Rh5BG021900

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
rosa_samantha
Chr5B
OG0012902
Physical Location & Seq
Reverse (-)
1599678 .. 1601994
2317 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh5BG021900.1

Sequence Viewer

Length: 747 bp
ATGTCCAGCTCCGCCGCAGTCTTCGACGGCGTCGCAGCCACCGCGCTCCGCTCAGTTCTCCACCGCGTCCAGCTGGCAGCCGAAAAGTCCGGCCGCCGCGCCGACGAGATCCGAGTGGTGGCGGTGAGCAAGACGAAGCCGGCGGCCGTCCTCCGCCAAGTCTACGACGCCGGCCACCGCTGCTTCGGCGAGAACTACGTCCAGGAAATCGTCGAGAAAGCTCCTCAGCTTCCTGAAGATATAGAGTGGCATTTTATTGGGAATTTGCAGAGCAATAAAGTAAAGCCTCTTCTAAGTGCTGTTCCCAACCTTGCAATGGTAGAGAGTGTGGATGATGAGAAGATTGCAAATCGTCTTAATACTGTTGTTTCTAGCATTGGGAGAAAGCCTTTGAAGGTCTTGCTCCAAGTGAATACTAGTGGAGAAGAATCAAAATCTGGTGTTGAGCCCTCTGGATGTGTGGAGCTCGCAAAGCATGTGAGTTTGGATTGTCCAAACCTTGAGTTTTGTGGTCTAATGACCATTGGTATGTTGGATTATTCATCTACACCAGAAAACTTTAAGACATTAGCCAACTGCAGAGCGGAGGTCTGCAAGGCACTTGGAATTCCAGAAGAGAAATGTGAGCTATCAATGGGCATGTCTGCGGACTTTCAGCTAGCTGTAAGGACTAATCCATGGCTTTATCCTACTAATTTGTATACATTTATAATGTGTATCTGGATAGTCGAAAACTTACACTTCTAA
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

248

Amino Acids

27.29

Weight (kDa)

5.79

Isoelectric Point (pI)

36.99

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Ala_racemase_N PF01168 20 - 220 8.5e-13 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)
AanI TTATAA 1 cut(s) 710
AccBSI CCGCTC 2 cut(s) 51, 584
AccI GTMKAC 2 cut(s) 162, 701
AccII CGCG 3 cut(s) 44, 66, 99
AclWI GGATC 1 cut(s) 103
AcoI YGGCCR 3 cut(s) 91, 144, 172
AcsI RAATTY 2 cut(s) 262, 606
AcuI CTGAAG 1 cut(s) 255
AcyI GRCGYC 2 cut(s) 30, 168
AfiI CCNNNNNNNGG 2 cut(s) 118, 316
AgsI TTSAA 1 cut(s) 394
AhlI ACTAGT 1 cut(s) 416
AjnI CCWGG 1 cut(s) 201
AluBI AGCT 8 cut(s) 9, 73, 221, 229, 466, 628, 658, 662
AluI AGCT 8 cut(s) 9, 73, 221, 229, 466, 628, 658, 662
Alw21I GWGCWC 1 cut(s) 468
AlwI GGATC 1 cut(s) 103
AoxI GGCC 3 cut(s) 91, 144, 172
ApeKI GCWGC 3 cut(s) 35, 77, 180
ApoI RAATTY 2 cut(s) 262, 606
AspLEI GCGC 2 cut(s) 46, 101
AsuHPI GGTGA 1 cut(s) 136
AsuNHI GCTAGC 1 cut(s) 658
BanII GRGCYC 2 cut(s) 450, 468
BarI GAAGNNNNNNTAC 2 cut(s) 273, 305
BbsI GAAGAC 1 cut(s) 13
Bbv12I GWGCWC 1 cut(s) 468
BbvCI CCTCAGC 1 cut(s) 225
BbvI GCAGC 3 cut(s) 47, 89, 167
BceAI ACGGC 2 cut(s) 43, 131
BciT130I CCWGG 1 cut(s) 203
BcuI ACTAGT 1 cut(s) 416
BfaI CTAG 3 cut(s) 372, 417, 659
BfmI CTRYAG 1 cut(s) 577
BisI GCNGC 7 cut(s) 15, 36, 78, 94, 97, 144, 181
BlsI GCNGC 7 cut(s) 16, 37, 79, 95, 98, 145, 182
Bme1390I CCNGG 1 cut(s) 203
BmrFI CCNGG 1 cut(s) 203
BmtI GCTAGC 1 cut(s) 662
BpiI GAAGAC 1 cut(s) 13
Bpu10I CCTNAGC 1 cut(s) 225
BpuEI CTTGAG 1 cut(s) 521
BsaHI GRCGYC 2 cut(s) 30, 168
BsaJI CCNNGG 1 cut(s) 677
Bsc4I CCNNNNNNNGG 2 cut(s) 118, 316
Bse118I RCCGGY 2 cut(s) 139, 170
Bse3DI GCAATG 1 cut(s) 321
BseBI CCWGG 1 cut(s) 203
BseDI CCNNGG 1 cut(s) 677
BseGI GGATG 2 cut(s) 337, 461
BseLI CCNNNNNNNGG 2 cut(s) 118, 316
BseMI GCAATG 1 cut(s) 321
BseMII CTCAG 2 cut(s) 66, 239
BseRI GAGGAG 1 cut(s) 213
BseX3I CGGCCG 2 cut(s) 91, 144
BseXI GCAGC 3 cut(s) 47, 89, 167
Bsh1236I CGCG 3 cut(s) 44, 66, 99
Bsh1285I CGRYCG 2 cut(s) 94, 147
BshFI GGCC 3 cut(s) 93, 146, 174
BsiEI CGRYCG 2 cut(s) 94, 147
BsiHKAI GWGCWC 1 cut(s) 468
BsiSI CCGG 3 cut(s) 90, 140, 171
BslI CCNNNNNNNGG 2 cut(s) 118, 316
BsnI GGCC 3 cut(s) 93, 146, 174
Bsp1286I GDGCHC 2 cut(s) 450, 468
Bsp143I GATC 1 cut(s) 108
Bsp19I CCATGG 1 cut(s) 677
BspANI GGCC 3 cut(s) 93, 146, 174
BspCNI CTCAG 2 cut(s) 65, 238
BspFNI CGCG 3 cut(s) 44, 66, 99
BspMAI CTGCAG 1 cut(s) 581
BspOI GCTAGC 1 cut(s) 662
BspPI GGATC 1 cut(s) 103
BsrBI CCGCTC 2 cut(s) 51, 584
BsrDI GCAATG 1 cut(s) 321
BsrFI RCCGGY 2 cut(s) 139, 170
BssAI RCCGGY 2 cut(s) 139, 170
BssECI CCNNGG 1 cut(s) 677
BssMI GATC 1 cut(s) 108
BssNAI GTATAC 1 cut(s) 702
BssNI GRCGYC 2 cut(s) 30, 168
BssT1I CCWWGG 1 cut(s) 677
Bst1107I GTATAC 1 cut(s) 702
Bst2UI CCWGG 1 cut(s) 203
Bst4CI ACNGT 1 cut(s) 364
Bst6I CTCTTC 2 cut(s) 294, 609
BstACI GRCGYC 2 cut(s) 30, 168
BstC8I GCNNGC 5 cut(s) 75, 141, 172, 468, 660
BstDEI CTNAG 3 cut(s) 52, 225, 293
BstDSI CCRYGG 1 cut(s) 677
BstF5I GGATG 2 cut(s) 337, 461
BstFNI CGCG 3 cut(s) 44, 66, 99
BstHHI GCGC 2 cut(s) 46, 101
BstKTI GATC 1 cut(s) 111
BstMBI GATC 1 cut(s) 108
BstMCI CGRYCG 2 cut(s) 94, 147
BstMWI GCNNNNNNNGC 4 cut(s) 41, 180, 186, 472
BstNI CCWGG 1 cut(s) 203
BstNSI RCATGY 2 cut(s) 479, 643
BstSCI CCNGG 1 cut(s) 201
BstSFI CTRYAG 1 cut(s) 577
BstUI CGCG 3 cut(s) 44, 66, 99
BstV1I GCAGC 3 cut(s) 47, 89, 167
BstV2I GAAGAC 1 cut(s) 13
BstX2I RGATCY 1 cut(s) 108
BstYI RGATCY 1 cut(s) 108
BstZ17I GTATAC 1 cut(s) 702
BstZI CGGCCG 2 cut(s) 91, 144
BsuRI GGCC 3 cut(s) 93, 146, 174
BtgI CCRYGG 1 cut(s) 677
BtsCI GGATG 2 cut(s) 337, 461
Cac8I GCNNGC 5 cut(s) 75, 141, 172, 468, 660
CfoI GCGC 2 cut(s) 46, 101
Cfr10I RCCGGY 2 cut(s) 139, 170
CseI GACGC 3 cut(s) 19, 55, 176
CviAII CATG 3 cut(s) 476, 640, 678
DdeI CTNAG 3 cut(s) 52, 225, 293
DpnI GATC 1 cut(s) 110
DpnII GATC 1 cut(s) 108
EaeI YGGCCR 3 cut(s) 91, 144, 172
EagI CGGCCG 2 cut(s) 91, 144
Eam1104I CTCTTC 2 cut(s) 294, 609
EarI CTCTTC 2 cut(s) 294, 609
EciI GGCGGA 1 cut(s) 143
Ecl136II GAGCTC 1 cut(s) 466
EclXI CGGCCG 2 cut(s) 91, 144
Eco130I CCWWGG 1 cut(s) 677
Eco24I GRGCYC 2 cut(s) 450, 468
Eco52I CGGCCG 2 cut(s) 91, 144
Eco53kI GAGCTC 1 cut(s) 466
Eco57I CTGAAG 1 cut(s) 255
EcoICRI GAGCTC 1 cut(s) 466
EcoRI GAATTC 1 cut(s) 606
EcoRII CCWGG 1 cut(s) 201
EcoT14I CCWWGG 1 cut(s) 677
EcoT38I GRGCYC 2 cut(s) 450, 468
ErhI CCWWGG 1 cut(s) 677
FaeI CATG 3 cut(s) 479, 643, 681
FaiI YATR 7 cut(s) 242, 477, 530, 641, 679, 702, 710
FatI CATG 3 cut(s) 475, 639, 677
FblI GTMKAC 2 cut(s) 162, 701
Fnu4HI GCNGC 7 cut(s) 15, 36, 78, 94, 97, 144, 181
FokI GGATG 2 cut(s) 344, 468
FriOI GRGCYC 2 cut(s) 450, 468
Fsp4HI GCNGC 7 cut(s) 15, 36, 78, 94, 97, 144, 181
FspBI CTAG 3 cut(s) 372, 417, 659
GlaI GCGC 2 cut(s) 45, 100
GluI GCNGC 7 cut(s) 15, 36, 78, 94, 97, 144, 181
HaeIII GGCC 3 cut(s) 93, 146, 174
HapII CCGG 3 cut(s) 90, 140, 171
HgaI GACGC 3 cut(s) 19, 55, 176
HhaI GCGC 2 cut(s) 46, 101
Hin1I GRCGYC 2 cut(s) 30, 168
Hin1II CATG 3 cut(s) 479, 643, 681
Hin6I GCGC 2 cut(s) 44, 99
HinP1I GCGC 2 cut(s) 44, 99
HinfI GANTC 1 cut(s) 428
HpaII CCGG 3 cut(s) 90, 140, 171
HphI GGTGA 1 cut(s) 136
Hpy166II GTNNAC 2 cut(s) 163, 702
Hpy188I TCNGA 1 cut(s) 113
Hpy188III TCNNGA 5 cut(s) 214, 233, 453, 611, 721
Hpy8I GTNNAC 2 cut(s) 163, 702
Hpy99I CGWCG 5 cut(s) 29, 35, 107, 170, 215
HpyAV CCTTC 1 cut(s) 388
HpyCH4III ACNGT 1 cut(s) 364
HpyCH4IV ACGT 1 cut(s) 198
HpyCH4V TGCA 5 cut(s) 268, 314, 347, 579, 594
HpyF10VI GCNNNNNNNGC 4 cut(s) 41, 180, 186, 472
HpyF3I CTNAG 3 cut(s) 52, 225, 293
HpySE526I ACGT 1 cut(s) 198
Hsp92I GRCGYC 2 cut(s) 30, 168
Hsp92II CATG 3 cut(s) 479, 643, 681
HspAI GCGC 2 cut(s) 44, 99
KroI GCCGGC 2 cut(s) 139, 170
KroNI GCCGGC 2 cut(s) 141, 172
Kzo9I GATC 1 cut(s) 108
LmnI GCTCC 5 cut(s) 14, 51, 226, 408, 463
Lsp1109I GCAGC 3 cut(s) 47, 89, 167
MaeI CTAG 3 cut(s) 372, 417, 659
MaeII ACGT 1 cut(s) 198
MalI GATC 1 cut(s) 110
MbiI CCGCTC 2 cut(s) 51, 584
MboI GATC 1 cut(s) 108
MboII GAAGA 6 cut(s) 13, 248, 281, 352, 437, 626
MflI RGATCY 1 cut(s) 108
MhlI GDGCHC 2 cut(s) 450, 468
MluCI AATT 3 cut(s) 262, 606, 694
MmeI TCCRAC 1 cut(s) 513
MnlI CCTC 5 cut(s) 161, 234, 297, 460, 580
MroNI GCCGGC 2 cut(s) 139, 170
MseI TTAA 2 cut(s) 357, 561
MslI CAYNNNNRTG 1 cut(s) 527
MspA1I CMGCKG 2 cut(s) 73, 180
MspI CCGG 3 cut(s) 90, 140, 171
MspR9I CCNGG 1 cut(s) 203
MvaI CCWGG 1 cut(s) 203
MvnI CGCG 3 cut(s) 44, 66, 99
MwoI GCNNNNNNNGC 4 cut(s) 41, 180, 186, 472
NaeI GCCGGC 2 cut(s) 141, 172
NcoI CCATGG 1 cut(s) 677
NdeII GATC 1 cut(s) 108
NgoMIV GCCGGC 2 cut(s) 139, 170
NheI GCTAGC 1 cut(s) 658
NlaIII CATG 3 cut(s) 479, 643, 681
NspI RCATGY 2 cut(s) 479, 643
PdiI GCCGGC 2 cut(s) 141, 172
PfeI GAWTC 1 cut(s) 428
PflFI GACNNNGTC 1 cut(s) 29
PfoI TCCNGGA 1 cut(s) 201
PkrI GCNGC 7 cut(s) 16, 37, 79, 95, 98, 145, 182
PsiI TTATAA 1 cut(s) 710
Psp124BI GAGCTC 1 cut(s) 468
Psp6I CCWGG 1 cut(s) 201
PspGI CCWGG 1 cut(s) 201
PstI CTGCAG 1 cut(s) 581
PsuI RGATCY 1 cut(s) 108
PsyI GACNNNGTC 1 cut(s) 29
PvuII CAGCTG 1 cut(s) 73
RseI CAYNNNNRTG 1 cut(s) 527
SacI GAGCTC 1 cut(s) 468
SaqAI TTAA 2 cut(s) 357, 561
SatI GCNGC 7 cut(s) 15, 36, 78, 94, 97, 144, 181
Sau3AI GATC 1 cut(s) 108
ScrFI CCNGG 1 cut(s) 203
SduI GDGCHC 2 cut(s) 450, 468
SfcI CTRYAG 1 cut(s) 577
SmiMI CAYNNNNRTG 1 cut(s) 527
SmlI CTYRAG 1 cut(s) 500
SmoI CTYRAG 1 cut(s) 500
SpeI ACTAGT 1 cut(s) 416
Sse9I AATT 3 cut(s) 262, 606, 694
SspMI CTAG 3 cut(s) 372, 417, 659
SstI GAGCTC 1 cut(s) 468
StyD4I CCNGG 1 cut(s) 201
StyI CCWWGG 1 cut(s) 677
TaaI ACNGT 1 cut(s) 364
TaiI ACGT 1 cut(s) 201
TaqI TCGA 3 cut(s) 24, 213, 729
TasI AATT 3 cut(s) 262, 606, 694
TauI GCSGC 4 cut(s) 17, 96, 99, 146
TfiI GAWTC 1 cut(s) 428
Tru1I TTAA 2 cut(s) 357, 561
Tru9I TTAA 2 cut(s) 357, 561
TseI GCWGC 3 cut(s) 35, 77, 180
TspDTI ATGAA 1 cut(s) 531
Tth111I GACNNNGTC 1 cut(s) 29
XapI RAATTY 2 cut(s) 262, 606
XceI RCATGY 2 cut(s) 479, 643
XcmI CCANNNNNNNNNTGG 2 cut(s) 313, 529
XmiI GTMKAC 2 cut(s) 162, 701
XspI CTAG 3 cut(s) 372, 417, 659
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.