AT5G11880

Diaminopimelate decarboxylase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
arabidopsis_thaliana
5
OG0012138
Physical Location & Seq
Reverse (-)
3827526 .. 3830228
2703 bp
Loading structure...
UTR
Exon/CDS
Intron
AT5G11880.1

Sequence Viewer

Length: 1470 bp
ATGGCGGCAGTTACTCAATTTCTCTCCCAACCTTCATCAATCCGCGGAACCCTAAATCAGTACCAATTGAATCAGACTTCACTCTCAAGAATCCCATTTTTGTCTCTCAAGTCAACATTGAAGCCACTTAAACGCCTCTCCGTCAAAGCCGCCGTTTCCCAAAACTCCACCAAAACCCTCACGAAAGAATCTGCTTCCTCTTTCGACCACTGTTTCAAGAAATCATCAGATGGGTTTCTCTATTGCGAAGGAACCAAGGTTCAAGATATCATGGAAACAGTCGAGAAACGACCCTTTTACTTATATAGCAAACCTCAGATCACGAGAAACCTTGAGGCTTATAAAGAGGCTTTGGAAGGAGTGAGATCTGTTATTGGTTACGCTATTAAAGCTAATAACAATCTCAAGATTTTGGAGCATTTGAGGAGTTTGGGCTGTGGTGCTGTGTTGGTTAGTGGAAATGAGCTCAGGCTTGCTCTTCTTGCTGGTTTCGATCCCACAAAGTGTATTTTCAATGGAAATGGAAAGTCTTTGGAAGATTTAGTTCTAGCTGCTCAAGAAGGTGTTTTCGTAAATGTTGATAGTGAGTTTGACTTGAATAACATTGTGGAAGCTTCAAGAATTTCTGGTAAGCAGGTCAATGTGTTGTTGCGTATCAATCCTGATGTTGATCCTCAGGTGCATCCATATGTAGCTACTGGGAACAAGAACTCGAAGTTTGGTATTAGGAACGAGAAGCTTCAATGGTTTCTGGATGAAGTGAAGGCACATCCCAAAGAGCTGAAGCTTGTTGGAGCTCATTGTCATCTTGGTTCTACCATTACAAAGGTGGATATATTCAGAGATGCTGCGGTTCTCATGATTGAATACATTGATGAAATCCGGCGTCAAGGCTTTGAGGTTAGCTACTTGAACATTGGTGGTGGTTTAGGGATAGATTATTATCATGCCGGCGCTGTCCTTCCTACACCCATGGATCTTATCAACACCGTAAGAGAGCTGGTTCTTTCACGAGACCTGAATCTAATAATCGAGCCAGGGAGATCACTGATTGCAAACACATGTTGTTTCGTCAACCATGTAACTGGTGTGAAGACGAATGGAACTAAAAACTTCATAGTGATTGATGGAAGTATGGCTGAGCTTATCCGTCCCAGTCTTTATGATGCCTATCAGCATATTGAGTTGGTCTCTCCTACACCGCCTGAAGCAGAGGTTACCAAATTCGATGTAGTGGGTCCTGTTTGTGAATCTGCTGATTTCTTGGGCAAAGACAGAGAGCTTCCCACTCCTCCACAGGGAGCTGGTCTGGTGGTTCATGACGCTGGTGCATACTGTATGAGTATGGCTTCCACTTACAATCTCAAGATGCGTCCCCCGGAATACTGGGTTGAAGAAGATGGGTCGATCACTAAGATCAGGCATGCTGAGACATTCGATGACCATTTACGTTTCTTTGAAGGACTATGA

Protein Analysis

489

Amino Acids

54.16

Weight (kDa)

6.21

Isoelectric Point (pI)

35.65

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Orn_DAP_Arg_deC PF00278 100 - 443 7.8e-22 Pyridoxal-dependent decarboxylase, C-terminal sheet domain
Orn_Arg_deC_N PF02784 106 - 352 6.2e-49 Pyridoxal-dependent decarboxylase, pyridoxal binding domain
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Orthologous Genes (Group: OG0012138)

Species Orthologous Gene IDs
arabidopsis_thaliana AT3G14390 AT5G11880
fragaria_vesca FvH4_2g09380
malus_domestica MD05G1063100.v1.1 MD10G1070600.v1.1
prunus_persica Prupe.8G092300_v2.0.a1 Prupe.8G092300_v2.0.a1
pyrus_communis pycom05g05450 pycom10g05640
rosa_chinensis RchiOBHm_Chr6g0265651
rosa_laevigata RLG00000014169
rosa_multiflora Rmu_sc0003233.1_g000010
rosa_roxburghii Rroxscaffold_175G00432470 Rroxscaffold_7G00202530
rosa_rugosa Rorug06G0018200
rosa_samantha Rh6AG140300 Rh6BG140100 Rh6CG137200
rosa_wichuraiana Rw6G012110

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 342
Acc36I ACCTGC 1 cut(s) 625
AccII CGCG 1 cut(s) 45
AciI CCGC 6 cut(s) 5, 43, 45, 150, 851, 1202
AclWI GGATC 3 cut(s) 488, 665, 984
AcsI RAATTY 2 cut(s) 621, 1223
AcuI CTGAAG 2 cut(s) 803, 1227
AcyI GRCGYC 1 cut(s) 886
AdeI CACNNNGTG 1 cut(s) 504
AfaI GTAC 1 cut(s) 62
AfiI CCNNNNNNNGG 1 cut(s) 1298
AflIII ACRYGT 1 cut(s) 1061
AjnI CCWGG 1 cut(s) 1036
AloI GAACNNNNNNTCC 2 cut(s) 243, 275
Alw21I GWGCWC 2 cut(s) 468, 799
Alw26I GTCTC 4 cut(s) 108, 1008, 1195, 1424
AlwI GGATC 3 cut(s) 488, 665, 984
ApeKI GCWGC 2 cut(s) 551, 848
ApoI RAATTY 2 cut(s) 621, 1223
AspLEI GCGC 1 cut(s) 956
AspS9I GGNCC 1 cut(s) 1238
AsuC2I CCSGG 1 cut(s) 1379
AvaII GGWCC 1 cut(s) 1238
AxyI CCTNAGG 1 cut(s) 675
BanII GRGCYC 2 cut(s) 468, 799
BauI CACGAG 2 cut(s) 322, 1011
BbsI GAAGAC 1 cut(s) 1100
Bbv12I GWGCWC 2 cut(s) 468, 799
BbvI GCAGC 2 cut(s) 538, 835
BccI CCATC 3 cut(s) 224, 1121, 1394
BceAI ACGGC 1 cut(s) 137
BciT130I CCWGG 1 cut(s) 1038
BcnI CCSGG 1 cut(s) 1379
BcoDI GTCTC 4 cut(s) 108, 1008, 1195, 1424
BfaI CTAG 1 cut(s) 548
BfoI RGCGCY 1 cut(s) 957
BfuAI ACCTGC 1 cut(s) 625
BglII AGATCT 1 cut(s) 365
BisI GCNGC 4 cut(s) 6, 150, 552, 849
BlpI GCTNAGC 1 cut(s) 1140
BlsI GCNGC 4 cut(s) 7, 151, 553, 850
Bme1390I CCNGG 2 cut(s) 1038, 1379
Bme18I GGWCC 1 cut(s) 1238
BmgT120I GGNCC 1 cut(s) 1238
BmiI GGNNCC 3 cut(s) 49, 253, 1239
BmrFI CCNGG 2 cut(s) 1038, 1379
BmrI ACTGGG 3 cut(s) 708, 1149, 1396
BmsI GCATC 4 cut(s) 691, 835, 1156, 1359
BmuI ACTGGG 3 cut(s) 708, 1149, 1396
BpiI GAAGAC 1 cut(s) 1100
BplI GAGNNNNNCTC 2 cut(s) 1175, 1207
Bpu10I CCTNAGC 1 cut(s) 467
Bpu1102I GCTNAGC 1 cut(s) 1140
BpuEI CTTGAG 6 cut(s) 70, 92, 353, 389, 540, 1349
BpuMI CCSGG 1 cut(s) 1379
BsaBI GATNNNNATC 3 cut(s) 669, 942, 1170
BsaHI GRCGYC 1 cut(s) 886
BsaI GGTCTC 2 cut(s) 1008, 1195
BsaJI CCNNGG 5 cut(s) 43, 255, 972, 1037, 1377
Bsc4I CCNNNNNNNGG 1 cut(s) 1298
Bse118I RCCGGY 1 cut(s) 950
Bse1I ACTGG 4 cut(s) 703, 1090, 1155, 1391
Bse21I CCTNAGG 1 cut(s) 675
Bse8I GATNNNNATC 3 cut(s) 669, 942, 1170
BseBI CCWGG 1 cut(s) 1038
BseDI CCNNGG 5 cut(s) 43, 255, 972, 1037, 1377
BseGI GGATG 3 cut(s) 682, 760, 769
BseJI GATNNNNATC 3 cut(s) 669, 942, 1170
BseLI CCNNNNNNNGG 1 cut(s) 1298
BseMII CTCAG 5 cut(s) 329, 481, 689, 1131, 1419
BseNI ACTGG 4 cut(s) 703, 1090, 1155, 1391
BseRI GAGGAG 2 cut(s) 439, 1281
BseXI GCAGC 2 cut(s) 538, 835
Bsh1236I CGCG 1 cut(s) 45
BsiHKAI GWGCWC 2 cut(s) 468, 799
BsiSI CCGG 3 cut(s) 883, 951, 1379
BslFI GGGAC 2 cut(s) 1137, 1359
BslI CCNNNNNNNGG 1 cut(s) 1298
BsmAI GTCTC 4 cut(s) 108, 1008, 1195, 1424
BsmFI GGGAC 2 cut(s) 1137, 1359
Bso31I GGTCTC 2 cut(s) 1008, 1195
Bsp1286I GDGCHC 2 cut(s) 468, 799
Bsp143I GATC 8 cut(s) 318, 365, 493, 670, 976, 1043, 1407, 1416
Bsp1720I GCTNAGC 1 cut(s) 1140
Bsp19I CCATGG 1 cut(s) 972
BspACI CCGC 6 cut(s) 5, 43, 45, 150, 851, 1202
BspCNI CTCAG 5 cut(s) 328, 480, 688, 1132, 1420
BspFNI CGCG 1 cut(s) 45
BspHI TCATGA 2 cut(s) 858, 1318
BspLI GGNNCC 3 cut(s) 49, 253, 1239
BspMI ACCTGC 1 cut(s) 625
BspPI GGATC 3 cut(s) 488, 665, 984
BspQI GCTCTTC 1 cut(s) 483
BspTNI GGTCTC 2 cut(s) 1008, 1195
BsrFI RCCGGY 1 cut(s) 950
BsrI ACTGG 4 cut(s) 703, 1090, 1155, 1391
BssAI RCCGGY 1 cut(s) 950
BssECI CCNNGG 5 cut(s) 43, 255, 972, 1037, 1377
BssMI GATC 8 cut(s) 318, 365, 493, 670, 976, 1043, 1407, 1416
BssNI GRCGYC 1 cut(s) 886
BssSI CACGAG 2 cut(s) 322, 1011
BssT1I CCWWGG 2 cut(s) 255, 972
Bst2BI CACGAG 2 cut(s) 322, 1011
Bst2UI CCWGG 1 cut(s) 1038
Bst4CI ACNGT 4 cut(s) 212, 280, 991, 1337
Bst6I CTCTTC 1 cut(s) 483
BstACI GRCGYC 1 cut(s) 886
BstC8I GCNNGC 3 cut(s) 474, 952, 1425
BstDEI CTNAG 6 cut(s) 315, 467, 675, 1140, 1413, 1428
BstDSI CCRYGG 2 cut(s) 43, 972
BstEII GGTNACC 1 cut(s) 1216
BstF5I GGATG 3 cut(s) 682, 760, 769
BstFNI CGCG 1 cut(s) 45
BstH2I RGCGCY 1 cut(s) 957
BstHHI GCGC 1 cut(s) 956
BstKTI GATC 8 cut(s) 321, 368, 496, 673, 979, 1046, 1410, 1419
BstMAI GTCTC 4 cut(s) 108, 1008, 1195, 1424
BstMBI GATC 8 cut(s) 318, 365, 493, 670, 976, 1043, 1407, 1416
BstMWI GCNNNNNNNGC 2 cut(s) 389, 482
BstNI CCWGG 1 cut(s) 1038
BstNSI RCATGY 2 cut(s) 1065, 1427
BstPI GGTNACC 1 cut(s) 1216
BstSCI CCNGG 2 cut(s) 1036, 1377
BstUI CGCG 1 cut(s) 45
BstV1I GCAGC 2 cut(s) 538, 835
BstV2I GAAGAC 1 cut(s) 1100
BstX2I RGATCY 2 cut(s) 365, 976
BstXI CCANNNNNNTGG 1 cut(s) 1085
BstYI RGATCY 2 cut(s) 365, 976
Bsu36I CCTNAGG 1 cut(s) 675
BtgI CCRYGG 2 cut(s) 43, 972
BtsCI GGATG 3 cut(s) 682, 760, 769
BtsIMutI CAGTG 2 cut(s) 208, 1046
BveI ACCTGC 1 cut(s) 625
Cac8I GCNNGC 3 cut(s) 474, 952, 1425
CciI TCATGA 2 cut(s) 858, 1318
CfoI GCGC 1 cut(s) 956
Cfr10I RCCGGY 1 cut(s) 950
Cfr13I GGNCC 1 cut(s) 1238
Cfr42I CCGCGG 1 cut(s) 46
CseI GACGC 3 cut(s) 875, 1331, 1361
Csp6I GTAC 1 cut(s) 61
CviAII CATG 8 cut(s) 271, 859, 947, 973, 1062, 1079, 1319, 1424
CviQI GTAC 1 cut(s) 61
DdeI CTNAG 6 cut(s) 315, 467, 675, 1140, 1413, 1428
DpnI GATC 8 cut(s) 320, 367, 495, 672, 978, 1045, 1409, 1418
DpnII GATC 8 cut(s) 318, 365, 493, 670, 976, 1043, 1407, 1416
DraIII CACNNNGTG 1 cut(s) 504
Eam1104I CTCTTC 1 cut(s) 483
EarI CTCTTC 1 cut(s) 483
Ecl136II GAGCTC 2 cut(s) 466, 797
Eco130I CCWWGG 2 cut(s) 255, 972
Eco24I GRGCYC 2 cut(s) 468, 799
Eco31I GGTCTC 2 cut(s) 1008, 1195
Eco32I GATATC 1 cut(s) 268
Eco47I GGWCC 1 cut(s) 1238
Eco53kI GAGCTC 2 cut(s) 466, 797
Eco57I CTGAAG 2 cut(s) 803, 1227
Eco81I CCTNAGG 1 cut(s) 675
Eco91I GGTNACC 1 cut(s) 1216
EcoICRI GAGCTC 2 cut(s) 466, 797
EcoO109I RGGNCCY 1 cut(s) 1238
EcoO65I GGTNACC 1 cut(s) 1216
EcoRII CCWGG 1 cut(s) 1036
EcoRV GATATC 1 cut(s) 268
EcoT14I CCWWGG 2 cut(s) 255, 972
EcoT38I GRGCYC 2 cut(s) 468, 799
ErhI CCWWGG 2 cut(s) 255, 972
FaeI CATG 8 cut(s) 274, 862, 950, 976, 1065, 1082, 1322, 1427
FaqI GGGAC 2 cut(s) 1137, 1359
FatI CATG 8 cut(s) 270, 858, 946, 972, 1061, 1078, 1318, 1423
FauNDI CATATG 1 cut(s) 688
Fnu4HI GCNGC 4 cut(s) 6, 150, 552, 849
FokI GGATG 3 cut(s) 669, 756, 767
FriOI GRGCYC 2 cut(s) 468, 799
Fsp4HI GCNGC 4 cut(s) 6, 150, 552, 849
FspBI CTAG 1 cut(s) 548
GlaI GCGC 1 cut(s) 955
GluI GCNGC 4 cut(s) 6, 150, 552, 849
HaeII RGCGCY 1 cut(s) 957
HapII CCGG 3 cut(s) 883, 951, 1379
HgaI GACGC 3 cut(s) 875, 1331, 1361
HhaI GCGC 1 cut(s) 956
Hin1I GRCGYC 1 cut(s) 886
Hin1II CATG 8 cut(s) 274, 862, 950, 976, 1065, 1082, 1322, 1427
Hin6I GCGC 1 cut(s) 954
HinP1I GCGC 1 cut(s) 954
HincII GTYRAC 2 cut(s) 114, 1075
HindII GTYRAC 2 cut(s) 114, 1075
HindIII AAGCTT 3 cut(s) 612, 737, 785
HinfI GANTC 5 cut(s) 70, 90, 188, 1021, 1250
HpaII CCGG 3 cut(s) 883, 951, 1379
Hpy166II GTNNAC 2 cut(s) 114, 1075
Hpy188I TCNGA 4 cut(s) 75, 229, 318, 842
Hpy8I GTNNAC 2 cut(s) 114, 1075
HpyAV CCTTC 7 cut(s) 42, 242, 350, 554, 757, 971, 1454
HpyCH4III ACNGT 4 cut(s) 212, 280, 991, 1337
HpyCH4IV ACGT 1 cut(s) 1450
HpyCH4V TGCA 3 cut(s) 682, 1055, 1331
HpyF10VI GCNNNNNNNGC 2 cut(s) 389, 482
HpyF3I CTNAG 6 cut(s) 315, 467, 675, 1140, 1413, 1428
HpySE526I ACGT 1 cut(s) 1450
Hsp92I GRCGYC 1 cut(s) 886
Hsp92II CATG 8 cut(s) 274, 862, 950, 976, 1065, 1082, 1322, 1427
HspAI GCGC 1 cut(s) 954
KroI GCCGGC 1 cut(s) 950
KroNI GCCGGC 1 cut(s) 952
KspI CCGCGG 1 cut(s) 46
Kzo9I GATC 8 cut(s) 318, 365, 493, 670, 976, 1043, 1407, 1416
LguI GCTCTTC 1 cut(s) 483
LmnI GCTCC 3 cut(s) 415, 794, 1301
Lsp1109I GCAGC 2 cut(s) 538, 835
LweI GCATC 4 cut(s) 691, 835, 1156, 1359
MaeI CTAG 1 cut(s) 548
MaeII ACGT 1 cut(s) 1450
MaeIII GTNAC 4 cut(s) 10, 377, 1081, 1216
MalI GATC 8 cut(s) 320, 367, 495, 672, 978, 1045, 1409, 1418
MboI GATC 8 cut(s) 318, 365, 493, 670, 976, 1043, 1407, 1416
MboII GAAGA 5 cut(s) 470, 548, 1105, 1406, 1409
MfeI CAATTG 1 cut(s) 65
MflI RGATCY 2 cut(s) 365, 976
MhlI GDGCHC 2 cut(s) 468, 799
MluCI AATT 4 cut(s) 17, 65, 621, 1223
MmeI TCCRAC 1 cut(s) 772
MroNI GCCGGC 1 cut(s) 950
MseI TTAA 2 cut(s) 129, 387
MslI CAYNNNNRTG 1 cut(s) 687
MspA1I CMGCKG 1 cut(s) 45
MspI CCGG 3 cut(s) 883, 951, 1379
MspR9I CCNGG 2 cut(s) 1038, 1379
MunI CAATTG 1 cut(s) 65
MvaI CCWGG 1 cut(s) 1038
MvnI CGCG 1 cut(s) 45
MwoI GCNNNNNNNGC 2 cut(s) 389, 482
NaeI GCCGGC 1 cut(s) 952
NciI CCSGG 1 cut(s) 1379
NcoI CCATGG 1 cut(s) 972
NdeI CATATG 1 cut(s) 688
NdeII GATC 8 cut(s) 318, 365, 493, 670, 976, 1043, 1407, 1416
NgoMIV GCCGGC 1 cut(s) 950
NlaIII CATG 8 cut(s) 274, 862, 950, 976, 1065, 1082, 1322, 1427
NlaIV GGNNCC 3 cut(s) 49, 253, 1239
NspI RCATGY 2 cut(s) 1065, 1427
PaeI GCATGC 1 cut(s) 1427
PagI TCATGA 2 cut(s) 858, 1318
PciI ACATGT 1 cut(s) 1061
PciSI GCTCTTC 1 cut(s) 483
PdiI GCCGGC 1 cut(s) 952
PfeI GAWTC 5 cut(s) 70, 90, 188, 1021, 1250
PkrI GCNGC 4 cut(s) 7, 151, 553, 850
PpuMI RGGWCCY 1 cut(s) 1238
PscI ACATGT 1 cut(s) 1061
PsiI TTATAA 1 cut(s) 342
Psp124BI GAGCTC 2 cut(s) 468, 799
Psp5II RGGWCCY 1 cut(s) 1238
Psp6I CCWGG 1 cut(s) 1036
PspEI GGTNACC 1 cut(s) 1216
PspGI CCWGG 1 cut(s) 1036
PspN4I GGNNCC 3 cut(s) 49, 253, 1239
PspPI GGNCC 1 cut(s) 1238
PspPPI RGGWCCY 1 cut(s) 1238
PsuI RGATCY 2 cut(s) 365, 976
RsaI GTAC 1 cut(s) 62
RsaNI GTAC 1 cut(s) 61
RseI CAYNNNNRTG 1 cut(s) 687
SacI GAGCTC 2 cut(s) 468, 799
SacII CCGCGG 1 cut(s) 46
SapI GCTCTTC 1 cut(s) 483
SaqAI TTAA 2 cut(s) 129, 387
SatI GCNGC 4 cut(s) 6, 150, 552, 849
Sau3AI GATC 8 cut(s) 318, 365, 493, 670, 976, 1043, 1407, 1416
Sau96I GGNCC 1 cut(s) 1238
ScrFI CCNGG 2 cut(s) 1038, 1379
SduI GDGCHC 2 cut(s) 468, 799
SfaNI GCATC 4 cut(s) 691, 835, 1156, 1359
Sfr303I CCGCGG 1 cut(s) 46
SgrBI CCGCGG 1 cut(s) 46
SinI GGWCC 1 cut(s) 1238
SmiMI CAYNNNNRTG 1 cut(s) 687
SmlI CTYRAG 6 cut(s) 85, 107, 332, 404, 555, 1364
SmoI CTYRAG 6 cut(s) 85, 107, 332, 404, 555, 1364
SphI GCATGC 1 cut(s) 1427
Sse9I AATT 4 cut(s) 17, 65, 621, 1223
SsiI CCGC 6 cut(s) 5, 43, 45, 150, 851, 1202
SspMI CTAG 1 cut(s) 548
SstI GAGCTC 2 cut(s) 468, 799
StyD4I CCNGG 2 cut(s) 1036, 1377
StyI CCWWGG 2 cut(s) 255, 972
TaaI ACNGT 4 cut(s) 212, 280, 991, 1337
TaiI ACGT 1 cut(s) 1453
TaqI TCGA 8 cut(s) 204, 282, 492, 713, 1032, 1227, 1406, 1437
TasI AATT 4 cut(s) 17, 65, 621, 1223
TauI GCSGC 2 cut(s) 8, 152
TfiI GAWTC 5 cut(s) 70, 90, 188, 1021, 1250
Tru1I TTAA 2 cut(s) 129, 387
Tru9I TTAA 2 cut(s) 129, 387
TscAI CASTG 2 cut(s) 215, 1053
TseI GCWGC 2 cut(s) 551, 848
TspDTI ATGAA 5 cut(s) 24, 771, 891, 1105, 1307
TspGWI ACGGA 2 cut(s) 130, 1139
TspRI CASTG 2 cut(s) 215, 1053
VpaK11BI GGWCC 1 cut(s) 1238
XapI RAATTY 2 cut(s) 621, 1223
XceI RCATGY 2 cut(s) 1065, 1427
XcmI CCANNNNNNNNNTGG 1 cut(s) 826
XspI CTAG 1 cut(s) 548
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.