pycom04g12340

1-deoxy-D-xylulose-5-phosphate synthase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
pyrus_communis
Chr4
OG0000901
Physical Location & Seq
Reverse (-)
15309329 .. 15310068
740 bp
Loading structure...
UTR
Exon/CDS
Intron
pycom04g12340.1

Sequence Viewer

Length: 597 bp
ATGTGTAATTTGGTCCGACATTTATGTTATTTTACACTTCCCAAACCTGCAGGTTTGAGTAATTCAGATGATTTACCATCCAAAATTCGCCATAGAACTTATAGCGACTGCTTTGTGGAGGCTTTAGTGATGGAGGCAGAGGAGGACAAAGATATTGTGACTGTTCATGCAGGAATGCATATGGAAACAGCATTTCAACTGTTTCGTGAAAGATTTCCTGACAAATTTTTTGATGTGGGAATGGCTGAGCAACATGCAGTTACTTTTTCTGCTGGTTTGGCATGTGGAGGACTAAAGCCATTTTGCATTATCCCGTCTGCATTTCTACAAAGAGCTTATGATCAGGTAATTCATGACGTAGATCGGCAAAGAATTCCAGTGCGTTTTGTCATTACAAGTGCAGGGTTGGTAGGATCTGATGGTCCCATGCAGTGTGGAGCATTTGATATAACATTTATGTCATGCTTACCAAACATGATCGTCATGGCACCATCTGATGAGAATGAGCTTGCCAACATGGTGGCCACTGCAGCCCACATCGATCATGACTTAATTGAATTCCTTTTGAGTTACATTATGAAAGAAAATAAGTTTTGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko00730 ko00900 ko01100 ko01110 ko01130 map00730 map00900 map01100 map01110 map01130
Pfam Domains
Protein Families
DXP_synthase_N Transket_pyr Transketolase_C

Protein Analysis

199

Amino Acids

22.19

Weight (kDa)

5.14

Isoelectric Point (pI)

41.33

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Transket_pyr PF02779 33 - 181 8.9e-35 Transketolase, pyrimidine binding 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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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc36I ACCTGC 2 cut(s) 41, 55
AccB1I GGYRCC 1 cut(s) 487
AclWI GGATC 1 cut(s) 421
AcoI YGGCCR 1 cut(s) 522
AcsI RAATTY 4 cut(s) 84, 224, 372, 557
AgsI TTSAA 2 cut(s) 197, 557
AluBI AGCT 2 cut(s) 335, 508
AluI AGCT 2 cut(s) 335, 508
AlwI GGATC 1 cut(s) 421
AoxI GGCC 1 cut(s) 522
ApeKI GCWGC 1 cut(s) 530
ApoI RAATTY 4 cut(s) 84, 224, 372, 557
ArsI GACNNNNNNTTYG 2 cut(s) 212, 244
Asp700I GAANNNNTTC 1 cut(s) 213
AspS9I GGNCC 2 cut(s) 13, 422
AvaII GGWCC 2 cut(s) 13, 422
BalI TGGCCA 1 cut(s) 524
BanI GGYRCC 1 cut(s) 487
BbvI GCAGC 1 cut(s) 542
BccI CCATC 4 cut(s) 85, 124, 413, 499
BclI TGATCA 1 cut(s) 340
BfmI CTRYAG 2 cut(s) 48, 528
BfuAI ACCTGC 2 cut(s) 41, 55
BisI GCNGC 1 cut(s) 531
BlpI GCTNAGC 1 cut(s) 246
BlsI GCNGC 1 cut(s) 532
Bme18I GGWCC 2 cut(s) 13, 422
BmgT120I GGNCC 2 cut(s) 13, 422
BmiI GGNNCC 2 cut(s) 424, 489
Bpu1102I GCTNAGC 1 cut(s) 246
Bsa29I ATCGAT 1 cut(s) 540
Bse1I ACTGG 1 cut(s) 377
BseCI ATCGAT 1 cut(s) 540
BseGI GGATG 1 cut(s) 77
BseMII CTCAG 1 cut(s) 237
BseNI ACTGG 1 cut(s) 377
BseRI GAGGAG 1 cut(s) 155
BseXI GCAGC 1 cut(s) 542
BsgI GTGCAG 1 cut(s) 420
BshFI GGCC 1 cut(s) 524
BshNI GGYRCC 1 cut(s) 487
BshVI ATCGAT 1 cut(s) 540
BslFI GGGAC 1 cut(s) 408
BsmFI GGGAC 1 cut(s) 408
BsmI GAATGC 1 cut(s) 180
BsnI GGCC 1 cut(s) 524
Bsp143I GATC 5 cut(s) 340, 361, 413, 477, 541
Bsp1720I GCTNAGC 1 cut(s) 246
BspANI GGCC 1 cut(s) 524
BspCNI CTCAG 1 cut(s) 238
BspDI ATCGAT 1 cut(s) 540
BspHI TCATGA 2 cut(s) 352, 544
BspLI GGNNCC 2 cut(s) 424, 489
BspMAI CTGCAG 2 cut(s) 52, 532
BspMI ACCTGC 2 cut(s) 41, 55
BspPI GGATC 1 cut(s) 421
BspT107I GGYRCC 1 cut(s) 487
BsrI ACTGG 1 cut(s) 377
BssMI GATC 5 cut(s) 340, 361, 413, 477, 541
Bst4CI ACNGT 2 cut(s) 163, 201
BstC8I GCNNGC 1 cut(s) 510
BstDEI CTNAG 1 cut(s) 246
BstF5I GGATG 1 cut(s) 77
BstKTI GATC 5 cut(s) 343, 364, 416, 480, 544
BstMBI GATC 5 cut(s) 340, 361, 413, 477, 541
BstMWI GCNNNNNNNGC 2 cut(s) 278, 530
BstNSI RCATGY 2 cut(s) 257, 285
BstSFI CTRYAG 2 cut(s) 48, 528
BstV1I GCAGC 1 cut(s) 542
BstX2I RGATCY 1 cut(s) 413
BstXI CCANNNNNNTGG 1 cut(s) 520
BstYI RGATCY 1 cut(s) 413
Bsu15I ATCGAT 1 cut(s) 540
BsuRI GGCC 1 cut(s) 524
BsuTUI ATCGAT 1 cut(s) 540
BtsCI GGATG 1 cut(s) 77
BtsI GCAGTG 2 cut(s) 437, 525
BtsIMutI CAGTG 3 cut(s) 384, 437, 525
BveI ACCTGC 2 cut(s) 41, 55
Cac8I GCNNGC 1 cut(s) 510
CciI TCATGA 2 cut(s) 352, 544
Cfr13I GGNCC 2 cut(s) 13, 422
ClaI ATCGAT 1 cut(s) 540
CviJI RGCY 7 cut(s) 122, 245, 298, 335, 508, 524, 533
CviKI_1 RGCY 7 cut(s) 122, 245, 298, 335, 508, 524, 533
DdeI CTNAG 1 cut(s) 246
DpnI GATC 5 cut(s) 342, 363, 415, 479, 543
DpnII GATC 5 cut(s) 340, 361, 413, 477, 541
EaeI YGGCCR 1 cut(s) 522
Eco47I GGWCC 2 cut(s) 13, 422
EcoRI GAATTC 2 cut(s) 372, 557
EcoT22I ATGCAT 1 cut(s) 180
FaqI GGGAC 1 cut(s) 408
FauNDI CATATG 1 cut(s) 180
FbaI TGATCA 1 cut(s) 340
Fnu4HI GCNGC 1 cut(s) 531
FokI GGATG 1 cut(s) 64
Fsp4HI GCNGC 1 cut(s) 531
GluI GCNGC 1 cut(s) 531
HaeIII GGCC 1 cut(s) 524
Hpy188I TCNGA 4 cut(s) 17, 67, 418, 496
Hpy188III TCNNGA 4 cut(s) 206, 218, 353, 545
HpyCH4III ACNGT 2 cut(s) 163, 201
HpyCH4IV ACGT 1 cut(s) 357
HpyCH4V TGCA 9 cut(s) 50, 170, 178, 257, 306, 320, 401, 430, 530
HpyF10VI GCNNNNNNNGC 2 cut(s) 278, 530
HpyF3I CTNAG 1 cut(s) 246
HpySE526I ACGT 1 cut(s) 357
Ksp22I TGATCA 1 cut(s) 340
Kzo9I GATC 5 cut(s) 340, 361, 413, 477, 541
LmnI GCTCC 1 cut(s) 437
LpnPI CCDG 8 cut(s) 36, 60, 156, 231, 258, 329, 387, 390
Lsp1109I GCAGC 1 cut(s) 542
MaeII ACGT 1 cut(s) 357
MaeIII GTNAC 3 cut(s) 157, 259, 569
MalI GATC 5 cut(s) 342, 363, 415, 479, 543
MboI GATC 5 cut(s) 340, 361, 413, 477, 541
MflI RGATCY 1 cut(s) 413
MlsI TGGCCA 1 cut(s) 524
MluCI AATT 8 cut(s) 7, 61, 84, 224, 348, 372, 552, 557
MluNI TGGCCA 1 cut(s) 524
MmeI TCCRAC 1 cut(s) 40
MnlI CCTC 5 cut(s) 112, 127, 133, 136, 281
Mox20I TGGCCA 1 cut(s) 524
Mph1103I ATGCAT 1 cut(s) 180
MroXI GAANNNNTTC 1 cut(s) 213
MscI TGGCCA 1 cut(s) 524
MseI TTAA 1 cut(s) 551
Msp20I TGGCCA 1 cut(s) 524
Mva1269I GAATGC 1 cut(s) 180
MwoI GCNNNNNNNGC 2 cut(s) 278, 530
NdeI CATATG 1 cut(s) 180
NdeII GATC 5 cut(s) 340, 361, 413, 477, 541
NlaIV GGNNCC 2 cut(s) 424, 489
NmuCI GTSAC 1 cut(s) 157
NsiI ATGCAT 1 cut(s) 180
NspI RCATGY 2 cut(s) 257, 285
PagI TCATGA 2 cut(s) 352, 544
PctI GAATGC 1 cut(s) 180
PdmI GAANNNNTTC 1 cut(s) 213
PkrI GCNGC 1 cut(s) 532
PspN4I GGNNCC 2 cut(s) 424, 489
PspPI GGNCC 2 cut(s) 13, 422
PstI CTGCAG 2 cut(s) 52, 532
PsuI RGATCY 1 cut(s) 413
SaqAI TTAA 1 cut(s) 551
SatI GCNGC 1 cut(s) 531
Sau3AI GATC 5 cut(s) 340, 361, 413, 477, 541
Sau96I GGNCC 2 cut(s) 13, 422
SbfI CCTGCAGG 1 cut(s) 52
SdaI CCTGCAGG 1 cut(s) 52
SetI ASST 6 cut(s) 49, 55, 337, 348, 360, 510
SfcI CTRYAG 2 cut(s) 48, 528
SinI GGWCC 2 cut(s) 13, 422
Sse8387I CCTGCAGG 1 cut(s) 52
Sse9I AATT 8 cut(s) 7, 61, 84, 224, 348, 372, 552, 557
TaaI ACNGT 2 cut(s) 163, 201
TaiI ACGT 1 cut(s) 360
TaqI TCGA 1 cut(s) 540
TasI AATT 8 cut(s) 7, 61, 84, 224, 348, 372, 552, 557
Tru1I TTAA 1 cut(s) 551
Tru9I TTAA 1 cut(s) 551
TscAI CASTG 3 cut(s) 384, 437, 532
TseFI GTSAC 1 cut(s) 157
TseI GCWGC 1 cut(s) 530
Tsp45I GTSAC 1 cut(s) 157
TspDTI ATGAA 3 cut(s) 155, 341, 593
TspRI CASTG 3 cut(s) 384, 437, 532
VpaK11BI GGWCC 2 cut(s) 13, 422
XapI RAATTY 4 cut(s) 84, 224, 372, 557
XceI RCATGY 2 cut(s) 257, 285
XmnI GAANNNNTTC 1 cut(s) 213
Zsp2I ATGCAT 1 cut(s) 180
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.