AT4G29120

Shikimate / quinate 5-dehydrogenase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
arabidopsis_thaliana
4
OG0016018
Physical Location & Seq
Forward (+)
14350858 .. 14352059
1202 bp
Loading structure...
UTR
Exon/CDS
Intron
AT4G29120.1

Sequence Viewer

Length: 1005 bp
ATGCCACTTCTCCTCCGTCGATTTCCCTCTCCCTCCGTCGTCTCCTCCTTCTTCCTCCGTCGCTCAATGGCTTCCTCAACAATCTCCTCGGATATAATCACTCCATCAAACACCAAAATCGGATGGATCGGAACCGGAGTCATGGGCCGATCAATGTGTGGACACTTAATCAAAGCCGGTTACACAGTCACCGTCTTCAATCGAACCATCTCCAAAGCTCAAACTCTCATCGACATGGGTGCTAACGTCGCCGACTCACCAAACTCAGTCGCTGAACAATCCGACGTCGTTTTCACCATCGTTGGTTATCCTTCCGATGTCCGTCACGTCCTTCTCGATCCAAAGTCCGGAGCTTTATCTGGTCTCCGTCAAGGAGGTGTTCTCGTTGATATGACTACTTCTGAGCCTTCTTTAGCAGAGGAGATAGCTAAAGCTGCTTCCTTTAAGAATTGTTTCTCAATAGACGCTCCTGTCTCAGGTGGAGATTTAGGAGCTAAGAATGGGAAGCTATCTATATTCGCCGGAGGTGATGAAACCACCGTGAAACGTTTAGATCCGTTGTTTTCGTTAATGGGTAAAGTCAACTTCATGGGAACAAGTGGGAAAGGTCAATTTGCGAAATTGGCTAATCAGATAACTATTGCTTCGACTATGTTAGGACTTGTGGAAGGTTTGATTTATGCTCATAAAGCTGGACTTGATGTTAAGAAGTTTCTTGAAGCGATTTCTACTGGTGCTGCTGGTTCTAAGTCTATAGATTTGTATGGAGATAGGATTCTGAAGAGGGATTTTGATCCTGGTTTTTATGTGAATCATTTTGTGAAAGATTTAGGGATTTGTTTGAATGAATGTCAGAGGATGGGTTTGGCTTTGCCTGGTTTAGCTCTTGCTCAACAGCTTTACTTGTCTCTTAAGGCTCATGGTGAAGGTGATCTTGGTACTCAAGCTCTTCTCTTGGCTCTTGAACGTCTCAACAATGTCTCTGTTCAATCATCTGACTCTTGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005829 GO:0044424 GO:0044444 GO:0044464
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
NAD_binding_11 NAD_binding_2

Protein Analysis

334

Amino Acids

35.37

Weight (kDa)

8.58

Isoelectric Point (pI)

34.84

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
2-Hacid_dh_C PF02826 34 - 129 9.7e-06 D-isomer specific 2-hydroxyacid dehydrogenase, NAD binding domain
Shikimate_DH PF01488 36 - 102 2e-07 Shikimate / quinate 5-dehydrogenase
NAD_binding_2 PF03446 39 - 196 9.7e-49 NAD binding domain of 6-phosphogluconate dehydrogenase
F420_oxidored PF03807 39 - 111 4.3e-08 NADP oxidoreductase coenzyme F420-dependent
NAD_binding_11 PF14833 201 - 318 5.7e-36 NAD-binding of NADP-dependent 3-hydroxyisobutyrate dehydrogenase
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: OG0016018)

Species Orthologous Gene IDs
arabidopsis_thaliana AT4G29120
fragaria_vesca FvH4_1g06170
malus_domestica MD02G1065900.v1.1 MD02G1066000.v1.1
prunus_persica Prupe.7G219600_v2.0.a1
pyrus_communis pycom02g05230
rosa_chinensis RchiOBHm_Chr2g0091951
rosa_laevigata RLG00000016265
rosa_multiflora Rmu_sc0009216.1_g000005 Rmu_sc0017125.1_g000007
rosa_roxburghii Rroxscaffold_2G00149590
rosa_rugosa Rorug02G0021800
rosa_samantha Rh2AG067400 Rh2DG066500
rosa_wichuraiana Rw2G005360

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AasI GACNNNNNNGTC 1 cut(s) 470
AatII GACGTC 1 cut(s) 288
AccIII TCCGGA 1 cut(s) 347
AclI AACGTT 1 cut(s) 547
AclWI GGATC 4 cut(s) 134, 332, 548, 788
AcuI CTGAAG 1 cut(s) 800
AcyI GRCGYC 1 cut(s) 285
AfaI GTAC 1 cut(s) 940
AfiI CCNNNNNNNGG 2 cut(s) 347, 476
AflII CTTAAG 1 cut(s) 911
AgsI TTSAA 5 cut(s) 199, 719, 844, 965, 989
AjiI CACGTC 1 cut(s) 328
AjnI CCWGG 2 cut(s) 796, 874
AjuI GAANNNNNNNTTGG 2 cut(s) 918, 950
Alw26I GTCTC 6 cut(s) 46, 368, 478, 912, 974, 985
AlwI GGATC 4 cut(s) 134, 332, 548, 788
AlwNI CAGNNNCTG 1 cut(s) 272
Aor13HI TCCGGA 1 cut(s) 347
AoxI GGCC 1 cut(s) 145
ApeKI GCWGC 2 cut(s) 434, 737
Asp700I GAANNNNTTC 1 cut(s) 452
AspS9I GGNCC 1 cut(s) 145
AsuHPI GGTGA 6 cut(s) 181, 249, 286, 539, 935, 941
BbsI GAAGAC 1 cut(s) 187
BbvI GCAGC 2 cut(s) 421, 724
BccI CCATC 5 cut(s) 112, 117, 215, 305, 853
BcgI CGANNNNNNTGC 2 cut(s) 221, 255
BciT130I CCWGG 2 cut(s) 798, 876
BcoDI GTCTC 6 cut(s) 46, 368, 478, 912, 974, 985
BfmI CTRYAG 1 cut(s) 753
BfrI CTTAAG 1 cut(s) 911
BisI GCNGC 2 cut(s) 435, 738
BlsI GCNGC 2 cut(s) 436, 739
Bme1390I CCNGG 2 cut(s) 798, 876
BmgBI CACGTC 1 cut(s) 328
BmgT120I GGNCC 1 cut(s) 145
BmiI GGNNCC 1 cut(s) 133
BmrFI CCNGG 2 cut(s) 798, 876
BpiI GAAGAC 1 cut(s) 187
BplI GAGNNNNNCTC 2 cut(s) 366, 398
BpuEI CTTGAG 1 cut(s) 927
BsaBI GATNNNNATC 1 cut(s) 792
BsaHI GRCGYC 1 cut(s) 285
BsaI GGTCTC 1 cut(s) 368
BsaJI CCNNGG 1 cut(s) 87
BsaWI WCCGGW 2 cut(s) 134, 347
BsaXI ACNNNNNCTCC 1 cut(s) 27
Bsc4I CCNNNNNNNGG 2 cut(s) 347, 476
Bse118I RCCGGY 1 cut(s) 176
Bse1I ACTGG 1 cut(s) 736
Bse8I GATNNNNATC 1 cut(s) 792
BseAI TCCGGA 1 cut(s) 347
BseBI CCWGG 2 cut(s) 798, 876
BseDI CCNNGG 1 cut(s) 87
BseGI GGATG 2 cut(s) 128, 864
BseJI GATNNNNATC 1 cut(s) 792
BseLI CCNNNNNNNGG 2 cut(s) 347, 476
BseMII CTCAG 3 cut(s) 279, 393, 489
BseNI ACTGG 1 cut(s) 736
BseRI GAGGAG 3 cut(s) 34, 76, 434
BseXI GCAGC 2 cut(s) 421, 724
BshFI GGCC 1 cut(s) 147
BsiSI CCGG 4 cut(s) 135, 177, 348, 522
BslI CCNNNNNNNGG 2 cut(s) 347, 476
BsmAI GTCTC 6 cut(s) 46, 368, 478, 912, 974, 985
BsmBI CGTCTC 2 cut(s) 46, 974
BsnI GGCC 1 cut(s) 147
Bso31I GGTCTC 1 cut(s) 368
Bsp13I TCCGGA 1 cut(s) 347
Bsp143I GATC 6 cut(s) 126, 149, 337, 553, 793, 931
BspANI GGCC 1 cut(s) 147
BspCNI CTCAG 3 cut(s) 278, 394, 488
BspEI TCCGGA 1 cut(s) 347
BspLI GGNNCC 1 cut(s) 133
BspPI GGATC 4 cut(s) 134, 332, 548, 788
BspQI GCTCTTC 1 cut(s) 954
BspTI CTTAAG 1 cut(s) 911
BspTNI GGTCTC 1 cut(s) 368
BsrFI RCCGGY 1 cut(s) 176
BsrI ACTGG 1 cut(s) 736
BssAI RCCGGY 1 cut(s) 176
BssECI CCNNGG 1 cut(s) 87
BssMI GATC 6 cut(s) 126, 149, 337, 553, 793, 931
BssNI GRCGYC 1 cut(s) 285
Bst2UI CCWGG 2 cut(s) 798, 876
Bst4CI ACNGT 3 cut(s) 187, 193, 541
Bst6I CTCTTC 2 cut(s) 776, 954
BstACI GRCGYC 1 cut(s) 285
BstAFI CTTAAG 1 cut(s) 911
BstDEI CTNAG 5 cut(s) 265, 402, 475, 495, 747
BstENI CCTNNNNNAGG 1 cut(s) 474
BstF5I GGATG 2 cut(s) 128, 864
BstKTI GATC 6 cut(s) 129, 152, 340, 556, 796, 934
BstMAI GTCTC 6 cut(s) 46, 368, 478, 912, 974, 985
BstMBI GATC 6 cut(s) 126, 149, 337, 553, 793, 931
BstMWI GCNNNNNNNGC 4 cut(s) 248, 434, 623, 689
BstNI CCWGG 2 cut(s) 798, 876
BstSCI CCNGG 2 cut(s) 796, 874
BstSFI CTRYAG 1 cut(s) 753
BstV1I GCAGC 2 cut(s) 421, 724
BstV2I GAAGAC 1 cut(s) 187
BstX2I RGATCY 1 cut(s) 553
BstYI RGATCY 1 cut(s) 553
BsuRI GGCC 1 cut(s) 147
BtrI CACGTC 1 cut(s) 328
BtsCI GGATG 2 cut(s) 128, 864
CaiI CAGNNNCTG 1 cut(s) 272
Cfr10I RCCGGY 1 cut(s) 176
Cfr13I GGNCC 1 cut(s) 145
CseI GACGC 1 cut(s) 473
Csp6I GTAC 1 cut(s) 939
CviAII CATG 4 cut(s) 142, 235, 589, 920
CviQI GTAC 1 cut(s) 939
DdeI CTNAG 5 cut(s) 265, 402, 475, 495, 747
DpnI GATC 6 cut(s) 128, 151, 339, 555, 795, 933
DpnII GATC 6 cut(s) 126, 149, 337, 553, 793, 931
DrdI GACNNNNNNGTC 1 cut(s) 470
DseDI GACNNNNNNGTC 1 cut(s) 470
Eam1104I CTCTTC 2 cut(s) 776, 954
EarI CTCTTC 2 cut(s) 776, 954
Eco31I GGTCTC 1 cut(s) 368
Eco57I CTGAAG 1 cut(s) 800
EcoNI CCTNNNNNAGG 1 cut(s) 474
EcoRII CCWGG 2 cut(s) 796, 874
Esp3I CGTCTC 2 cut(s) 46, 974
FaeI CATG 4 cut(s) 145, 238, 592, 923
FalI AAGNNNNNCTT 4 cut(s) 681, 713, 918, 950
FatI CATG 4 cut(s) 141, 234, 588, 919
Fnu4HI GCNGC 2 cut(s) 435, 738
FokI GGATG 2 cut(s) 135, 871
Fsp4HI GCNGC 2 cut(s) 435, 738
GluI GCNGC 2 cut(s) 435, 738
HaeIII GGCC 1 cut(s) 147
HapII CCGG 4 cut(s) 135, 177, 348, 522
HgaI GACGC 1 cut(s) 473
Hin1I GRCGYC 1 cut(s) 285
Hin1II CATG 4 cut(s) 145, 238, 592, 923
HincII GTYRAC 1 cut(s) 583
HindII GTYRAC 1 cut(s) 583
HinfI GANTC 5 cut(s) 138, 254, 775, 811, 998
HpaII CCGG 4 cut(s) 135, 177, 348, 522
HphI GGTGA 6 cut(s) 181, 249, 286, 539, 935, 941
Hpy166II GTNNAC 2 cut(s) 161, 583
Hpy188III TCNNGA 5 cut(s) 335, 348, 716, 962, 1002
Hpy8I GTNNAC 2 cut(s) 161, 583
Hpy99I CGWCG 6 cut(s) 21, 41, 63, 251, 287, 290
HpyAV CCTTC 6 cut(s) 58, 321, 341, 417, 662, 920
HpyCH4III ACNGT 3 cut(s) 187, 193, 541
HpyCH4IV ACGT 5 cut(s) 246, 285, 327, 547, 967
HpyF10VI GCNNNNNNNGC 4 cut(s) 248, 434, 623, 689
HpyF3I CTNAG 5 cut(s) 265, 402, 475, 495, 747
HpySE526I ACGT 5 cut(s) 246, 285, 327, 547, 967
Hsp92I GRCGYC 1 cut(s) 285
Hsp92II CATG 4 cut(s) 145, 238, 592, 923
Kpn2I TCCGGA 1 cut(s) 347
Kzo9I GATC 6 cut(s) 126, 149, 337, 553, 793, 931
LguI GCTCTTC 1 cut(s) 954
LmnI GCTCC 3 cut(s) 350, 472, 491
Lsp1109I GCAGC 2 cut(s) 421, 724
MaeII ACGT 5 cut(s) 246, 285, 327, 547, 967
MaeIII GTNAC 3 cut(s) 179, 187, 323
MalI GATC 6 cut(s) 128, 151, 339, 555, 795, 933
MboI GATC 6 cut(s) 126, 149, 337, 553, 793, 931
MboII GAAGA 4 cut(s) 43, 187, 793, 941
MflI RGATCY 1 cut(s) 553
MluCI AATT 3 cut(s) 448, 611, 620
MlyI GAGTC 3 cut(s) 147, 248, 992
MmeI TCCRAC 1 cut(s) 306
MroI TCCGGA 1 cut(s) 347
MroXI GAANNNNTTC 1 cut(s) 452
MseI TTAA 5 cut(s) 167, 444, 569, 705, 912
MslI CAYNNNNRTG 1 cut(s) 233
MspCI CTTAAG 1 cut(s) 911
MspI CCGG 4 cut(s) 135, 177, 348, 522
MspR9I CCNGG 2 cut(s) 798, 876
MvaI CCWGG 2 cut(s) 798, 876
MwoI GCNNNNNNNGC 4 cut(s) 248, 434, 623, 689
NdeII GATC 6 cut(s) 126, 149, 337, 553, 793, 931
NlaIII CATG 4 cut(s) 145, 238, 592, 923
NlaIV GGNNCC 1 cut(s) 133
NmuCI GTSAC 2 cut(s) 187, 323
PciSI GCTCTTC 1 cut(s) 954
PcsI WCGNNNNNNNCGW 1 cut(s) 333
PdmI GAANNNNTTC 1 cut(s) 452
PfeI GAWTC 2 cut(s) 775, 811
PkrI GCNGC 2 cut(s) 436, 739
PleI GAGTC 3 cut(s) 146, 248, 992
PpsI GAGTC 3 cut(s) 146, 248, 992
Psp1406I AACGTT 1 cut(s) 547
Psp6I CCWGG 2 cut(s) 796, 874
PspGI CCWGG 2 cut(s) 796, 874
PspN4I GGNNCC 1 cut(s) 133
PspPI GGNCC 1 cut(s) 145
PstNI CAGNNNCTG 1 cut(s) 272
PsuI RGATCY 1 cut(s) 553
RsaI GTAC 1 cut(s) 940
RsaNI GTAC 1 cut(s) 939
RseI CAYNNNNRTG 1 cut(s) 233
SapI GCTCTTC 1 cut(s) 954
SaqAI TTAA 5 cut(s) 167, 444, 569, 705, 912
SatI GCNGC 2 cut(s) 435, 738
Sau3AI GATC 6 cut(s) 126, 149, 337, 553, 793, 931
Sau96I GGNCC 1 cut(s) 145
SchI GAGTC 3 cut(s) 147, 248, 992
ScrFI CCNGG 2 cut(s) 798, 876
SfcI CTRYAG 1 cut(s) 753
SmiMI CAYNNNNRTG 1 cut(s) 233
SmlI CTYRAG 2 cut(s) 911, 942
SmoI CTYRAG 2 cut(s) 911, 942
Sse9I AATT 3 cut(s) 448, 611, 620
StyD4I CCNGG 2 cut(s) 796, 874
TaaI ACNGT 3 cut(s) 187, 193, 541
TaiI ACGT 5 cut(s) 249, 288, 330, 550, 970
TaqI TCGA 5 cut(s) 19, 202, 231, 336, 647
TasI AATT 3 cut(s) 448, 611, 620
TfiI GAWTC 2 cut(s) 775, 811
Tru1I TTAA 5 cut(s) 167, 444, 569, 705, 912
Tru9I TTAA 5 cut(s) 167, 444, 569, 705, 912
TseFI GTSAC 2 cut(s) 187, 323
TseI GCWGC 2 cut(s) 434, 737
Tsp45I GTSAC 2 cut(s) 187, 323
TspDTI ATGAA 3 cut(s) 546, 577, 861
TspGWI ACGGA 6 cut(s) 5, 25, 47, 311, 356, 546
Vha464I CTTAAG 1 cut(s) 911
XagI CCTNNNNNAGG 1 cut(s) 474
XmnI GAANNNNTTC 1 cut(s) 452
ZraI GACGTC 1 cut(s) 286
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.