AT4G00560

RmlD substrate binding domain

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
arabidopsis_thaliana
4
OG0001020
Physical Location & Seq
Reverse (-)
240634 .. 242497
1864 bp
Loading structure...
UTR
Exon/CDS
Intron
AT4G00560.4

Sequence Viewer

Length: 984 bp
ATGGAGAAGAAGACGAAAGTGCTAATTGTGGGAGGTACTGGATACTTGGGTCAGCATCTTCTTCAAGCTTTCGCCGGCAACTATGGCGGTGAATGTGAGCTATACGACGTCGCTTTCACTCACCATTCTTCTCCACTTCCCGCTCGTTTGCTCGACGCTTTCCCTCATTCCCCCGCGTTTCCTGTCGATCTTAAATCCGGTCTAGGGCTCAATTCCATATCCCAGGACTTTCGTCAGCCTGATGTGGTCGTGAATTGTGCTGCTCTGTCTGTCCCACGAGCTTGCGAGCAAGATCCAGATTCCGCCATGTCCATCAACGTACCTACTTCTCTTGTAAACTGGTTATCAAGTTTTGAGACTAACAAAACCTTGTTGATTCATCTCTCTACTGATCAAGTTTATCAAGGTGTCAAGTCTTTCTACAAGGAAGAAGATGAGACTGTTGCAGTCAACGTTTATGGGAAATCAAAAGTTGCAGCAGAGCTTCTCATCAAGGATAAGTGTCAAAGCTTTGCAATATTGAGAAGTAGTATCATCTTTGGTCCTCAAACTGTATCACCTCTCCCCAAGACTCTCCCAATTCAGTGGATTGATAGCTCCTTAAAGAAAGGGGACACGGTAGACTTCTTCCATGACGAGTTTCGTTGCCCCATTTACGTTAAGGATCTTGTGAATATCACTTTCAAATTAATAGACAGATGGGTCTCTGATGATAAACAGATGCGGCTAGTTCTGAATGCTGGTGGACCCGAGAGGCTATCTCGTGTTCAAATGGCTCAAATGGTTGCAGAAGTCAGAGGATACGACCTGTCCTTGATTAAACATGTGTCTGCATCATCGATTGATCGTGGCGTAGTGTCACCAGCAGATATATCTATGGACATAACTAAACTGATTCATACACTTGAGCTCTCTCCAACTTCTTTCAAGGAAGGTGTTAGGTTAACGCTTGACTCTGAATCTCATTCTCATATGCTCCCATGA
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
RmlD_sub_bind

Protein Analysis

327

Amino Acids

36.15

Weight (kDa)

5.93

Isoelectric Point (pI)

42.91

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RmlD_sub_bind PF04321 6 - 323 6.3e-38 RmlD substrate binding domain
Epimerase PF01370 7 - 237 3.5e-20 NAD dependent epimerase/dehydratase family
GDP_Man_Dehyd PF16363 8 - 318 2e-11 GDP-mannose 4,6 dehydratase
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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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AasI GACNNNNNNGTC 1 cut(s) 701
AatII GACGTC 1 cut(s) 111
AccBSI CCGCTC 1 cut(s) 143
AccI GTMKAC 1 cut(s) 621
AccII CGCG 1 cut(s) 176
AciI CCGC 5 cut(s) 87, 141, 174, 303, 724
AclI AACGTT 1 cut(s) 453
AclWI GGATC 2 cut(s) 287, 672
AcyI GRCGYC 1 cut(s) 108
AfaI GTAC 2 cut(s) 37, 321
AfiI CCNNNNNNNGG 1 cut(s) 204
AflIII ACRYGT 1 cut(s) 823
AgsI TTSAA 4 cut(s) 65, 685, 770, 928
AjnI CCWGG 1 cut(s) 222
AluBI AGCT 7 cut(s) 68, 100, 281, 484, 510, 597, 910
AluI AGCT 7 cut(s) 68, 100, 281, 484, 510, 597, 910
Alw21I GWGCWC 1 cut(s) 912
Alw26I GTCTC 3 cut(s) 350, 431, 709
AlwI GGATC 2 cut(s) 287, 672
Ama87I CYCGRG 1 cut(s) 749
ApeKI GCWGC 2 cut(s) 260, 476
AseI ATTAAT 1 cut(s) 689
AspS9I GGNCC 2 cut(s) 542, 746
AsuHPI GGTGA 4 cut(s) 101, 113, 549, 852
AvaI CYCGRG 1 cut(s) 749
AvaII GGWCC 2 cut(s) 542, 746
BaeI ACNNNNGTAYC 2 cut(s) 34, 67
BanII GRGCYC 2 cut(s) 210, 912
BauI CACGAG 2 cut(s) 276, 762
BbsI GAAGAC 1 cut(s) 17
Bbv12I GWGCWC 1 cut(s) 912
BbvI GCAGC 2 cut(s) 247, 488
BccI CCATC 2 cut(s) 320, 693
BciT130I CCWGG 1 cut(s) 224
BciVI GTATCC 2 cut(s) 35, 794
BclI TGATCA 1 cut(s) 391
BcoDI GTCTC 3 cut(s) 350, 431, 709
BfaI CTAG 2 cut(s) 203, 728
BfuI GTATCC 2 cut(s) 35, 794
BisI GCNGC 3 cut(s) 261, 477, 725
BlsI GCNGC 3 cut(s) 262, 478, 726
Bme1390I CCNGG 1 cut(s) 224
Bme18I GGWCC 2 cut(s) 542, 746
BmeT110I CYCGRG 1 cut(s) 749
BmgT120I GGNCC 2 cut(s) 542, 746
BmiI GGNNCC 1 cut(s) 748
BmrFI CCNGG 1 cut(s) 224
BmsI GCATC 3 cut(s) 64, 711, 842
BoxI GACNNNNGTC 1 cut(s) 231
BpiI GAAGAC 1 cut(s) 17
BplI GAGNNNNNCTC 2 cut(s) 745, 777
BpuEI CTTGAG 1 cut(s) 926
Bsa29I ATCGAT 1 cut(s) 839
BsaHI GRCGYC 1 cut(s) 108
BsaI GGTCTC 1 cut(s) 709
BsaJI CCNNGG 1 cut(s) 222
BsaWI WCCGGW 1 cut(s) 197
Bsc4I CCNNNNNNNGG 1 cut(s) 204
Bse118I RCCGGY 1 cut(s) 74
Bse1I ACTGG 2 cut(s) 43, 344
BseBI CCWGG 1 cut(s) 224
BseCI ATCGAT 1 cut(s) 839
BseDI CCNNGG 1 cut(s) 222
BseLI CCNNNNNNNGG 1 cut(s) 204
BseNI ACTGG 2 cut(s) 43, 344
BseXI GCAGC 2 cut(s) 247, 488
Bsh1236I CGCG 1 cut(s) 176
BshVI ATCGAT 1 cut(s) 839
BsiHKAI GWGCWC 1 cut(s) 912
BsiHKCI CYCGRG 1 cut(s) 749
BsiSI CCGG 2 cut(s) 75, 198
BslFI GGGAC 2 cut(s) 257, 626
BslI CCNNNNNNNGG 1 cut(s) 204
BsmAI GTCTC 3 cut(s) 350, 431, 709
BsmFI GGGAC 2 cut(s) 257, 626
BsmI GAATGC 1 cut(s) 742
Bso31I GGTCTC 1 cut(s) 709
BsoBI CYCGRG 1 cut(s) 749
Bsp1286I GDGCHC 2 cut(s) 210, 912
Bsp143I GATC 5 cut(s) 187, 292, 391, 664, 844
BspACI CCGC 5 cut(s) 87, 141, 174, 303, 724
BspDI ATCGAT 1 cut(s) 839
BspFNI CGCG 1 cut(s) 176
BspLI GGNNCC 1 cut(s) 748
BspPI GGATC 2 cut(s) 287, 672
BspTNI GGTCTC 1 cut(s) 709
BsrBI CCGCTC 1 cut(s) 143
BsrFI RCCGGY 1 cut(s) 74
BsrI ACTGG 2 cut(s) 43, 344
BssAI RCCGGY 1 cut(s) 74
BssECI CCNNGG 1 cut(s) 222
BssMI GATC 5 cut(s) 187, 292, 391, 664, 844
BssNI GRCGYC 1 cut(s) 108
BssSI CACGAG 2 cut(s) 276, 762
Bst2BI CACGAG 2 cut(s) 276, 762
Bst2UI CCWGG 1 cut(s) 224
Bst4CI ACNGT 3 cut(s) 442, 553, 619
BstACI GRCGYC 1 cut(s) 108
BstC8I GCNNGC 3 cut(s) 76, 283, 287
BstFNI CGCG 1 cut(s) 176
BstKTI GATC 5 cut(s) 190, 295, 394, 667, 847
BstMAI GTCTC 3 cut(s) 350, 431, 709
BstMBI GATC 5 cut(s) 187, 292, 391, 664, 844
BstMWI GCNNNNNNNGC 1 cut(s) 84
BstNI CCWGG 1 cut(s) 224
BstNSI RCATGY 1 cut(s) 827
BstPAI GACNNNNGTC 1 cut(s) 231
BstSCI CCNGG 1 cut(s) 222
BstUI CGCG 1 cut(s) 176
BstV1I GCAGC 2 cut(s) 247, 488
BstV2I GAAGAC 1 cut(s) 17
BstX2I RGATCY 2 cut(s) 292, 664
BstXI CCANNNNNNTGG 1 cut(s) 585
BstYI RGATCY 2 cut(s) 292, 664
Bsu15I ATCGAT 1 cut(s) 839
BsuI GTATCC 2 cut(s) 35, 794
BsuTUI ATCGAT 1 cut(s) 839
BtsIMutI CAGTG 1 cut(s) 590
Cac8I GCNNGC 3 cut(s) 76, 283, 287
Cfr10I RCCGGY 1 cut(s) 74
Cfr13I GGNCC 2 cut(s) 542, 746
ClaI ATCGAT 1 cut(s) 839
CseI GACGC 1 cut(s) 164
Csp6I GTAC 2 cut(s) 36, 320
CviAII CATG 4 cut(s) 307, 632, 824, 981
CviQI GTAC 2 cut(s) 36, 320
DpnI GATC 5 cut(s) 189, 294, 393, 666, 846
DpnII GATC 5 cut(s) 187, 292, 391, 664, 844
DrdI GACNNNNNNGTC 1 cut(s) 701
DseDI GACNNNNNNGTC 1 cut(s) 701
EciI GGCGGA 1 cut(s) 292
Ecl136II GAGCTC 1 cut(s) 910
Eco24I GRGCYC 2 cut(s) 210, 912
Eco31I GGTCTC 1 cut(s) 709
Eco47I GGWCC 2 cut(s) 542, 746
Eco53kI GAGCTC 1 cut(s) 910
Eco88I CYCGRG 1 cut(s) 749
EcoICRI GAGCTC 1 cut(s) 910
EcoRII CCWGG 1 cut(s) 222
EcoT38I GRGCYC 2 cut(s) 210, 912
FaeI CATG 4 cut(s) 310, 635, 827, 984
FaqI GGGAC 2 cut(s) 257, 626
FatI CATG 4 cut(s) 306, 631, 823, 980
FauI CCCGC 2 cut(s) 148, 181
FauNDI CATATG 1 cut(s) 972
FbaI TGATCA 1 cut(s) 391
FblI GTMKAC 1 cut(s) 621
Fnu4HI GCNGC 3 cut(s) 261, 477, 725
FriOI GRGCYC 2 cut(s) 210, 912
Fsp4HI GCNGC 3 cut(s) 261, 477, 725
FspBI CTAG 2 cut(s) 203, 728
GluI GCNGC 3 cut(s) 261, 477, 725
HapII CCGG 2 cut(s) 75, 198
HgaI GACGC 1 cut(s) 164
Hin1I GRCGYC 1 cut(s) 108
Hin1II CATG 4 cut(s) 310, 635, 827, 984
HincII GTYRAC 2 cut(s) 451, 945
HindII GTYRAC 2 cut(s) 451, 945
HindIII AAGCTT 2 cut(s) 66, 508
HinfI GANTC 6 cut(s) 299, 376, 571, 895, 953, 959
HpaI GTTAAC 1 cut(s) 945
HpaII CCGG 2 cut(s) 75, 198
HphI GGTGA 4 cut(s) 101, 113, 549, 852
Hpy166II GTNNAC 5 cut(s) 337, 451, 622, 746, 945
Hpy188I TCNGA 4 cut(s) 709, 735, 797, 958
Hpy188III TCNNGA 2 cut(s) 250, 296
Hpy8I GTNNAC 5 cut(s) 337, 451, 622, 746, 945
Hpy99I CGWCG 3 cut(s) 110, 113, 158
HpyAV CCTTC 1 cut(s) 926
HpyCH4III ACNGT 3 cut(s) 442, 553, 619
HpyCH4IV ACGT 4 cut(s) 108, 318, 453, 657
HpyCH4V TGCA 5 cut(s) 446, 476, 515, 788, 833
HpyF10VI GCNNNNNNNGC 1 cut(s) 84
HpySE526I ACGT 4 cut(s) 108, 318, 453, 657
Hsp92I GRCGYC 1 cut(s) 108
Hsp92II CATG 4 cut(s) 310, 635, 827, 984
KroI GCCGGC 1 cut(s) 74
KroNI GCCGGC 1 cut(s) 76
Ksp22I TGATCA 1 cut(s) 391
KspAI GTTAAC 1 cut(s) 945
Kzo9I GATC 5 cut(s) 187, 292, 391, 664, 844
LmnI GCTCC 2 cut(s) 602, 981
Lsp1109I GCAGC 2 cut(s) 247, 488
LweI GCATC 3 cut(s) 64, 711, 842
MaeI CTAG 2 cut(s) 203, 728
MaeII ACGT 4 cut(s) 108, 318, 453, 657
MaeIII GTNAC 1 cut(s) 858
MalI GATC 5 cut(s) 189, 294, 393, 666, 846
MbiI CCGCTC 1 cut(s) 143
MboI GATC 5 cut(s) 187, 292, 391, 664, 844
MboII GAAGA 8 cut(s) 19, 22, 50, 53, 120, 440, 443, 619
MflI RGATCY 2 cut(s) 292, 664
MhlI GDGCHC 2 cut(s) 210, 912
MluCI AATT 5 cut(s) 24, 211, 253, 579, 686
MlyI GAGTC 2 cut(s) 565, 947
MmeI TCCRAC 1 cut(s) 941
MnlI CCTC 6 cut(s) 26, 174, 555, 570, 747, 791
MroNI GCCGGC 1 cut(s) 74
MseI TTAA 6 cut(s) 192, 602, 660, 689, 819, 944
MspI CCGG 2 cut(s) 75, 198
MspR9I CCNGG 1 cut(s) 224
Mva1269I GAATGC 1 cut(s) 742
MvaI CCWGG 1 cut(s) 224
MvnI CGCG 1 cut(s) 176
MwoI GCNNNNNNNGC 1 cut(s) 84
NaeI GCCGGC 1 cut(s) 76
NdeI CATATG 1 cut(s) 972
NdeII GATC 5 cut(s) 187, 292, 391, 664, 844
NgoMIV GCCGGC 1 cut(s) 74
NlaIII CATG 4 cut(s) 310, 635, 827, 984
NlaIV GGNNCC 1 cut(s) 748
NmuCI GTSAC 1 cut(s) 858
NspI RCATGY 1 cut(s) 827
PciI ACATGT 1 cut(s) 823
PctI GAATGC 1 cut(s) 742
PdiI GCCGGC 1 cut(s) 76
PfeI GAWTC 4 cut(s) 299, 376, 895, 959
PkrI GCNGC 3 cut(s) 262, 478, 726
PleI GAGTC 2 cut(s) 565, 947
PpsI GAGTC 2 cut(s) 565, 947
PscI ACATGT 1 cut(s) 823
PshAI GACNNNNGTC 1 cut(s) 231
PshBI ATTAAT 1 cut(s) 689
Psp124BI GAGCTC 1 cut(s) 912
Psp1406I AACGTT 1 cut(s) 453
Psp6I CCWGG 1 cut(s) 222
PspGI CCWGG 1 cut(s) 222
PspN4I GGNNCC 1 cut(s) 748
PspPI GGNCC 2 cut(s) 542, 746
PsuI RGATCY 2 cut(s) 292, 664
RsaI GTAC 2 cut(s) 37, 321
RsaNI GTAC 2 cut(s) 36, 320
SacI GAGCTC 1 cut(s) 912
SaqAI TTAA 6 cut(s) 192, 602, 660, 689, 819, 944
SatI GCNGC 3 cut(s) 261, 477, 725
Sau3AI GATC 5 cut(s) 187, 292, 391, 664, 844
Sau96I GGNCC 2 cut(s) 542, 746
SchI GAGTC 2 cut(s) 565, 947
ScrFI CCNGG 1 cut(s) 224
SduI GDGCHC 2 cut(s) 210, 912
SfaNI GCATC 3 cut(s) 64, 711, 842
SinI GGWCC 2 cut(s) 542, 746
SmlI CTYRAG 1 cut(s) 905
SmoI CTYRAG 1 cut(s) 905
Sse9I AATT 5 cut(s) 24, 211, 253, 579, 686
SsiI CCGC 5 cut(s) 87, 141, 174, 303, 724
SspI AATATT 1 cut(s) 519
SspMI CTAG 2 cut(s) 203, 728
SstI GAGCTC 1 cut(s) 912
StyD4I CCNGG 1 cut(s) 222
TaaI ACNGT 3 cut(s) 442, 553, 619
TaiI ACGT 4 cut(s) 111, 321, 456, 660
TaqI TCGA 3 cut(s) 153, 186, 839
TasI AATT 5 cut(s) 24, 211, 253, 579, 686
TauI GCSGC 1 cut(s) 727
TfiI GAWTC 4 cut(s) 299, 376, 895, 959
Tru1I TTAA 6 cut(s) 192, 602, 660, 689, 819, 944
Tru9I TTAA 6 cut(s) 192, 602, 660, 689, 819, 944
TscAI CASTG 1 cut(s) 590
TseFI GTSAC 1 cut(s) 858
TseI GCWGC 2 cut(s) 260, 476
Tsp45I GTSAC 1 cut(s) 858
TspDTI ATGAA 2 cut(s) 368, 887
TspRI CASTG 1 cut(s) 590
VpaK11BI GGWCC 2 cut(s) 542, 746
VspI ATTAAT 1 cut(s) 689
XceI RCATGY 1 cut(s) 827
XmiI GTMKAC 1 cut(s) 621
XspI CTAG 2 cut(s) 203, 728
ZraI GACGTC 1 cut(s) 109
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.