut(s) 833
BbvI GCAGC 2 cut(s) 112, 197
BccI CCATC 2 cut(s) 178, 405
BclI TGATCA 2 cut(s) 108, 559
BcnI CCSGG 1 cut(s) 184
BcoDI GTCTC 1 cut(s) 326
BfaI CTAG 3 cut(s) 78, 276, 548
BfoI RGCGCY 1 cut(s) 27
BisI GCNGC 3 cut(s) 126, 211, 915
BlpI GCTNAGC 1 cut(s) 257
BlsI GCNGC 3 cut(s) 127, 212, 916
BmcAI AGTACT 1 cut(s) 707
Bme1390I CCNGG 1 cut(s) 184
Bme18I GGWCC 1 cut(s) 190
BmeRI GACNNNNNGTC 1 cut(s) 318
BmgT120I GGNCC 1 cut(s) 190
BmiI GGNNCC 4 cut(s) 181, 192, 586, 962
BmrFI CCNGG 1 cut(s) 184
BmsI GCATC 1 cut(s) 915
BpiI GAAGAC 1 cut(s) 833
BpmI CTGGAG 1 cut(s) 933
Bpu1102I GCTNAGC 1 cut(s) 257
BpuEI CTTGAG 1 cut(s) 308
BpuMI CCSGG 1 cut(s) 184
Bsa29I ATCGAT 1 cut(s) 233
BsaAI YACGTR 1 cut(s) 719
BsaJI CCNNGG 2 cut(s) 34, 330
BsaXI ACNNNNNCTCC 2 cut(s) 275, 305
Bsc4I CCNNNNNNNGG 2 cut(s) 40, 176
Bse118I RCCGGY 1 cut(s) 598
Bse1I ACTGG 1 cut(s) 45
BseCI ATCGAT 1 cut(s) 233
BseDI CCNNGG 2 cut(s) 34, 330
BseGI GGATG 4 cut(s) 358, 367, 442, 547
BseLI CCNNNNNNNGG 2 cut(s) 40, 176
BseMII CTCAG 1 cut(s) 271
BseNI ACTGG 1 cut(s) 45
BseRI GAGGAG 3 cut(s) 277, 280, 371
BseXI GCAGC 2 cut(s) 112, 197
BsgI GTGCAG 1 cut(s) 111
BshFI GGCC 2 cut(s) 329, 484
BshVI ATCGAT 1 cut(s) 233
BsiSI CCGG 2 cut(s) 183, 599
BslFI GGGAC 2 cut(s) 152, 701
BslI CCNNNNNNNGG 2 cut(s) 40, 176
BsmAI GTCTC 1 cut(s) 326
BsmBI CGTCTC 1 cut(s) 326
BsmFI GGGAC 2 cut(s) 152, 701
BsnI GGCC 2 cut(s) 329, 484
Bsp143I GATC 5 cut(s) 108, 179, 234, 559, 584
Bsp1720I GCTNAGC 1 cut(s) 257
BspACI CCGC 3 cut(s) 250, 539, 914
BspANI GGCC 2 cut(s) 329, 484
BspCNI CTCAG 1 cut(s) 270
BspDI ATCGAT 1 cut(s) 233
BspLI GGNNCC 4 cut(s) 181, 192, 586, 962
BspPI GGATC 4 cut(s) 174, 187, 579, 592
BsrFI RCCGGY 1 cut(s) 598
BsrI ACTGG 1 cut(s) 45
BssAI RCCGGY 1 cut(s) 598
BssECI CCNNGG 2 cut(s) 34, 330
BssMI GATC 5 cut(s) 108, 179, 234, 559, 584
BssSI CACGAG 2 cut(s) 129, 756
Bst2BI CACGAG 2 cut(s) 129, 756
Bst4CI ACNGT 4 cut(s) 120, 568, 692, 710
Bst6I CTCTTC 3 cut(s) 155, 304, 948
BstBAI YACGTR 1 cut(s) 719
BstC8I GCNNGC 2 cut(s) 254, 393
BstDEI CTNAG 3 cut(s) 257, 662, 867
BstDSI CCRYGG 1 cut(s) 34
BstF5I GGATG 4 cut(s) 358, 367, 442, 547
BstH2I RGCGCY 1 cut(s) 27
BstHHI GCGC 1 cut(s) 26
BstKTI GATC 5 cut(s) 111, 182, 237, 562, 587
BstMAI GTCTC 1 cut(s) 326
BstMBI GATC 5 cut(s) 108, 179, 234, 559, 584
BstMWI GCNNNNNNNGC 3 cut(s) 122, 131, 258
BstNSI RCATGY 4 cut(s) 217, 395, 798, 846
BstSCI CCNGG 1 cut(s) 182
BstV1I GCAGC 2 cut(s) 112, 197
BstV2I GAAGAC 1 cut(s) 833
BstX2I RGATCY 2 cut(s) 179, 584
BstXI CCANNNNNNTGG 2 cut(s) 404, 957
BstYI RGATCY 2 cut(s) 179, 584
Bsu15I ATCGAT 1 cut(s) 233
BsuRI GGCC 2 cut(s) 329, 484
BsuTUI ATCGAT 1 cut(s) 233
BtgI CCRYGG 1 cut(s) 34
BtsCI GGATG 4 cut(s) 358, 367, 442, 547
Cac8I GCNNGC 2 cut(s) 254, 393
CfoI GCGC 1 cut(s) 26
Cfr10I RCCGGY 1 cut(s) 598
Cfr13I GGNCC 1 cut(s) 190
ClaI ATCGAT 1 cut(s) 233
CseI GACGC 1 cut(s) 308
Csp6I GTAC 1 cut(s) 706
CspCI CAANNNNNGTGG 2 cut(s) 474, 509
CviAII CATG 9 cut(s) 112, 214, 392, 401, 529, 740, 795, 843, 993
CviQI GTAC 1 cut(s) 706
DdeI CTNAG 3 cut(s) 257, 662, 867
DpnI GATC 5 cut(s) 110, 181, 236, 561, 586
DpnII GATC 5 cut(s) 108, 179, 234, 559, 584
DraIII CACNNNGTG 1 cut(s) 761
DriI GACNNNNNGTC 1 cut(s) 318
Eam1104I CTCTTC 3 cut(s) 155, 304, 948
Eam1105I GACNNNNNGTC 1 cut(s) 318
EarI CTCTTC 3 cut(s) 155, 304, 948
EciI GGCGGA 1 cut(s) 554
Eco32I GATATC 1 cut(s) 472
Eco47I GGWCC 1 cut(s) 190
Eco47III AGCGCT 1 cut(s) 25
Eco72I CACGTG 1 cut(s) 719
EcoRI GAATTC 1 cut(s) 524
EcoRV GATATC 1 cut(s) 472
Esp3I CGTCTC 1 cut(s) 326
FaeI CATG 9 cut(s) 115, 217, 395, 404, 532, 743, 798, 846, 996
FalI AAGNNNNNCTT 4 cut(s) 47, 79, 134, 166
FaqI GGGAC 2 cut(s) 152, 701
FatI CATG 9 cut(s) 111, 213, 391, 400, 528, 739, 794, 842, 992
FbaI TGATCA 2 cut(s) 108, 559
Fnu4HI GCNGC 3 cut(s) 126, 211, 915
FokI GGATG 4 cut(s) 365, 374, 449, 554
Fsp4HI GCNGC 3 cut(s) 126, 211, 915
FspBI CTAG 3 cut(s) 78, 276, 548
GlaI GCGC 1 cut(s) 25
GluI GCNGC 3 cut(s) 126, 211, 915
GsuI CTGGAG 1 cut(s) 933
HaeII RGCGCY 1 cut(s) 27
HaeIII GGCC 2 cut(s) 329, 484
HapII CCGG 2 cut(s) 183, 599
HgaI GACGC 1 cut(s) 308
HhaI GCGC 1 cut(s) 26
Hin1II CATG 9 cut(s) 115, 217, 395, 404, 532, 743, 798, 846, 996
Hin6I GCGC 1 cut(s) 24
HinP1I GCGC 1 cut(s) 24
HinfI GANTC 4 cut(s) 165, 269, 613, 871
HpaII CCGG 2 cut(s) 183, 599
HphI GGTGA 4 cut(s) 170, 383, 398, 422
Hpy166II GTNNAC 2 cut(s) 38, 219
Hpy188I TCNGA 2 cut(s) 455, 564
Hpy188III TCNNGA 3 cut(s) 177, 686, 950
Hpy8I GTNNAC 2 cut(s) 38, 219
HpyAV CCTTC 4 cut(s) 49, 73, 598, 990
HpyCH4III ACNGT 4 cut(s) 120, 568, 692, 710
HpyCH4IV ACGT 2 cut(s) 508, 718
HpyCH4V TGCA 9 cut(s) 8, 128, 213, 628, 657, 755, 794, 800, 807
HpyF10VI GCNNNNNNNGC 3 cut(s) 122, 131, 258
HpyF3I CTNAG 3 cut(s) 257, 662, 867
HpySE526I ACGT 2 cut(s) 508, 718
Hsp92II CATG 9 cut(s) 115, 217, 395, 404, 532, 743, 798, 846, 996
HspAI GCGC 1 cut(s) 24
Ksp22I TGATCA 2 cut(s) 108, 559
Kzo9I GATC 5 cut(s) 108, 179, 234, 559, 584
LmnI GCTCC 1 cut(s) 966
Lsp1109I GCAGC 2 cut(s) 112, 197
LweI GCATC 1 cut(s) 915
MaeI CTAG 3 cut(s) 78, 276, 548
MaeII ACGT 2 cut(s) 508, 718
MaeIII GTNAC 3 cut(s) 144, 371, 787
MalI GATC 5 cut(s) 110, 181, 236, 561, 586
MboI GATC 5 cut(s) 108, 179, 234, 559, 584
MfeI CAATTG 1 cut(s) 750
MflI RGATCY 2 cut(s) 179, 584
MluCI AATT 6 cut(s) 486, 524, 571, 648, 750, 861
MlyI GAGTC 3 cut(s) 174, 263, 865
MmeI TCCRAC 3 cut(s) 168, 318, 330
MseI TTAA 5 cut(s) 366, 489, 570, 608, 651
MslI CAYNNNNRTG 2 cut(s) 402, 405
MspI CCGG 2 cut(s) 183, 599
MspR9I CCNGG 1 cut(s) 184
MunI CAATTG 1 cut(s) 750
MwoI GCNNNNNNNGC 3 cut(s) 122, 131, 258
NciI CCSGG 1 cut(s) 184
NdeII GATC 5 cut(s) 108, 179, 234, 559, 584
NlaIII CATG 9 cut(s) 115, 217, 395, 404, 532, 743, 798, 846, 996
NlaIV GGNNCC 4 cut(s) 181, 192, 586, 962
NmeAIII GCCGAG 1 cut(s) 355
NmuCI GTSAC 2 cut(s) 144, 371
NspI RCATGY 4 cut(s) 217, 395, 798, 846
PaeI GCATGC 1 cut(s) 395
PfeI GAWTC 1 cut(s) 613
PkrI GCNGC 3 cut(s) 127, 212, 916
PleI GAGTC 3 cut(s) 173, 263, 865
PmaCI CACGTG 1 cut(s) 719
PmlI CACGTG 1 cut(s) 719
PpsI GAGTC 3 cut(s) 173, 263, 865
Ppu21I YACGTR 1 cut(s) 719
PshBI ATTAAT 1 cut(s) 489
PspCI CACGTG 1 cut(s) 719
PspN4I GGNNCC 4 cut(s) 181, 192, 586, 962
PspPI GGNCC 1 cut(s) 190
PsuI RGATCY 2 cut(s) 179, 584
RsaI GTAC 1 cut(s) 707
RsaNI GTAC 1 cut(s) 706
RseI CAYNNNNRTG 2 cut(s) 402, 405
SaqAI TTAA 5 cut(s) 366, 489, 570, 608, 651
SatI GCNGC 3 cut(s) 126, 211, 915
Sau3AI GATC 5 cut(s) 108, 179, 234, 559, 584
Sau96I GGNCC 1 cut(s) 190
ScaI AGTACT 1 cut(s) 707
SchI GAGTC 3 cut(s) 174, 263, 865
ScrFI CCNGG 1 cut(s) 184
SfaNI GCATC 1 cut(s) 915
SinI GGWCC 1 cut(s) 190
SmiMI CAYNNNNRTG 2 cut(s) 402, 405
SmlI CTYRAG 1 cut(s) 323
SmoI CTYRAG 1 cut(s) 323
SphI GCATGC 1 cut(s) 395
Sse9I AATT 6 cut(s) 486, 524, 571, 648, 750, 861
SsiI CCGC 3 cut(s) 250, 539, 914
SspMI CTAG 3 cut(s) 78, 276, 548
StyD4I CCNGG 1 cut(s) 182
TaaI ACNGT 4 cut(s) 120, 568, 692, 710
TaiI ACGT 2 cut(s) 511, 721
TaqI TCGA 3 cut(s) 233, 812, 974
TasI AATT 6 cut(s) 486, 524, 571, 648, 750, 861
TatI WGTACW 1 cut(s) 705
TauI GCSGC 1 cut(s) 917
TfiI GAWTC 1 cut(s) 613
Tru1I TTAA 5 cut(s) 366, 489, 570, 608, 651
Tru9I TTAA 5 cut(s) 366, 489, 570, 608, 651
TseFI GTSAC 2 cut(s) 144, 371
TseI GCWGC 2 cut(s) 125, 210
Tsp45I GTSAC 2 cut(s) 144, 371
TspDTI ATGAA 4 cut(s) 55, 517, 863, 872
TspGWI ACGGA 1 cut(s) 23
VpaK11BI GGWCC 1 cut(s) 190
VspI ATTAAT 1 cut(s) 489
XapI RAATTY 2 cut(s) 524, 861
XceI RCATGY 4 cut(s) 217, 395, 798, 846
XcmI CCANNNNNNNNNTGG 1 cut(s) 404
XspI CTAG 3 cut(s) 78, 276, 548
ZrmI AGTACT 1 cut(s) 707
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.