MD10G1325400.v1.1

Pyridoxal 5'-phosphate (PLP)-binding protein, which may be involved in intracellular homeostatic regulation of pyridoxal 5'-phosphate (PLP), the active form of vitamin B6

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr10
OG0012902
Physical Location & Seq
Forward (+)
40590759 .. 40593013
2255 bp
Loading structure...
UTR
Exon/CDS
Intron
MD10G1325400.v1.1.491

Sequence Viewer

Length: 753 bp
ATGCAATGGCCGTGTAATCGCGATTCGCAACCCAACAATCTGGAGAAGGCGGAGAGAGAGAACGAAACCAGAGGAGGGGAGCAACCGGCCATGGCTAGCTCTGCCGCAGTGGACGGTGTCGCAGCGACGGCGCTCCGCTCGACGAAGCCAGTCTCCGTGCTCCGCCAAGTGTACGACGCCGGCCATCGCTGTTTCGGCGAAAACTACGTCCAAGAAATCGTCGAGAAAACTCCTCAGCTTCCGGAGGACATTGAGTGGCATTTCATTGGAAATTTGCAGAGCAACAAAGTGAAACCCCTTCTAAGTGGTGTACCAAACCTTTCAATGGTAGAGAGTGTGGATGATGAGAAGATTGCAAATCGTCTTAATCACGTGGTTGGTAGCATTGGGAGAAAGCCTCTGAAGGTGTTGCTCCAAGTGAATACGAGCGGAGAGGAATCAAAATCTGGCGTTGAGCCCTCTGGATGTGTGGAACTTGCAAAGCATGTAACTTCGGGTTGTCCAAACCTTGAGTTTTGTGGTCTAATGACGATTGGGATGCTGGATTATACTTCTACACCGGAAAACTTTAAGACGTTGGCGAACTGCAGAACTGAGGTTTGCAAGGAACTTGGTATACCGGAGGAGCAATGTGAGCTTTCAATGGGCATGTCTTCAGATTTTGAGCTAGCTATCGAAATGGGCAGTACAAACGTGAGAATTGGATCTACAATATTCGGGGCGAGAGAATATCCAAAGAAACAATCAAATTAG
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
Ala_racemase_N

Protein Analysis

251

Amino Acids

27.35

Weight (kDa)

5.1

Isoelectric Point (pI)

39.22

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Ala_racemase_N PF01168 52 - 242 3.5e-15 Alanine racemase, N-terminal domain
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: OG0012902)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G11930 AT1G11930
fragaria_vesca FvH4_3g01630 FvH4_3g01630 FvH4_3g01630
malus_domestica MD05G1350700.v1.1 MD10G1325400.v1.1
prunus_persica Prupe.4G016700_v2.0.a1
rosa_chinensis RchiOBHm_Chr5g0002421
rosa_laevigata RLG00000031031
rosa_multiflora Rmu_sc0001717.1_g000005
rosa_roxburghii Rroxscaffold_1G00073430
rosa_rugosa Rorug04G0396100
rosa_samantha Rh5AG019000 Rh5BG021900 Rh5CG020900 Rh5DG020000
rosa_wichuraiana Rw5G001780

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccBSI CCGCTC 2 cut(s) 138, 429
AccI GTMKAC 1 cut(s) 616
AccII CGCG 1 cut(s) 21
AccIII TCCGGA 1 cut(s) 241
AciI CCGC 5 cut(s) 50, 105, 136, 163, 429
AclWI GGATC 1 cut(s) 712
AcoI YGGCCR 3 cut(s) 8, 87, 181
AcsI RAATTY 1 cut(s) 271
AcuI CTGAAG 2 cut(s) 422, 639
AcvI CACGTG 1 cut(s) 373
AcyI GRCGYC 1 cut(s) 177
AfaI GTAC 3 cut(s) 173, 312, 688
AfiI CCNNNNNNNGG 2 cut(s) 75, 325
AgsI TTSAA 2 cut(s) 324, 642
AluBI AGCT 5 cut(s) 99, 238, 637, 667, 671
AluI AGCT 5 cut(s) 99, 238, 637, 667, 671
Alw21I GWGCWC 1 cut(s) 162
Alw26I GTCTC 1 cut(s) 157
AlwI GGATC 1 cut(s) 712
Aor13HI TCCGGA 1 cut(s) 241
AoxI GGCC 3 cut(s) 8, 87, 181
ApeKI GCWGC 1 cut(s) 122
ApoI RAATTY 1 cut(s) 271
ArsI GACNNNNNNTTYG 2 cut(s) 192, 224
AspLEI GCGC 1 cut(s) 133
AsuNHI GCTAGC 2 cut(s) 95, 667
BanII GRGCYC 1 cut(s) 459
BbrPI CACGTG 1 cut(s) 373
BbsI GAAGAC 1 cut(s) 645
Bbv12I GWGCWC 1 cut(s) 162
BbvCI CCTCAGC 1 cut(s) 234
BbvI GCAGC 1 cut(s) 134
BccI CCATC 1 cut(s) 192
BceAI ACGGC 1 cut(s) 144
BcgI CGANNNNNNTGC 2 cut(s) 520, 554
BcoDI GTCTC 1 cut(s) 157
BfaI CTAG 2 cut(s) 96, 668
BfmI CTRYAG 1 cut(s) 586
BfoI RGCGCY 1 cut(s) 134
BisI GCNGC 2 cut(s) 105, 123
BlsI GCNGC 2 cut(s) 106, 124
BmsI GCATC 1 cut(s) 528
BmtI GCTAGC 2 cut(s) 99, 671
BpiI GAAGAC 1 cut(s) 645
BplI GAGNNNNNCTC 2 cut(s) 382, 414
BpmI CTGGAG 1 cut(s) 62
Bpu10I CCTNAGC 1 cut(s) 234
BpuEI CTTGAG 1 cut(s) 530
BsaAI YACGTR 1 cut(s) 373
BsaHI GRCGYC 1 cut(s) 177
BsaJI CCNNGG 1 cut(s) 90
BsaWI WCCGGW 3 cut(s) 241, 559, 619
Bsc4I CCNNNNNNNGG 2 cut(s) 75, 325
Bse118I RCCGGY 2 cut(s) 85, 179
Bse1I ACTGG 1 cut(s) 149
Bse3DI GCAATG 2 cut(s) 11, 635
BseAI TCCGGA 1 cut(s) 241
BseDI CCNNGG 1 cut(s) 90
BseGI GGATG 3 cut(s) 346, 470, 543
BseLI CCNNNNNNNGG 2 cut(s) 75, 325
BseMI GCAATG 2 cut(s) 11, 635
BseMII CTCAG 2 cut(s) 248, 585
BseNI ACTGG 1 cut(s) 149
BseRI GAGGAG 3 cut(s) 87, 222, 638
BseXI GCAGC 1 cut(s) 134
Bsh1236I CGCG 1 cut(s) 21
BshFI GGCC 3 cut(s) 10, 89, 183
BsiHKAI GWGCWC 1 cut(s) 162
BsiSI CCGG 5 cut(s) 86, 180, 242, 560, 620
BslI CCNNNNNNNGG 2 cut(s) 75, 325
BsmAI GTCTC 1 cut(s) 157
BsnI GGCC 3 cut(s) 10, 89, 183
Bsp1286I GDGCHC 2 cut(s) 162, 459
Bsp13I TCCGGA 1 cut(s) 241
Bsp143I GATC 1 cut(s) 704
Bsp19I CCATGG 1 cut(s) 90
Bsp68I TCGCGA 1 cut(s) 21
BspACI CCGC 5 cut(s) 50, 105, 136, 163, 429
BspANI GGCC 3 cut(s) 10, 89, 183
BspCNI CTCAG 2 cut(s) 247, 586
BspEI TCCGGA 1 cut(s) 241
BspFNI CGCG 1 cut(s) 21
BspMAI CTGCAG 1 cut(s) 590
BspOI GCTAGC 2 cut(s) 99, 671
BspPI GGATC 1 cut(s) 712
BsrBI CCGCTC 2 cut(s) 138, 429
BsrDI GCAATG 2 cut(s) 11, 635
BsrFI RCCGGY 2 cut(s) 85, 179
BsrI ACTGG 1 cut(s) 149
BssAI RCCGGY 2 cut(s) 85, 179
BssECI CCNNGG 1 cut(s) 90
BssMI GATC 1 cut(s) 704
BssNAI GTATAC 1 cut(s) 617
BssNI GRCGYC 1 cut(s) 177
BssT1I CCWWGG 1 cut(s) 90
Bst1107I GTATAC 1 cut(s) 617
Bst4CI ACNGT 1 cut(s) 116
BstACI GRCGYC 1 cut(s) 177
BstBAI YACGTR 1 cut(s) 373
BstC8I GCNNGC 3 cut(s) 97, 181, 669
BstDEI CTNAG 3 cut(s) 234, 302, 594
BstDSI CCRYGG 1 cut(s) 90
BstF5I GGATG 3 cut(s) 346, 470, 543
BstFNI CGCG 1 cut(s) 21
BstH2I RGCGCY 1 cut(s) 134
BstHHI GCGC 1 cut(s) 133
BstKTI GATC 1 cut(s) 707
BstMAI GTCTC 1 cut(s) 157
BstMBI GATC 1 cut(s) 704
BstMWI GCNNNNNNNGC 4 cut(s) 101, 128, 195, 634
BstNSI RCATGY 2 cut(s) 488, 652
BstSFI CTRYAG 1 cut(s) 586
BstUI CGCG 1 cut(s) 21
BstV1I GCAGC 1 cut(s) 134
BstV2I GAAGAC 1 cut(s) 645
BstX2I RGATCY 1 cut(s) 704
BstXI CCANNNNNNTGG 1 cut(s) 40
BstYI RGATCY 1 cut(s) 704
BstZ17I GTATAC 1 cut(s) 617
BsuRI GGCC 3 cut(s) 10, 89, 183
BtgI CCRYGG 1 cut(s) 90
BtgZI GCGATG 1 cut(s) 170
BtsCI GGATG 3 cut(s) 346, 470, 543
BtsI GCAGTG 1 cut(s) 114
BtsIMutI CAGTG 1 cut(s) 114
BtuMI TCGCGA 1 cut(s) 21
Cac8I GCNNGC 3 cut(s) 97, 181, 669
CfoI GCGC 1 cut(s) 133
Cfr10I RCCGGY 2 cut(s) 85, 179
CseI GACGC 1 cut(s) 185
Csp6I GTAC 3 cut(s) 172, 311, 687
CviAII CATG 3 cut(s) 91, 485, 649
CviQI GTAC 3 cut(s) 172, 311, 687
DdeI CTNAG 3 cut(s) 234, 302, 594
DpnI GATC 1 cut(s) 706
DpnII GATC 1 cut(s) 704
EaeI YGGCCR 3 cut(s) 8, 87, 181
EciI GGCGGA 2 cut(s) 65, 152
Eco130I CCWWGG 1 cut(s) 90
Eco24I GRGCYC 1 cut(s) 459
Eco57I CTGAAG 2 cut(s) 422, 639
Eco72I CACGTG 1 cut(s) 373
EcoT14I CCWWGG 1 cut(s) 90
EcoT38I GRGCYC 1 cut(s) 459
ErhI CCWWGG 1 cut(s) 90
FaeI CATG 3 cut(s) 94, 488, 652
FaiI YATR 5 cut(s) 92, 486, 549, 617, 650
FatI CATG 3 cut(s) 90, 484, 648
FblI GTMKAC 1 cut(s) 616
Fnu4HI GCNGC 2 cut(s) 105, 123
FokI GGATG 3 cut(s) 353, 477, 550
FriOI GRGCYC 1 cut(s) 459
Fsp4HI GCNGC 2 cut(s) 105, 123
FspBI CTAG 2 cut(s) 96, 668
GlaI GCGC 1 cut(s) 132
GluI GCNGC 2 cut(s) 105, 123
GsuI CTGGAG 1 cut(s) 62
HaeII RGCGCY 1 cut(s) 134
HaeIII GGCC 3 cut(s) 10, 89, 183
HapII CCGG 5 cut(s) 86, 180, 242, 560, 620
HgaI GACGC 1 cut(s) 185
HhaI GCGC 1 cut(s) 133
Hin1I GRCGYC 1 cut(s) 177
Hin1II CATG 3 cut(s) 94, 488, 652
Hin6I GCGC 1 cut(s) 131
HinP1I GCGC 1 cut(s) 131
HinfI GANTC 2 cut(s) 23, 437
HpaII CCGG 5 cut(s) 86, 180, 242, 560, 620
Hpy166II GTNNAC 4 cut(s) 112, 172, 311, 617
Hpy188I TCNGA 2 cut(s) 402, 658
Hpy188III TCNNGA 5 cut(s) 20, 41, 223, 242, 462
Hpy8I GTNNAC 4 cut(s) 112, 172, 311, 617
Hpy99I CGWCG 4 cut(s) 130, 145, 179, 224
HpyAV CCTTC 3 cut(s) 40, 308, 397
HpyCH4III ACNGT 1 cut(s) 116
HpyCH4IV ACGT 4 cut(s) 207, 372, 575, 693
HpyCH4V TGCA 6 cut(s) 4, 277, 356, 479, 588, 603
HpyF10VI GCNNNNNNNGC 4 cut(s) 101, 128, 195, 634
HpyF3I CTNAG 3 cut(s) 234, 302, 594
HpySE526I ACGT 4 cut(s) 207, 372, 575, 693
Hsp92I GRCGYC 1 cut(s) 177
Hsp92II CATG 3 cut(s) 94, 488, 652
HspAI GCGC 1 cut(s) 131
Kpn2I TCCGGA 1 cut(s) 241
KroI GCCGGC 1 cut(s) 179
KroNI GCCGGC 1 cut(s) 181
Kzo9I GATC 1 cut(s) 704
LmnI GCTCC 5 cut(s) 79, 138, 165, 417, 625
Lsp1109I GCAGC 1 cut(s) 134
LweI GCATC 1 cut(s) 528
MaeI CTAG 2 cut(s) 96, 668
MaeII ACGT 4 cut(s) 207, 372, 575, 693
MaeIII GTNAC 1 cut(s) 487
MalI GATC 1 cut(s) 706
MbiI CCGCTC 2 cut(s) 138, 429
MboI GATC 1 cut(s) 704
MboII GAAGA 2 cut(s) 361, 645
MflI RGATCY 1 cut(s) 704
MhlI GDGCHC 2 cut(s) 162, 459
MluCI AATT 3 cut(s) 271, 699, 748
MnlI CCTC 9 cut(s) 65, 68, 238, 243, 408, 427, 469, 589, 616
MroI TCCGGA 1 cut(s) 241
MroNI GCCGGC 1 cut(s) 179
MseI TTAA 2 cut(s) 366, 570
MspI CCGG 5 cut(s) 86, 180, 242, 560, 620
MvnI CGCG 1 cut(s) 21
MwoI GCNNNNNNNGC 4 cut(s) 101, 128, 195, 634
NaeI GCCGGC 1 cut(s) 181
NcoI CCATGG 1 cut(s) 90
NdeII GATC 1 cut(s) 704
NgoMIV GCCGGC 1 cut(s) 179
NheI GCTAGC 2 cut(s) 95, 667
NlaIII CATG 3 cut(s) 94, 488, 652
NruI TCGCGA 1 cut(s) 21
NspI RCATGY 2 cut(s) 488, 652
PdiI GCCGGC 1 cut(s) 181
PfeI GAWTC 2 cut(s) 23, 437
PflFI GACNNNGTC 1 cut(s) 116
PkrI GCNGC 2 cut(s) 106, 124
PmaCI CACGTG 1 cut(s) 373
PmlI CACGTG 1 cut(s) 373
Ppu21I YACGTR 1 cut(s) 373
PspCI CACGTG 1 cut(s) 373
PsrI GAACNNNNNNTAC 2 cut(s) 600, 632
PstI CTGCAG 1 cut(s) 590
PsuI RGATCY 1 cut(s) 704
PsyI GACNNNGTC 1 cut(s) 116
RruI TCGCGA 1 cut(s) 21
RsaI GTAC 3 cut(s) 173, 312, 688
RsaNI GTAC 3 cut(s) 172, 311, 687
SaqAI TTAA 2 cut(s) 366, 570
SatI GCNGC 2 cut(s) 105, 123
Sau3AI GATC 1 cut(s) 704
SduI GDGCHC 2 cut(s) 162, 459
SfaNI GCATC 1 cut(s) 528
SfcI CTRYAG 1 cut(s) 586
SmlI CTYRAG 1 cut(s) 509
SmoI CTYRAG 1 cut(s) 509
Sse9I AATT 3 cut(s) 271, 699, 748
SsiI CCGC 5 cut(s) 50, 105, 136, 163, 429
SspI AATATT 1 cut(s) 714
SspMI CTAG 2 cut(s) 96, 668
StyI CCWWGG 1 cut(s) 90
TaaI ACNGT 1 cut(s) 116
TaiI ACGT 4 cut(s) 210, 375, 578, 696
TaqI TCGA 3 cut(s) 140, 222, 675
TasI AATT 3 cut(s) 271, 699, 748
TatI WGTACW 1 cut(s) 686
TauI GCSGC 1 cut(s) 107
TfiI GAWTC 2 cut(s) 23, 437
Tru1I TTAA 2 cut(s) 366, 570
Tru9I TTAA 2 cut(s) 366, 570
TscAI CASTG 1 cut(s) 114
TseI GCWGC 1 cut(s) 122
TspDTI ATGAA 1 cut(s) 253
TspGWI ACGGA 1 cut(s) 145
TspRI CASTG 1 cut(s) 114
Tth111I GACNNNGTC 1 cut(s) 116
XapI RAATTY 1 cut(s) 271
XceI RCATGY 2 cut(s) 488, 652
XmiI GTMKAC 1 cut(s) 616
XspI CTAG 2 cut(s) 96, 668
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.