Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5C

Orthogroup ID

OG0001544

Physical Location & Seq

Genomic Coordinates Forward (+)

24593834 .. 24595817

Gene Structure 1984 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5CG236700.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 696 bp

ATGCCATCTAAGGTTGAAGGTATAACGGATGGCAAAGTTCAGGCATATGCATTAAATGGAAGAGGATTGGTTGGGGGAAGTTTCCAACTTGATTACCCTAGCGTTGGGGCAACAGAAACCCTTCTGATGGCTGCATGTATGGCTGATGGAACAACTATACTGTCCAGTGTTGCCAGAGAACCAGTGGTTGATCTTGCTCGATTTTTGACTAAAAGTGGGGCCTGTGTGGAAGGAGCAGGAAGCAACAAAGCTTTTTCAGCAGTGTCTCAATGTGGTGAGAATTTGCGAGGTTTTGAGGTTAAGACAGGGCCATTTCCCGGGTTTCCCACAGATCTCCAATCGCAAACAATGGCCCTGCTAACCACGTGCAATGGTTTAAGTCCTGTAGAAGAGTCTGTATTTGAAAAACGCATGGCAAATGTAAACGAACTGCGGAAGCTTGGAGCAAAAATTCAAGTCTGTGCAAGCTCTGCTCTGGTTTTCGGGAAAGATAATAGAAGTGGTTTGTCTGGTTCCTGCCTTGCTGCAACTGACCTCAGAGGTGGGATATCATTGGTATTAGCTGCATTGGCTGTAGAAGGTACTACTGAGATCAGCAATGTTGCTCATATTGATCGTGGTTATGAGAATGTAGATACACAACTTCATATGCTGGGAGCCGATATCAAAAGATTAACGGCCCCTGCTTCTTCCTAG

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

EPSP_synthase

Protein Analysis

231

Amino Acids

23.96

Weight (kDa)

5.47

Isoelectric Point (pI)

41.95

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
EPSP_synthase	PF00275	17 - 84	4.1e-09	EPSP synthase (3-phosphoshikimate 1-carboxyvinyltransferase)
EPSP_synthase	PF00275	89 - 211	8.4e-21	EPSP synthase (3-phosphoshikimate 1-carboxyvinyltransferase)

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: OG0001544)

Species	Orthologous Gene IDs
malus_domestica	MD03G1241800.v1.1
prunus_persica	Prupe.4G167100_v2.0.a1 Prupe.4G167100_v2.0.a1
pyrus_communis	pycom03g18890
rosa_chinensis	RchiOBHm_Chr5g0030831 RchiOBHm_Chr5g0031211 RchiOBHm_Chr5g0031411 RchiOBHm_Chr7g0194341
rosa_laevigata	RLG00000002889 RLG00000009452 RLG00000010063 RLG00000020938 RLG00000025330 RLG00000029419 RLG00000033292
rosa_multiflora	Rmu_sc0002426.1_g000013 Rmu_sc0002505.1_g000024 Rmu_sc0004790.1_g000012 Rmu_sc0005543.1_g000001 Rmu_sc0014478.1_g000005 Rmu_sc0014478.1_g000006
rosa_roxburghii	Rroxscaffold_1G00039380 Rroxscaffold_1G00049410 Rroxscaffold_4G00315890
rosa_rugosa	Rorug05G0122800 Rorug05G0125100
rosa_samantha	Rh1BG113100 Rh1CG264100 Rh2BG469500 Rh2DG478900 Rh5AG213800 Rh5AG217800 Rh5BG213000 Rh5BG213100 Rh5BG217500 Rh5CG236700 Rh5CG239700 Rh5CG241300 Rh5DG217500 Rh5DG221000 Rh5DG222900 Rh5DG281900 Rh5DG502600 Rh6BG212100 Rh7AG059300 Rh7CG251400
rosa_wichuraiana	Rw0G012990 Rw0G015960 Rw5G019540 Rw5G019900 Rw5G027790

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AciI	CCGC	1 cut(s)	433
AcsI	RAATTY	2 cut(s)	280, 450
AcvI	CACGTG	1 cut(s)	366
AfaI	GTAC	1 cut(s)	583
AfiI	CCNNNNNNNGG	3 cut(s)	104, 127, 317
AgsI	TTSAA	3 cut(s)	17, 404, 455
AluBI	AGCT	4 cut(s)	251, 439, 468, 563
AluI	AGCT	4 cut(s)	251, 439, 468, 563
Alw26I	GTCTC	1 cut(s)	270
Ama87I	CYCGRG	1 cut(s)	317
AoxI	GGCC	4 cut(s)	219, 308, 351, 678
ApeKI	GCWGC	3 cut(s)	131, 524, 563
ApoI	RAATTY	2 cut(s)	280, 450
Asp700I	GAANNNNTTC	1 cut(s)	120
AspS9I	GGNCC	4 cut(s)	219, 308, 352, 679
AsuC2I	CCSGG	2 cut(s)	318, 319
AsuHPI	GGTGA	1 cut(s)	287
AvaI	CYCGRG	1 cut(s)	317
BbrPI	CACGTG	1 cut(s)	366
BbvI	GCAGC	3 cut(s)	118, 511, 550
BccI	CCATC	4 cut(s)	13, 23, 121, 140
BceAI	ACGGC	1 cut(s)	693
BcnI	CCSGG	2 cut(s)	318, 319
BcoDI	GTCTC	1 cut(s)	270
BfaI	CTAG	2 cut(s)	99, 694
BfmI	CTRYAG	2 cut(s)	384, 573
BglII	AGATCT	1 cut(s)	331
BisI	GCNGC	3 cut(s)	132, 525, 564
BlsI	GCNGC	3 cut(s)	133, 526, 565
Bme1390I	CCNGG	2 cut(s)	318, 319
BmeT110I	CYCGRG	1 cut(s)	317
BmgT120I	GGNCC	4 cut(s)	219, 308, 352, 679
BmiI	GGNNCC	4 cut(s)	220, 514, 658, 681
BmrFI	CCNGG	2 cut(s)	318, 319
BpuMI	CCSGG	2 cut(s)	318, 319
BsaAI	YACGTR	1 cut(s)	366
BsaJI	CCNNGG	1 cut(s)	317
Bsc4I	CCNNNNNNNGG	3 cut(s)	104, 127, 317
Bse1I	ACTGG	2 cut(s)	165, 182
Bse3DI	GCAATG	2 cut(s)	376, 604
BseDI	CCNNGG	1 cut(s)	317
BseGI	GGATG	1 cut(s)	34
BseLI	CCNNNNNNNGG	3 cut(s)	104, 127, 317
BseMI	GCAATG	2 cut(s)	376, 604
BseMII	CTCAG	2 cut(s)	550, 579
BseNI	ACTGG	2 cut(s)	165, 182
BseXI	GCAGC	3 cut(s)	118, 511, 550
BseYI	CCCAGC	1 cut(s)	652
BshFI	GGCC	4 cut(s)	221, 310, 353, 680
BsiHKCI	CYCGRG	1 cut(s)	317
BsiSI	CCGG	1 cut(s)	318
BslI	CCNNNNNNNGG	3 cut(s)	104, 127, 317
BsmAI	GTCTC	1 cut(s)	270
BsnI	GGCC	4 cut(s)	221, 310, 353, 680
BsoBI	CYCGRG	1 cut(s)	317
Bsp143I	GATC	4 cut(s)	190, 331, 591, 613
BspACI	CCGC	1 cut(s)	433
BspANI	GGCC	4 cut(s)	221, 310, 353, 680
BspCNI	CTCAG	2 cut(s)	549, 580
BspLI	GGNNCC	4 cut(s)	220, 514, 658, 681
BsrDI	GCAATG	2 cut(s)	376, 604
BsrI	ACTGG	2 cut(s)	165, 182
BssECI	CCNNGG	1 cut(s)	317
BssMI	GATC	4 cut(s)	190, 331, 591, 613
Bst4CI	ACNGT	1 cut(s)	162
Bst6I	CTCTTC	2 cut(s)	55, 384
BstAPI	GCANNNNNTGC	1 cut(s)	470
BstBAI	YACGTR	1 cut(s)	366
BstC8I	GCNNGC	1 cut(s)	466
BstDEI	CTNAG	3 cut(s)	9, 536, 588
BstF5I	GGATG	1 cut(s)	34
BstKTI	GATC	4 cut(s)	193, 334, 594, 616
BstMAI	GTCTC	1 cut(s)	270
BstMBI	GATC	4 cut(s)	190, 331, 591, 613
BstMWI	GCNNNNNNNGC	4 cut(s)	140, 257, 470, 569
BstNSI	RCATGY	1 cut(s)	138
BstSCI	CCNGG	2 cut(s)	316, 317
BstSFI	CTRYAG	2 cut(s)	384, 573
BstV1I	GCAGC	3 cut(s)	118, 511, 550
BstX2I	RGATCY	1 cut(s)	331
BstYI	RGATCY	1 cut(s)	331
BsuRI	GGCC	4 cut(s)	221, 310, 353, 680
BtsCI	GGATG	1 cut(s)	34
BtsI	GCAGTG	1 cut(s)	267
BtsIMutI	CAGTG	3 cut(s)	172, 189, 267
Cac8I	GCNNGC	1 cut(s)	466
Cfr13I	GGNCC	4 cut(s)	219, 308, 352, 679
Cfr9I	CCCGGG	1 cut(s)	317
Csp6I	GTAC	1 cut(s)	582
CviAII	CATG	2 cut(s)	135, 412
CviQI	GTAC	1 cut(s)	582
DdeI	CTNAG	3 cut(s)	9, 536, 588
DpnI	GATC	4 cut(s)	192, 333, 593, 615
DpnII	GATC	4 cut(s)	190, 331, 591, 613
Eam1104I	CTCTTC	2 cut(s)	55, 384
EarI	CTCTTC	2 cut(s)	55, 384
Eco32I	GATATC	2 cut(s)	549, 664
Eco72I	CACGTG	1 cut(s)	366
Eco88I	CYCGRG	1 cut(s)	317
EcoO109I	RGGNCCY	1 cut(s)	219
EcoRV	GATATC	2 cut(s)	549, 664
EcoT22I	ATGCAT	1 cut(s)	52
FaeI	CATG	2 cut(s)	138, 415
FatI	CATG	2 cut(s)	134, 411
FauNDI	CATATG	2 cut(s)	46, 648
Fnu4HI	GCNGC	3 cut(s)	132, 525, 564
FokI	GGATG	1 cut(s)	41
Fsp4HI	GCNGC	3 cut(s)	132, 525, 564
FspBI	CTAG	2 cut(s)	99, 694
GluI	GCNGC	3 cut(s)	132, 525, 564
GsaI	CCCAGC	1 cut(s)	656
HaeIII	GGCC	4 cut(s)	221, 310, 353, 680
HapII	CCGG	1 cut(s)	318
Hin1II	CATG	2 cut(s)	138, 415
HindIII	AAGCTT	2 cut(s)	249, 437
HinfI	GANTC	1 cut(s)	392
HpaII	CCGG	1 cut(s)	318
HphI	GGTGA	1 cut(s)	287
Hpy166II	GTNNAC	1 cut(s)	424
Hpy188I	TCNGA	2 cut(s)	126, 539
Hpy188III	TCNNGA	1 cut(s)	484
Hpy8I	GTNNAC	1 cut(s)	424
HpyAV	CCTTC	4 cut(s)	11, 131, 224, 572
HpyCH4III	ACNGT	1 cut(s)	162
HpyCH4IV	ACGT	1 cut(s)	365
HpyCH4V	TGCA	6 cut(s)	50, 134, 369, 464, 527, 566
HpyF10VI	GCNNNNNNNGC	4 cut(s)	140, 257, 470, 569
HpyF3I	CTNAG	3 cut(s)	9, 536, 588
HpySE526I	ACGT	1 cut(s)	365
Hsp92II	CATG	2 cut(s)	138, 415
Kzo9I	GATC	4 cut(s)	190, 331, 591, 613
LmnI	GCTCC	3 cut(s)	233, 443, 656
Lsp1109I	GCAGC	3 cut(s)	118, 511, 550
MaeI	CTAG	2 cut(s)	99, 694
MaeII	ACGT	1 cut(s)	365
MalI	GATC	4 cut(s)	192, 333, 593, 615
MboI	GATC	4 cut(s)	190, 331, 591, 613
MboII	GAAGA	3 cut(s)	72, 401, 681
MflI	RGATCY	1 cut(s)	331
MluCI	AATT	2 cut(s)	280, 450
MlyI	GAGTC	1 cut(s)	401
MmeI	TCCRAC	1 cut(s)	109
MnlI	CCTC	5 cut(s)	56, 281, 289, 533, 545
Mph1103I	ATGCAT	1 cut(s)	52
MroXI	GAANNNNTTC	1 cut(s)	120
MseI	TTAA	4 cut(s)	53, 300, 377, 674
MspI	CCGG	1 cut(s)	318
MspR9I	CCNGG	2 cut(s)	318, 319
MwoI	GCNNNNNNNGC	4 cut(s)	140, 257, 470, 569
NciI	CCSGG	2 cut(s)	318, 319
NdeI	CATATG	2 cut(s)	46, 648
NdeII	GATC	4 cut(s)	190, 331, 591, 613
NlaIII	CATG	2 cut(s)	138, 415
NlaIV	GGNNCC	4 cut(s)	220, 514, 658, 681
NsiI	ATGCAT	1 cut(s)	52
NspI	RCATGY	1 cut(s)	138
PdmI	GAANNNNTTC	1 cut(s)	120
PkrI	GCNGC	3 cut(s)	133, 526, 565
PleI	GAGTC	1 cut(s)	400
PmaCI	CACGTG	1 cut(s)	366
PmlI	CACGTG	1 cut(s)	366
PpsI	GAGTC	1 cut(s)	400
Ppu21I	YACGTR	1 cut(s)	366
PspCI	CACGTG	1 cut(s)	366
PspFI	CCCAGC	1 cut(s)	652
PspN4I	GGNNCC	4 cut(s)	220, 514, 658, 681
PspPI	GGNCC	4 cut(s)	219, 308, 352, 679
PsuI	RGATCY	1 cut(s)	331
RsaI	GTAC	1 cut(s)	583
RsaNI	GTAC	1 cut(s)	582
SaqAI	TTAA	4 cut(s)	53, 300, 377, 674
SatI	GCNGC	3 cut(s)	132, 525, 564
Sau3AI	GATC	4 cut(s)	190, 331, 591, 613
Sau96I	GGNCC	4 cut(s)	219, 308, 352, 679
SchI	GAGTC	1 cut(s)	401
ScrFI	CCNGG	2 cut(s)	318, 319
SfcI	CTRYAG	2 cut(s)	384, 573
SmaI	CCCGGG	1 cut(s)	319
Sse9I	AATT	2 cut(s)	280, 450
SsiI	CCGC	1 cut(s)	433
SspMI	CTAG	2 cut(s)	99, 694
StyD4I	CCNGG	2 cut(s)	316, 317
TaaI	ACNGT	1 cut(s)	162
TaiI	ACGT	1 cut(s)	368
TaqI	TCGA	1 cut(s)	199
TasI	AATT	2 cut(s)	280, 450
Tru1I	TTAA	4 cut(s)	53, 300, 377, 674
Tru9I	TTAA	4 cut(s)	53, 300, 377, 674
TscAI	CASTG	3 cut(s)	172, 189, 267
TseI	GCWGC	3 cut(s)	131, 524, 563
TspDTI	ATGAA	1 cut(s)	635
TspGWI	ACGGA	1 cut(s)	41
TspMI	CCCGGG	1 cut(s)	317
TspRI	CASTG	3 cut(s)	172, 189, 267
XapI	RAATTY	2 cut(s)	280, 450
XceI	RCATGY	1 cut(s)	138
XcmI	CCANNNNNNNNNTGG	1 cut(s)	181
XmaI	CCCGGG	1 cut(s)	317
XmnI	GAANNNNTTC	1 cut(s)	120
XspI	CTAG	2 cut(s)	99, 694
Zsp2I	ATGCAT	1 cut(s)	52

Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.