AT2G23840

HNH endonuclease

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
arabidopsis_thaliana
2
OG0012307
Physical Location & Seq
Reverse (-)
10153586 .. 10155699
2114 bp
Loading structure...
UTR
Exon/CDS
Intron
AT2G23840.1

Sequence Viewer

Length: 855 bp
ATGGCACATTTCTCTGCTAGACTTAAGCTTCTCTCAAGCAACGATGGATTATCTTTTGGTGTAGATTCGAGAGACCAATTTCGGCAGAGCCTTTACATGGCCGGTGGTGGATCTCCTTTGGTTCCAATACGCATGAGCCGACTAAAGTTTTGTGCTAGAATCTTCTCATCTTACTCTTTTCCTTATAAGAGAAAGAAAATTAGGGATCTCGATAACACCGAGAAAAATCTTGATATTGACGAAGACAACGATGAGTGGGATTTTGATGGAGACGATGATGGTTTAGAGACTGATGATCATCTTTCTTGCTTCAGAGGCTTGGTTCTTGATATTTCATACAGGCCGGTCAATGTGGTTTGCTGGAAGCGCGCAATCTGCCTCGAGTACATGGATAAGGCCGACGTTTTGGAGTATTATGATCAGACTGTTAGTTCTCCTACGGGTTCGTTCTACATACCAGCTGTATTAAGGGTTCCACATTTGCTTCAGGTTGTTAAAAGAAGAAGAGTGAAAAACTCACTTAGCCGTAAAAATATTTTACTACGAGACGATTATACTTGTCAATATTGTTCTTCGCGAGAAAATTTGACCATTGATCATGTTATGCCGGTTTCTCGAGGTGGAGAATGGACTTGGCAAAACCTAGTAGCTGCATGTTCAAGATGCAACTCAAGGAAAGGACAGAAGACAGCAGACGAAGCACACATGAAGTTACTTAAGGTCCCAAAGGAACCAAAAGACTATGACATTGTTGCAATACCATTAACAAATGCAGCTATAAGGATGCTGAGATCGAATAAGGGCATGCCAGAAGAATGGCGTCAGTATCTGGCAAAACCTTTATCCGAGACATAG
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

284

Amino Acids

32.72

Weight (kDa)

8.53

Isoelectric Point (pI)

53.89

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
HNH_5 PF14279 187 - 238 1.5e-16 HNH endonuclease
HNH PF01844 187 - 228 3.6e-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)
AanI TTATAA 1 cut(s) 186
AccII CGCG 2 cut(s) 369, 577
AclWI GGATC 2 cut(s) 118, 213
AcoI YGGCCR 1 cut(s) 99
AcsI RAATTY 1 cut(s) 583
AcuI CTGAAG 2 cut(s) 295, 470
AcyI GRCGYC 1 cut(s) 820
AfaI GTAC 1 cut(s) 386
AfiI CCNNNNNNNGG 1 cut(s) 97
AflII CTTAAG 2 cut(s) 23, 716
AgsI TTSAA 1 cut(s) 660
AluBI AGCT 4 cut(s) 28, 461, 650, 776
AluI AGCT 4 cut(s) 28, 461, 650, 776
Alw26I GTCTC 5 cut(s) 66, 264, 281, 540, 842
AlwI GGATC 2 cut(s) 118, 213
AlwNI CAGNNNCTG 1 cut(s) 829
Ama87I CYCGRG 2 cut(s) 380, 615
AoxI GGCC 3 cut(s) 99, 341, 396
ApeKI GCWGC 2 cut(s) 650, 773
ApoI RAATTY 1 cut(s) 583
ArsI GACNNNNNNTTYG 2 cut(s) 132, 164
AspLEI GCGC 2 cut(s) 369, 371
AspS9I GGNCC 1 cut(s) 721
AvaI CYCGRG 2 cut(s) 380, 615
AvaII GGWCC 1 cut(s) 721
BbsI GAAGAC 2 cut(s) 249, 692
BbvI GCAGC 2 cut(s) 637, 785
BccI CCATC 3 cut(s) 38, 260, 272
BceAI ACGGC 1 cut(s) 510
BclI TGATCA 3 cut(s) 295, 418, 595
BcoDI GTCTC 5 cut(s) 66, 264, 281, 540, 842
BfaI CTAG 3 cut(s) 18, 156, 644
BfrI CTTAAG 2 cut(s) 23, 716
BisI GCNGC 2 cut(s) 651, 774
BlsI GCNGC 2 cut(s) 652, 775
Bme18I GGWCC 1 cut(s) 721
BmeT110I CYCGRG 2 cut(s) 380, 615
BmgT120I GGNCC 1 cut(s) 721
BmiI GGNNCC 4 cut(s) 123, 474, 723, 732
BmsI GCATC 2 cut(s) 653, 774
BpiI GAAGAC 2 cut(s) 249, 692
BpuEI CTTGAG 2 cut(s) 19, 655
BsaBI GATNNNNATC 1 cut(s) 297
BsaHI GRCGYC 1 cut(s) 820
BsaI GGTCTC 1 cut(s) 66
Bsc4I CCNNNNNNNGG 1 cut(s) 97
Bse118I RCCGGY 3 cut(s) 101, 343, 607
Bse8I GATNNNNATC 1 cut(s) 297
BseGI GGATG 1 cut(s) 789
BseJI GATNNNNATC 1 cut(s) 297
BseLI CCNNNNNNNGG 1 cut(s) 97
BseMII CTCAG 1 cut(s) 779
BsePI GCGCGC 1 cut(s) 367
BseXI GCAGC 2 cut(s) 637, 785
Bsh1236I CGCG 2 cut(s) 369, 577
BshFI GGCC 3 cut(s) 101, 343, 398
BsiHKCI CYCGRG 2 cut(s) 380, 615
BsiSI CCGG 3 cut(s) 102, 344, 608
BslFI GGGAC 1 cut(s) 707
BslI CCNNNNNNNGG 1 cut(s) 97
BsmAI GTCTC 5 cut(s) 66, 264, 281, 540, 842
BsmBI CGTCTC 2 cut(s) 264, 540
BsmFI GGGAC 1 cut(s) 707
BsnI GGCC 3 cut(s) 101, 343, 398
Bso31I GGTCTC 1 cut(s) 66
BsoBI CYCGRG 2 cut(s) 380, 615
Bsp143I GATC 6 cut(s) 110, 205, 295, 418, 595, 791
Bsp68I TCGCGA 1 cut(s) 577
BspANI GGCC 3 cut(s) 101, 343, 398
BspCNI CTCAG 1 cut(s) 780
BspFNI CGCG 2 cut(s) 369, 577
BspLI GGNNCC 4 cut(s) 123, 474, 723, 732
BspPI GGATC 2 cut(s) 118, 213
BspTI CTTAAG 2 cut(s) 23, 716
BspTNI GGTCTC 1 cut(s) 66
BsrFI RCCGGY 3 cut(s) 101, 343, 607
BssAI RCCGGY 3 cut(s) 101, 343, 607
BssHII GCGCGC 1 cut(s) 367
BssMI GATC 6 cut(s) 110, 205, 295, 418, 595, 791
BssNI GRCGYC 1 cut(s) 820
Bst4CI ACNGT 1 cut(s) 427
Bst6I CTCTTC 1 cut(s) 499
BstACI GRCGYC 1 cut(s) 820
BstAFI CTTAAG 2 cut(s) 23, 716
BstC8I GCNNGC 2 cut(s) 369, 806
BstDEI CTNAG 2 cut(s) 521, 788
BstF5I GGATG 1 cut(s) 789
BstFNI CGCG 2 cut(s) 369, 577
BstHHI GCGC 2 cut(s) 369, 371
BstKTI GATC 6 cut(s) 113, 208, 298, 421, 598, 794
BstMAI GTCTC 5 cut(s) 66, 264, 281, 540, 842
BstMBI GATC 6 cut(s) 110, 205, 295, 418, 595, 791
BstMWI GCNNNNNNNGC 4 cut(s) 315, 366, 375, 698
BstNSI RCATGY 2 cut(s) 657, 808
BstUI CGCG 2 cut(s) 369, 577
BstV1I GCAGC 2 cut(s) 637, 785
BstV2I GAAGAC 2 cut(s) 249, 692
BstX2I RGATCY 2 cut(s) 110, 205
BstXI CCANNNNNNTGG 1 cut(s) 816
BstYI RGATCY 2 cut(s) 110, 205
BsuRI GGCC 3 cut(s) 101, 343, 398
BtsCI GGATG 1 cut(s) 789
BtuMI TCGCGA 1 cut(s) 577
Cac8I GCNNGC 2 cut(s) 369, 806
CaiI CAGNNNCTG 1 cut(s) 829
CfoI GCGC 2 cut(s) 369, 371
Cfr10I RCCGGY 3 cut(s) 101, 343, 607
Cfr13I GGNCC 1 cut(s) 721
CseI GACGC 1 cut(s) 809
Csp6I GTAC 1 cut(s) 385
CviAII CATG 7 cut(s) 97, 133, 388, 599, 654, 706, 805
CviQI GTAC 1 cut(s) 385
DdeI CTNAG 2 cut(s) 521, 788
DpnI GATC 6 cut(s) 112, 207, 297, 420, 597, 793
DpnII GATC 6 cut(s) 110, 205, 295, 418, 595, 791
EaeI YGGCCR 1 cut(s) 99
Eam1104I CTCTTC 1 cut(s) 499
EarI CTCTTC 1 cut(s) 499
Eco31I GGTCTC 1 cut(s) 66
Eco47I GGWCC 1 cut(s) 721
Eco57I CTGAAG 2 cut(s) 295, 470
Eco88I CYCGRG 2 cut(s) 380, 615
EcoO109I RGGNCCY 1 cut(s) 721
Esp3I CGTCTC 2 cut(s) 264, 540
FaeI CATG 7 cut(s) 100, 136, 391, 602, 657, 709, 808
FaqI GGGAC 1 cut(s) 707
FatI CATG 7 cut(s) 96, 132, 387, 598, 653, 705, 804
FbaI TGATCA 3 cut(s) 295, 418, 595
Fnu4HI GCNGC 2 cut(s) 651, 774
FokI GGATG 1 cut(s) 796
Fsp4HI GCNGC 2 cut(s) 651, 774
FspBI CTAG 3 cut(s) 18, 156, 644
GlaI GCGC 2 cut(s) 368, 370
GluI GCNGC 2 cut(s) 651, 774
HaeIII GGCC 3 cut(s) 101, 343, 398
HapII CCGG 3 cut(s) 102, 344, 608
HgaI GACGC 1 cut(s) 809
HhaI GCGC 2 cut(s) 369, 371
Hin1I GRCGYC 1 cut(s) 820
Hin1II CATG 7 cut(s) 100, 136, 391, 602, 657, 709, 808
Hin6I GCGC 2 cut(s) 367, 369
HinP1I GCGC 2 cut(s) 367, 369
HindIII AAGCTT 1 cut(s) 26
HinfI GANTC 2 cut(s) 65, 159
HpaII CCGG 3 cut(s) 102, 344, 608
Hpy188I TCNGA 3 cut(s) 314, 423, 847
Hpy188III TCNNGA 7 cut(s) 69, 209, 230, 326, 576, 615, 660
Hpy99I CGWCG 1 cut(s) 404
HpyCH4III ACNGT 1 cut(s) 427
HpyCH4IV ACGT 1 cut(s) 402
HpyCH4V TGCA 4 cut(s) 653, 666, 755, 773
HpyF10VI GCNNNNNNNGC 4 cut(s) 315, 366, 375, 698
HpyF3I CTNAG 2 cut(s) 521, 788
HpySE526I ACGT 1 cut(s) 402
Hsp92I GRCGYC 1 cut(s) 820
Hsp92II CATG 7 cut(s) 100, 136, 391, 602, 657, 709, 808
HspAI GCGC 2 cut(s) 367, 369
Ksp22I TGATCA 3 cut(s) 295, 418, 595
Kzo9I GATC 6 cut(s) 110, 205, 295, 418, 595, 791
LpnPI CCDG 9 cut(s) 115, 325, 346, 357, 471, 473, 621, 815, 822
Lsp1109I GCAGC 2 cut(s) 637, 785
LweI GCATC 2 cut(s) 653, 774
MaeI CTAG 3 cut(s) 18, 156, 644
MaeII ACGT 1 cut(s) 402
MaeIII GTNAC 1 cut(s) 711
MalI GATC 6 cut(s) 112, 207, 297, 420, 597, 793
MboI GATC 6 cut(s) 110, 205, 295, 418, 595, 791
MboII GAAGA 7 cut(s) 154, 254, 513, 516, 564, 697, 824
MflI RGATCY 2 cut(s) 110, 205
MluCI AATT 3 cut(s) 77, 198, 583
MnlI CCTC 3 cut(s) 308, 389, 611
MseI TTAA 5 cut(s) 24, 467, 495, 717, 764
MspA1I CMGCKG 1 cut(s) 461
MspCI CTTAAG 2 cut(s) 23, 716
MspI CCGG 3 cut(s) 102, 344, 608
MvnI CGCG 2 cut(s) 369, 577
MwoI GCNNNNNNNGC 4 cut(s) 315, 366, 375, 698
NdeII GATC 6 cut(s) 110, 205, 295, 418, 595, 791
NlaIII CATG 7 cut(s) 100, 136, 391, 602, 657, 709, 808
NlaIV GGNNCC 4 cut(s) 123, 474, 723, 732
NruI TCGCGA 1 cut(s) 577
NspI RCATGY 2 cut(s) 657, 808
PaeI GCATGC 1 cut(s) 808
PaeR7I CTCGAG 2 cut(s) 380, 615
PauI GCGCGC 1 cut(s) 367
PcsI WCGNNNNNNNCGW 3 cut(s) 136, 216, 246
PfeI GAWTC 2 cut(s) 65, 159
PkrI GCNGC 2 cut(s) 652, 775
PpuMI RGGWCCY 1 cut(s) 721
PsiI TTATAA 1 cut(s) 186
Psp5II RGGWCCY 1 cut(s) 721
PspN4I GGNNCC 4 cut(s) 123, 474, 723, 732
PspPI GGNCC 1 cut(s) 721
PspPPI RGGWCCY 1 cut(s) 721
PspXI VCTCGAGB 1 cut(s) 380
PsrI GAACNNNNNNTAC 2 cut(s) 456, 488
PstNI CAGNNNCTG 1 cut(s) 829
PsuI RGATCY 2 cut(s) 110, 205
PteI GCGCGC 1 cut(s) 367
PvuII CAGCTG 1 cut(s) 461
RruI TCGCGA 1 cut(s) 577
RsaI GTAC 1 cut(s) 386
RsaNI GTAC 1 cut(s) 385
SaqAI TTAA 5 cut(s) 24, 467, 495, 717, 764
SatI GCNGC 2 cut(s) 651, 774
Sau3AI GATC 6 cut(s) 110, 205, 295, 418, 595, 791
Sau96I GGNCC 1 cut(s) 721
SfaNI GCATC 2 cut(s) 653, 774
Sfr274I CTCGAG 2 cut(s) 380, 615
SinI GGWCC 1 cut(s) 721
SlaI CTCGAG 2 cut(s) 380, 615
SmlI CTYRAG 6 cut(s) 23, 34, 380, 615, 670, 716
SmoI CTYRAG 6 cut(s) 23, 34, 380, 615, 670, 716
SphI GCATGC 1 cut(s) 808
Sse9I AATT 3 cut(s) 77, 198, 583
SspI AATATT 2 cut(s) 535, 566
SspMI CTAG 3 cut(s) 18, 156, 644
TaaI ACNGT 1 cut(s) 427
TaiI ACGT 1 cut(s) 405
TaqI TCGA 5 cut(s) 68, 210, 381, 616, 794
TasI AATT 3 cut(s) 77, 198, 583
TatI WGTACW 1 cut(s) 384
TfiI GAWTC 2 cut(s) 65, 159
Tru1I TTAA 5 cut(s) 24, 467, 495, 717, 764
Tru9I TTAA 5 cut(s) 24, 467, 495, 717, 764
TseI GCWGC 2 cut(s) 650, 773
TspDTI ATGAA 2 cut(s) 324, 722
Vha464I CTTAAG 2 cut(s) 23, 716
VpaK11BI GGWCC 1 cut(s) 721
XapI RAATTY 1 cut(s) 583
XceI RCATGY 2 cut(s) 657, 808
XhoI CTCGAG 2 cut(s) 380, 615
XspI CTAG 3 cut(s) 18, 156, 644
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.