MD12G1002500.v1.1

HNH endonuclease

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr12
OG0012307
Physical Location & Seq
Reverse (-)
429247 .. 433435
4189 bp
Loading structure...
UTR
Exon/CDS
Intron
MD12G1002500.v1.1.491

Sequence Viewer

Length: 927 bp
ATGGCTGCACAGTTGTCGTCGACAGCACAAGGAGGAGGAGGACGACGAGTGAAGTTGGCCTGTAGTTGGGGCTGGGGGCTGGGGTTGGGGTTGGATCAAAACATGCAGCTCTTCACATCAATCCAACCCCACAAGCTTCTCAGGCGCAGGCGCTGCCTCAGATCATTGGATTCTACCAGGCTTTACTCTTCGTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTAGGAACAAGGCGAAACGCTTCAACTCCGAGGCCCATTTGTTTGTCGGTGGTGGTGATCATGATGAGGGAGACGGTGTTTATGGCGGTGACGACGATGGTGGTCATGTTGAGTACTATGAAAGGGACGATGACTTGTCTTGCTTCAGAGGTCTCGTCTTGGATATCTCCTACAGGCCGGTTAATGTTGTATGCTGGAAGCGTGCTATTTGCTTGGAATTCATGGAGAAGGCTGATGTACTTGAATACTATGACCAGACTGTAAATTCCCCAAGCGGATCCTACTACATCCCGGCTGTCCTAAGGGTTCCCCATTTACTGCAGATTGTAAAGAGAAGAAGAATTAAGAACAGTCTCAGTCGTAAAAATATACTATGTCGGGACAGTTTCACTTGTCAATACTGCTCTTCACGTGAAAACTTGACCATTGATCATGTTTTCCCAATTGCACGCGGTGGACAGTGGAAGTGGGATAATCTGGTCACCGCATGTGCAAGGTGCAACTCGAAGAAAGGTCAGAAGACGTTGGAAGAAGCAAATATGAAGCTGATGAAAGTCCCCAAGGCTCCAAAAGACTATGACATACTTGCAATACCACTAACAAGTGCAGCAATTAAAATGCTGAAAATGAGAAAGGGAACTCCAGAAGAGTGGCTCCAATATCTATCAAATTCCAAGCCCCCGCCTTCTTCAGAGCCATGA
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

309

Amino Acids

34.54

Weight (kDa)

9.29

Isoelectric Point (pI)

67.15

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
HNH_5 PF14279 207 - 258 2.3e-17 HNH endonuclease
HNH PF01844 207 - 248 3e-13 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)
AccI GTMKAC 1 cut(s) 20
AccII CGCG 1 cut(s) 678
AciI CCGC 5 cut(s) 312, 501, 678, 711, 908
AclWI GGATC 3 cut(s) 102, 498, 511
AcsI RAATTY 3 cut(s) 443, 490, 895
AcuI CTGAAG 2 cut(s) 355, 900
AcvI CACGTG 1 cut(s) 638
AdeI CACNNNGTG 1 cut(s) 680
AfaI GTAC 2 cut(s) 341, 465
AfiI CCNNNNNNNGG 1 cut(s) 66
AgsI TTSAA 2 cut(s) 250, 470
AjnI CCWGG 1 cut(s) 176
AluBI AGCT 3 cut(s) 109, 136, 772
AluI AGCT 3 cut(s) 109, 136, 772
Alw26I GTCTC 3 cut(s) 291, 383, 584
AlwI GGATC 3 cut(s) 102, 498, 511
AlwNI CAGNNNCTG 1 cut(s) 153
AoxI GGCC 3 cut(s) 57, 258, 401
ApeKI GCWGC 4 cut(s) 5, 106, 153, 833
ApoI RAATTY 3 cut(s) 443, 490, 895
Asp700I GAANNNNTTC 1 cut(s) 245
AspLEI GCGC 2 cut(s) 147, 153
AspS9I GGNCC 1 cut(s) 259
AsuC2I CCSGG 1 cut(s) 518
AsuHPI GGTGA 3 cut(s) 293, 326, 700
AxyI CCTNAGG 1 cut(s) 527
BamHI GGATCC 1 cut(s) 503
BbrPI CACGTG 1 cut(s) 638
BbsI GAAGAC 2 cut(s) 186, 752
BbvI GCAGC 3 cut(s) 118, 140, 845
BccI CCATC 1 cut(s) 317
BcgI CGANNNNNNTGC 1 cut(s) 31
BciT130I CCWGG 1 cut(s) 178
BclI TGATCA 2 cut(s) 283, 655
BcnI CCSGG 1 cut(s) 518
BcoDI GTCTC 3 cut(s) 291, 383, 584
BfaI CTAG 1 cut(s) 228
BfmI CTRYAG 3 cut(s) 61, 397, 545
BfoI RGCGCY 1 cut(s) 154
BisI GCNGC 4 cut(s) 6, 107, 154, 834
BlsI GCNGC 4 cut(s) 7, 108, 155, 835
BmcAI AGTACT 1 cut(s) 341
Bme1390I CCNGG 2 cut(s) 178, 518
BmgT120I GGNCC 1 cut(s) 259
BmiI GGNNCC 4 cut(s) 505, 534, 792, 881
BmrFI CCNGG 2 cut(s) 178, 518
BpiI GAAGAC 2 cut(s) 186, 752
BpmI CTGGAG 1 cut(s) 852
BpuMI CCSGG 1 cut(s) 518
BsaAI YACGTR 1 cut(s) 638
BsaI GGTCTC 1 cut(s) 383
BsaJI CCNNGG 2 cut(s) 255, 786
BsaXI ACNNNNNCTCC 2 cut(s) 288, 318
Bsc4I CCNNNNNNNGG 1 cut(s) 66
Bse118I RCCGGY 1 cut(s) 403
Bse21I CCTNAGG 1 cut(s) 527
BseBI CCWGG 1 cut(s) 178
BseDI CCNNGG 2 cut(s) 255, 786
BseGI GGATG 1 cut(s) 513
BseLI CCNNNNNNNGG 1 cut(s) 66
BseMII CTCAG 3 cut(s) 154, 172, 595
BseRI GAGGAG 2 cut(s) 48, 51
BseXI GCAGC 3 cut(s) 118, 140, 845
BseYI CCCAGC 2 cut(s) 72, 79
BsgI GTGCAG 1 cut(s) 852
Bsh1236I CGCG 1 cut(s) 678
BshFI GGCC 3 cut(s) 59, 260, 403
BsiSI CCGG 2 cut(s) 404, 518
BslFI GGGAC 3 cut(s) 365, 620, 767
BslI CCNNNNNNNGG 1 cut(s) 66
BsmAI GTCTC 3 cut(s) 291, 383, 584
BsmBI CGTCTC 1 cut(s) 291
BsmFI GGGAC 3 cut(s) 365, 620, 767
BsnI GGCC 3 cut(s) 59, 260, 403
Bso31I GGTCTC 1 cut(s) 383
Bsp143I GATC 5 cut(s) 94, 161, 283, 503, 655
BspACI CCGC 5 cut(s) 312, 501, 678, 711, 908
BspANI GGCC 3 cut(s) 59, 260, 403
BspCNI CTCAG 3 cut(s) 153, 171, 594
BspFNI CGCG 1 cut(s) 678
BspHI TCATGA 1 cut(s) 286
BspLI GGNNCC 4 cut(s) 505, 534, 792, 881
BspMAI CTGCAG 1 cut(s) 549
BspPI GGATC 3 cut(s) 102, 498, 511
BspQI GCTCTTC 2 cut(s) 116, 637
BspTNI GGTCTC 1 cut(s) 383
BsrFI RCCGGY 1 cut(s) 403
BssAI RCCGGY 1 cut(s) 403
BssECI CCNNGG 2 cut(s) 255, 786
BssMI GATC 5 cut(s) 94, 161, 283, 503, 655
BssT1I CCWWGG 1 cut(s) 786
Bst2UI CCWGG 1 cut(s) 178
Bst4CI ACNGT 6 cut(s) 12, 302, 487, 578, 611, 687
Bst6I CTCTTC 4 cut(s) 116, 193, 637, 867
BstAPI GCANNNNNTGC 1 cut(s) 153
BstBAI YACGTR 1 cut(s) 638
BstC8I GCNNGC 3 cut(s) 149, 429, 676
BstDEI CTNAG 4 cut(s) 140, 158, 527, 581
BstEII GGTNACC 1 cut(s) 706
BstF5I GGATG 1 cut(s) 513
BstFNI CGCG 1 cut(s) 678
BstH2I RGCGCY 1 cut(s) 154
BstHHI GCGC 2 cut(s) 147, 153
BstKTI GATC 5 cut(s) 97, 164, 286, 506, 658
BstMAI GTCTC 3 cut(s) 291, 383, 584
BstMBI GATC 5 cut(s) 94, 161, 283, 503, 655
BstMWI GCNNNNNNNGC 2 cut(s) 142, 153
BstNI CCWGG 1 cut(s) 178
BstNSI RCATGY 2 cut(s) 106, 717
BstPI GGTNACC 1 cut(s) 706
BstSCI CCNGG 2 cut(s) 176, 516
BstSFI CTRYAG 3 cut(s) 61, 397, 545
BstUI CGCG 1 cut(s) 678
BstV1I GCAGC 3 cut(s) 118, 140, 845
BstV2I GAAGAC 2 cut(s) 186, 752
BstX2I RGATCY 1 cut(s) 503
BstXI CCANNNNNNTGG 1 cut(s) 876
BstYI RGATCY 1 cut(s) 503
Bsu36I CCTNAGG 1 cut(s) 527
BsuRI GGCC 3 cut(s) 59, 260, 403
BtsCI GGATG 1 cut(s) 513
BtsIMutI CAGTG 1 cut(s) 692
Cac8I GCNNGC 3 cut(s) 149, 429, 676
CaiI CAGNNNCTG 1 cut(s) 153
CciI TCATGA 1 cut(s) 286
CfoI GCGC 2 cut(s) 147, 153
Cfr10I RCCGGY 1 cut(s) 403
Cfr13I GGNCC 1 cut(s) 259
Csp6I GTAC 2 cut(s) 340, 464
CviAII CATG 7 cut(s) 103, 287, 332, 448, 659, 714, 924
CviQI GTAC 2 cut(s) 340, 464
DdeI CTNAG 4 cut(s) 140, 158, 527, 581
DpnI GATC 5 cut(s) 96, 163, 285, 505, 657
DpnII GATC 5 cut(s) 94, 161, 283, 503, 655
DraIII CACNNNGTG 1 cut(s) 680
Eam1104I CTCTTC 4 cut(s) 116, 193, 637, 867
EarI CTCTTC 4 cut(s) 116, 193, 637, 867
Eco130I CCWWGG 1 cut(s) 786
Eco31I GGTCTC 1 cut(s) 383
Eco32I GATATC 1 cut(s) 391
Eco57I CTGAAG 2 cut(s) 355, 900
Eco72I CACGTG 1 cut(s) 638
Eco81I CCTNAGG 1 cut(s) 527
Eco91I GGTNACC 1 cut(s) 706
EcoO65I GGTNACC 1 cut(s) 706
EcoRI GAATTC 1 cut(s) 443
EcoRII CCWGG 1 cut(s) 176
EcoRV GATATC 1 cut(s) 391
EcoT14I CCWWGG 1 cut(s) 786
ErhI CCWWGG 1 cut(s) 786
Esp3I CGTCTC 1 cut(s) 291
FaeI CATG 7 cut(s) 106, 290, 335, 451, 662, 717, 927
FaqI GGGAC 3 cut(s) 365, 620, 767
FatI CATG 7 cut(s) 102, 286, 331, 447, 658, 713, 923
FauI CCCGC 1 cut(s) 915
FbaI TGATCA 2 cut(s) 283, 655
FblI GTMKAC 1 cut(s) 20
Fnu4HI GCNGC 4 cut(s) 6, 107, 154, 834
FokI GGATG 1 cut(s) 500
Fsp4HI GCNGC 4 cut(s) 6, 107, 154, 834
FspBI CTAG 1 cut(s) 228
GlaI GCGC 2 cut(s) 146, 152
GluI GCNGC 4 cut(s) 6, 107, 154, 834
GsaI CCCAGC 2 cut(s) 76, 83
GsuI CTGGAG 1 cut(s) 852
HaeII RGCGCY 1 cut(s) 154
HaeIII GGCC 3 cut(s) 59, 260, 403
HapII CCGG 2 cut(s) 404, 518
HhaI GCGC 2 cut(s) 147, 153
Hin1II CATG 7 cut(s) 106, 290, 335, 451, 662, 717, 927
Hin6I GCGC 2 cut(s) 145, 151
HinP1I GCGC 2 cut(s) 145, 151
HincII GTYRAC 1 cut(s) 21
HindII GTYRAC 1 cut(s) 21
HindIII AAGCTT 1 cut(s) 134
HinfI GANTC 1 cut(s) 170
HpaII CCGG 2 cut(s) 404, 518
HphI GGTGA 3 cut(s) 293, 326, 700
Hpy166II GTNNAC 2 cut(s) 21, 683
Hpy188I TCNGA 5 cut(s) 161, 256, 374, 744, 919
Hpy188III TCNNGA 3 cut(s) 287, 605, 869
Hpy8I GTNNAC 2 cut(s) 21, 683
Hpy99I CGWCG 3 cut(s) 22, 48, 323
HpyAV CCTTC 2 cut(s) 448, 921
HpyCH4III ACNGT 6 cut(s) 12, 302, 487, 578, 611, 687
HpyCH4IV ACGT 2 cut(s) 637, 749
HpyCH4V TGCA 8 cut(s) 8, 106, 547, 674, 719, 726, 815, 833
HpyF10VI GCNNNNNNNGC 2 cut(s) 142, 153
HpyF3I CTNAG 4 cut(s) 140, 158, 527, 581
HpySE526I ACGT 2 cut(s) 637, 749
Hsp92II CATG 7 cut(s) 106, 290, 335, 451, 662, 717, 927
HspAI GCGC 2 cut(s) 145, 151
Ksp22I TGATCA 2 cut(s) 283, 655
Kzo9I GATC 5 cut(s) 94, 161, 283, 503, 655
LguI GCTCTTC 2 cut(s) 116, 637
LmnI GCTCC 2 cut(s) 796, 885
Lsp1109I GCAGC 3 cut(s) 118, 140, 845
MaeI CTAG 1 cut(s) 228
MaeII ACGT 2 cut(s) 637, 749
MaeIII GTNAC 2 cut(s) 314, 706
MalI GATC 5 cut(s) 96, 163, 285, 505, 657
MboI GATC 5 cut(s) 94, 161, 283, 503, 655
MfeI CAATTG 1 cut(s) 669
MflI RGATCY 1 cut(s) 503
MluCI AATT 6 cut(s) 443, 490, 567, 669, 837, 895
MmeI TCCRAC 3 cut(s) 72, 148, 732
MnlI CCTC 7 cut(s) 26, 29, 32, 167, 250, 286, 368
MroXI GAANNNNTTC 1 cut(s) 245
MseI TTAA 3 cut(s) 408, 570, 840
MspI CCGG 2 cut(s) 404, 518
MspR9I CCNGG 2 cut(s) 178, 518
MunI CAATTG 1 cut(s) 669
MvaI CCWGG 1 cut(s) 178
MvnI CGCG 1 cut(s) 678
MwoI GCNNNNNNNGC 2 cut(s) 142, 153
NciI CCSGG 1 cut(s) 518
NdeII GATC 5 cut(s) 94, 161, 283, 503, 655
NlaIII CATG 7 cut(s) 106, 290, 335, 451, 662, 717, 927
NlaIV GGNNCC 4 cut(s) 505, 534, 792, 881
NmuCI GTSAC 2 cut(s) 314, 706
NspI RCATGY 2 cut(s) 106, 717
PagI TCATGA 1 cut(s) 286
PciSI GCTCTTC 2 cut(s) 116, 637
PdmI GAANNNNTTC 1 cut(s) 245
PfeI GAWTC 1 cut(s) 170
PkrI GCNGC 4 cut(s) 7, 108, 155, 835
PmaCI CACGTG 1 cut(s) 638
PmlI CACGTG 1 cut(s) 638
Ppu21I YACGTR 1 cut(s) 638
Psp6I CCWGG 1 cut(s) 176
PspCI CACGTG 1 cut(s) 638
PspEI GGTNACC 1 cut(s) 706
PspFI CCCAGC 2 cut(s) 72, 79
PspGI CCWGG 1 cut(s) 176
PspN4I GGNNCC 4 cut(s) 505, 534, 792, 881
PspPI GGNCC 1 cut(s) 259
PstI CTGCAG 1 cut(s) 549
PstNI CAGNNNCTG 1 cut(s) 153
PsuI RGATCY 1 cut(s) 503
RsaI GTAC 2 cut(s) 341, 465
RsaNI GTAC 2 cut(s) 340, 464
SalI GTCGAC 1 cut(s) 19
SapI GCTCTTC 2 cut(s) 116, 637
SaqAI TTAA 3 cut(s) 408, 570, 840
SatI GCNGC 4 cut(s) 6, 107, 154, 834
Sau3AI GATC 5 cut(s) 94, 161, 283, 503, 655
Sau96I GGNCC 1 cut(s) 259
ScaI AGTACT 1 cut(s) 341
ScrFI CCNGG 2 cut(s) 178, 518
SetI ASST 8 cut(s) 111, 138, 379, 640, 725, 742, 752, 774
SfcI CTRYAG 3 cut(s) 61, 397, 545
Sse9I AATT 6 cut(s) 443, 490, 567, 669, 837, 895
SsiI CCGC 5 cut(s) 312, 501, 678, 711, 908
SspMI CTAG 1 cut(s) 228
StyD4I CCNGG 2 cut(s) 176, 516
StyI CCWWGG 1 cut(s) 786
TaaI ACNGT 6 cut(s) 12, 302, 487, 578, 611, 687
TaiI ACGT 2 cut(s) 640, 752
TaqI TCGA 2 cut(s) 20, 731
TasI AATT 6 cut(s) 443, 490, 567, 669, 837, 895
TatI WGTACW 2 cut(s) 339, 463
TfiI GAWTC 1 cut(s) 170
Tru1I TTAA 3 cut(s) 408, 570, 840
Tru9I TTAA 3 cut(s) 408, 570, 840
TscAI CASTG 1 cut(s) 692
TseFI GTSAC 2 cut(s) 314, 706
TseI GCWGC 4 cut(s) 5, 106, 153, 833
Tsp45I GTSAC 2 cut(s) 314, 706
TspDTI ATGAA 4 cut(s) 360, 436, 782, 791
TspRI CASTG 1 cut(s) 692
XapI RAATTY 3 cut(s) 443, 490, 895
XceI RCATGY 2 cut(s) 106, 717
XmiI GTMKAC 1 cut(s) 20
XmnI GAANNNNTTC 1 cut(s) 245
XspI CTAG 1 cut(s) 228
ZrmI AGTACT 1 cut(s) 341
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.