Rh5BG278900

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
OG0017509
Physical Location & Seq
Forward (+)
35191342 .. 35194428
3087 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh5BG278900.1

Sequence Viewer

Length: 738 bp
ATGGCTGCTCAGGCTGTCGAAAACGTCGCCGTATCGGCGCTCCGGTCGGTCGTTCTCCGAGTCCGGCAGGCTGCCGAGCGGTCGGGCCGGAATCCGGGTCAGGTGAGGCTGGTAGCTGTGTCGAAGACGAAGCCCATTTCTCTCATCCGGCAAGTCTACGACGCCGGCCACCGGCGTTTTGGGGAGAATTACGTCCAAGAAATCCTGGAGAAAGCTCCTCAGCTTCCTGAAGATATAGAGTGGCATTTTATTGGGCATTTGCAGAGCAACAAAGTCAAATCGCTTCTGGCTGGAGTGCCGAATATGGCATTGGTTGAGGGCGTAGACAATGAGAAGCTAGCAAATCATCTTGATCGGGCAGTTTCCAACCTCAGAAGAAATCCTTTAAAGGTTTTGGTCCAAGTTAATACCAGTGGAGAAGAATCTAAATCTGGTGTCGATCCTTCTGGTTGTGTTGAACTTGCAAAACATGTCAAATTGCAGTGCCCAAATCTAGTGCTTTCTGGCTTAATGACAATAGGGATGCGTGACTATACATCAACTCCAGAGAACTTCAGGATGCTATCTAAGTCTAGAACTGAGGTATGCAAGGAGCTTGGTATGGCAGAGGAGAACTTTGAGCTGTCAATGGGCATGTCTGGTGATTTTGAGCAAGCAATTGAAATGGGCAGCACCAATGTCAGAGTTGGATCCACCATCTTTGGGCCAAGGGAGTATCCAAAGAAGCAACCAAATTAG
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

245

Amino Acids

27.04

Weight (kDa)

8.74

Isoelectric Point (pI)

43.28

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Ala_racemase_N PF01168 21 - 236 8.4e-16 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: OG0017509)

Species Orthologous Gene IDs
arabidopsis_thaliana AT4G26860 AT4G26860
fragaria_vesca FvH4_3g23210
malus_domestica MD03G1196600.v1.1
prunus_persica Prupe.4G218800_v2.0.a1
rosa_chinensis RchiOBHm_Chr5g0040871
rosa_laevigata RLG00000034010
rosa_roxburghii Rroxscaffold_1G00039830
rosa_rugosa Rorug05G0188200
rosa_samantha Rh5AG273900 Rh5BG278900
rosa_wichuraiana Rw5G025740

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccBSI CCGCTC 1 cut(s) 79
AccI GTMKAC 2 cut(s) 156, 324
AciI CCGC 1 cut(s) 79
AclWI GGATC 3 cut(s) 434, 684, 697
AcoI YGGCCR 1 cut(s) 166
AcuI CTGAAG 2 cut(s) 249, 538
AcyI GRCGYC 1 cut(s) 162
AfiI CCNNNNNNNGG 3 cut(s) 94, 171, 702
AflIII ACRYGT 1 cut(s) 469
AgsI TTSAA 2 cut(s) 458, 662
AjnI CCWGG 1 cut(s) 204
AjuI GAANNNNNNNTTGG 2 cut(s) 293, 325
AluBI AGCT 6 cut(s) 116, 215, 223, 337, 595, 622
AluI AGCT 6 cut(s) 116, 215, 223, 337, 595, 622
AlwI GGATC 3 cut(s) 434, 684, 697
AoxI GGCC 3 cut(s) 85, 166, 704
ApeKI GCWGC 3 cut(s) 5, 71, 669
AspLEI GCGC 1 cut(s) 40
AspS9I GGNCC 3 cut(s) 85, 397, 704
AsuC2I CCSGG 1 cut(s) 96
AsuHPI GGTGA 2 cut(s) 115, 653
AsuNHI GCTAGC 1 cut(s) 337
AvaII GGWCC 1 cut(s) 397
BaeGI GKGCMC 1 cut(s) 488
BamHI GGATCC 1 cut(s) 689
BbsI GAAGAC 1 cut(s) 131
BbvCI CCTCAGC 1 cut(s) 219
BbvI GCAGC 2 cut(s) 58, 681
BccI CCATC 1 cut(s) 704
BceAI ACGGC 1 cut(s) 14
BciT130I CCWGG 1 cut(s) 206
BciVI GTATCC 1 cut(s) 726
BcnI CCSGG 1 cut(s) 96
BfaI CTAG 3 cut(s) 338, 494, 573
BfoI RGCGCY 1 cut(s) 41
BfuI GTATCC 1 cut(s) 726
BglI GCCNNNNNGGC 1 cut(s) 35
BisI GCNGC 3 cut(s) 6, 72, 670
BlsI GCNGC 3 cut(s) 7, 73, 671
Bme1390I CCNGG 2 cut(s) 96, 206
Bme18I GGWCC 1 cut(s) 397
BmgT120I GGNCC 3 cut(s) 85, 397, 704
BmiI GGNNCC 1 cut(s) 691
BmrFI CCNGG 2 cut(s) 96, 206
BmsI GCATC 2 cut(s) 513, 549
BmtI GCTAGC 1 cut(s) 341
BpiI GAAGAC 1 cut(s) 131
BpmI CTGGAG 3 cut(s) 227, 312, 528
Bpu10I CCTNAGC 2 cut(s) 9, 219
BpuMI CCSGG 1 cut(s) 96
BsaHI GRCGYC 1 cut(s) 162
BsaJI CCNNGG 1 cut(s) 707
BsaWI WCCGGW 1 cut(s) 42
BsaXI ACNNNNNCTCC 2 cut(s) 526, 556
Bsc4I CCNNNNNNNGG 3 cut(s) 94, 171, 702
Bse118I RCCGGY 2 cut(s) 164, 171
Bse1I ACTGG 1 cut(s) 411
BseBI CCWGG 1 cut(s) 206
BseDI CCNNGG 1 cut(s) 707
BseGI GGATG 3 cut(s) 144, 528, 564
BseLI CCNNNNNNNGG 3 cut(s) 94, 171, 702
BseMII CTCAG 4 cut(s) 23, 233, 385, 570
BseNI ACTGG 1 cut(s) 411
BseRI GAGGAG 2 cut(s) 207, 623
BseSI GKGCMC 1 cut(s) 488
BseXI GCAGC 2 cut(s) 58, 681
Bsh1285I CGRYCG 3 cut(s) 47, 51, 83
BshFI GGCC 3 cut(s) 87, 168, 706
BsiEI CGRYCG 3 cut(s) 47, 51, 83
BsiSI CCGG 7 cut(s) 43, 64, 88, 95, 148, 165, 172
BslI CCNNNNNNNGG 3 cut(s) 94, 171, 702
BsnI GGCC 3 cut(s) 87, 168, 706
Bsp1286I GDGCHC 1 cut(s) 488
Bsp143I GATC 3 cut(s) 352, 439, 689
BspACI CCGC 1 cut(s) 79
BspANI GGCC 3 cut(s) 87, 168, 706
BspCNI CTCAG 4 cut(s) 22, 232, 384, 571
BspLI GGNNCC 1 cut(s) 691
BspOI GCTAGC 1 cut(s) 341
BspPI GGATC 3 cut(s) 434, 684, 697
BsrBI CCGCTC 1 cut(s) 79
BsrFI RCCGGY 2 cut(s) 164, 171
BsrI ACTGG 1 cut(s) 411
BssAI RCCGGY 2 cut(s) 164, 171
BssECI CCNNGG 1 cut(s) 707
BssMI GATC 3 cut(s) 352, 439, 689
BssNI GRCGYC 1 cut(s) 162
BssT1I CCWWGG 1 cut(s) 707
Bst2UI CCWGG 1 cut(s) 206
BstACI GRCGYC 1 cut(s) 162
BstC8I GCNNGC 4 cut(s) 69, 166, 339, 654
BstDEI CTNAG 5 cut(s) 9, 219, 371, 567, 579
BstF5I GGATG 3 cut(s) 144, 528, 564
BstH2I RGCGCY 1 cut(s) 41
BstHHI GCGC 1 cut(s) 40
BstKTI GATC 3 cut(s) 355, 442, 692
BstMBI GATC 3 cut(s) 352, 439, 689
BstMCI CGRYCG 3 cut(s) 47, 51, 83
BstMWI GCNNNNNNNGC 2 cut(s) 11, 35
BstNI CCWGG 1 cut(s) 206
BstNSI RCATGY 2 cut(s) 473, 637
BstSCI CCNGG 2 cut(s) 94, 204
BstSLI GKGCMC 1 cut(s) 488
BstV1I GCAGC 2 cut(s) 58, 681
BstV2I GAAGAC 1 cut(s) 131
BstX2I RGATCY 1 cut(s) 689
BstYI RGATCY 1 cut(s) 689
BsuI GTATCC 1 cut(s) 726
BsuRI GGCC 3 cut(s) 87, 168, 706
BtsCI GGATG 3 cut(s) 144, 528, 564
BtsI GCAGTG 1 cut(s) 488
BtsIMutI CAGTG 2 cut(s) 418, 488
Cac8I GCNNGC 4 cut(s) 69, 166, 339, 654
CfoI GCGC 1 cut(s) 40
Cfr10I RCCGGY 2 cut(s) 164, 171
Cfr13I GGNCC 3 cut(s) 85, 397, 704
CseI GACGC 1 cut(s) 170
CspCI CAANNNNNGTGG 2 cut(s) 682, 717
CviAII CATG 2 cut(s) 470, 634
DdeI CTNAG 5 cut(s) 9, 219, 371, 567, 579
DpnI GATC 3 cut(s) 354, 441, 691
DpnII GATC 3 cut(s) 352, 439, 689
DraI TTTAAA 1 cut(s) 387
EaeI YGGCCR 1 cut(s) 166
Eco130I CCWWGG 1 cut(s) 707
Eco47I GGWCC 1 cut(s) 397
Eco57I CTGAAG 2 cut(s) 249, 538
EcoRII CCWGG 1 cut(s) 204
EcoT14I CCWWGG 1 cut(s) 707
ErhI CCWWGG 1 cut(s) 707
FaeI CATG 2 cut(s) 473, 637
FaiI YATR 7 cut(s) 236, 305, 471, 534, 586, 602, 635
FalI AAGNNNNNCTT 2 cut(s) 367, 399
FatI CATG 2 cut(s) 469, 633
FblI GTMKAC 2 cut(s) 156, 324
Fnu4HI GCNGC 3 cut(s) 6, 72, 670
FokI GGATG 3 cut(s) 131, 535, 571
Fsp4HI GCNGC 3 cut(s) 6, 72, 670
FspBI CTAG 3 cut(s) 338, 494, 573
GlaI GCGC 1 cut(s) 39
GluI GCNGC 3 cut(s) 6, 72, 670
GsuI CTGGAG 3 cut(s) 227, 312, 528
HaeII RGCGCY 1 cut(s) 41
HaeIII GGCC 3 cut(s) 87, 168, 706
HapII CCGG 7 cut(s) 43, 64, 88, 95, 148, 165, 172
HgaI GACGC 1 cut(s) 170
HhaI GCGC 1 cut(s) 40
Hin1I GRCGYC 1 cut(s) 162
Hin1II CATG 2 cut(s) 473, 637
Hin6I GCGC 1 cut(s) 38
HinP1I GCGC 1 cut(s) 38
HinfI GANTC 3 cut(s) 60, 91, 422
HpaII CCGG 7 cut(s) 43, 64, 88, 95, 148, 165, 172
HphI GGTGA 2 cut(s) 115, 653
Hpy166II GTNNAC 2 cut(s) 157, 325
Hpy188I TCNGA 3 cut(s) 59, 374, 683
Hpy188III TCNNGA 5 cut(s) 227, 350, 545, 556, 573
Hpy8I GTNNAC 2 cut(s) 157, 325
Hpy99I CGWCG 2 cut(s) 29, 164
HpyAV CCTTC 1 cut(s) 453
HpyCH4IV ACGT 2 cut(s) 24, 192
HpyCH4V TGCA 4 cut(s) 262, 464, 481, 588
HpyF10VI GCNNNNNNNGC 2 cut(s) 11, 35
HpyF3I CTNAG 5 cut(s) 9, 219, 371, 567, 579
HpySE526I ACGT 2 cut(s) 24, 192
Hsp92I GRCGYC 1 cut(s) 162
Hsp92II CATG 2 cut(s) 473, 637
HspAI GCGC 1 cut(s) 38
KroI GCCGGC 1 cut(s) 164
KroNI GCCGGC 1 cut(s) 166
Kzo9I GATC 3 cut(s) 352, 439, 689
LmnI GCTCC 3 cut(s) 45, 220, 592
Lsp1109I GCAGC 2 cut(s) 58, 681
LweI GCATC 2 cut(s) 513, 549
MaeI CTAG 3 cut(s) 338, 494, 573
MaeII ACGT 2 cut(s) 24, 192
MaeIII GTNAC 1 cut(s) 527
MalI GATC 3 cut(s) 354, 441, 691
MbiI CCGCTC 1 cut(s) 79
MboI GATC 3 cut(s) 352, 439, 689
MboII GAAGA 4 cut(s) 136, 242, 387, 431
MfeI CAATTG 1 cut(s) 657
MflI RGATCY 1 cut(s) 689
MhlI GDGCHC 1 cut(s) 488
MluCI AATT 4 cut(s) 187, 476, 657, 733
MlyI GAGTC 1 cut(s) 69
MmeI TCCRAC 2 cut(s) 390, 667
MnlI CCTC 6 cut(s) 99, 228, 310, 380, 574, 601
MroNI GCCGGC 1 cut(s) 164
MseI TTAA 3 cut(s) 386, 405, 509
MspI CCGG 7 cut(s) 43, 64, 88, 95, 148, 165, 172
MspR9I CCNGG 2 cut(s) 96, 206
MunI CAATTG 1 cut(s) 657
MvaI CCWGG 1 cut(s) 206
MwoI GCNNNNNNNGC 2 cut(s) 11, 35
NaeI GCCGGC 1 cut(s) 166
NciI CCSGG 1 cut(s) 96
NdeII GATC 3 cut(s) 352, 439, 689
NgoMIV GCCGGC 1 cut(s) 164
NheI GCTAGC 1 cut(s) 337
NlaIII CATG 2 cut(s) 473, 637
NlaIV GGNNCC 1 cut(s) 691
NmeAIII GCCGAG 1 cut(s) 100
NmuCI GTSAC 1 cut(s) 527
NspI RCATGY 2 cut(s) 473, 637
PciI ACATGT 1 cut(s) 469
PdiI GCCGGC 1 cut(s) 166
PfeI GAWTC 2 cut(s) 91, 422
PfoI TCCNGGA 1 cut(s) 204
PkrI GCNGC 3 cut(s) 7, 73, 671
PleI GAGTC 1 cut(s) 68
PpsI GAGTC 1 cut(s) 68
PscI ACATGT 1 cut(s) 469
Psp6I CCWGG 1 cut(s) 204
PspGI CCWGG 1 cut(s) 204
PspN4I GGNNCC 1 cut(s) 691
PspPI GGNCC 3 cut(s) 85, 397, 704
PsuI RGATCY 1 cut(s) 689
SaqAI TTAA 3 cut(s) 386, 405, 509
SatI GCNGC 3 cut(s) 6, 72, 670
Sau3AI GATC 3 cut(s) 352, 439, 689
Sau96I GGNCC 3 cut(s) 85, 397, 704
SchI GAGTC 1 cut(s) 69
ScrFI CCNGG 2 cut(s) 96, 206
SduI GDGCHC 1 cut(s) 488
SfaNI GCATC 2 cut(s) 513, 549
SgrAI CRCCGGYG 1 cut(s) 171
SinI GGWCC 1 cut(s) 397
Sse9I AATT 4 cut(s) 187, 476, 657, 733
SsiI CCGC 1 cut(s) 79
SspMI CTAG 3 cut(s) 338, 494, 573
StyD4I CCNGG 2 cut(s) 94, 204
StyI CCWWGG 1 cut(s) 707
TaiI ACGT 2 cut(s) 27, 195
TaqI TCGA 3 cut(s) 18, 122, 438
TaqII GACCGA 1 cut(s) 37
TasI AATT 4 cut(s) 187, 476, 657, 733
TfiI GAWTC 2 cut(s) 91, 422
Tru1I TTAA 3 cut(s) 386, 405, 509
Tru9I TTAA 3 cut(s) 386, 405, 509
TscAI CASTG 2 cut(s) 418, 488
TseFI GTSAC 1 cut(s) 527
TseI GCWGC 3 cut(s) 5, 71, 669
Tsp45I GTSAC 1 cut(s) 527
TspRI CASTG 2 cut(s) 418, 488
VpaK11BI GGWCC 1 cut(s) 397
XbaI TCTAGA 1 cut(s) 572
XceI RCATGY 2 cut(s) 473, 637
XcmI CCANNNNNNNNNTGG 1 cut(s) 176
XmiI GTMKAC 2 cut(s) 156, 324
XspI CTAG 3 cut(s) 338, 494, 573
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.