Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5A

Orthogroup ID

OG0001544

Physical Location & Seq

Genomic Coordinates Reverse (-)

25679489 .. 25682983

Gene Structure 3495 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5AG217800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1017 bp

ATGGTTAACACTGTGGGATTACATCTGTTGAGTCTAATTCGGAAGATCCGAGGTGGGTTTTTCGTTCTTGGGCCGCTGGTAGCCCGGTTCGGTGAGGCTGTGGTTGCATTACGCGGTGGCTGTGACATTGGGGCTAGACCGGTGGACCTTTACATTCGGGGTCTTCAAGCTCTTGGTGCTGTTGTGGAGATGAAGGATGGAAAAGTTCAGGCATATGCATTAAATGGAAGAGGATTGGTTGGGGGAAGTTTCCAACCTGATTACCCTAGCGTTGGGGCAACAGAAACCCTTCTGATGGCTGCATGTATGGCTGATGGAACAACTAAACTGTCCAGTGTTGCCAGACAGGAAGCAACAAAGCTTGTCATCAAGGGAAAATTTCATTTTCATGGTTGTAAATGTACTATTGCACCTGATCGTATTGCAGCAGGCACGTTTTTGCTTGCTGCAGCTATTGCTCGCTCATTCATTTCAATTTCACCTGTCATTCCTTCCCAAGTTTCCTGTCTGATGCAAAAACTCTTGGCCGCTGGTTGCAAAATAAGGCAATGCTCTCATGATACCTTAGAAGTATTTTCAGAAGTGTTTCAATGTGGTGAGAATTTGCGAGGTTTTGAGGTTAAGACAGGGCCATTTCCCGGTTTTCCTACAGATCTCCAACCGCGAACAATGGCTCTGCTAACCACATGCAATGGTTTAAGTCCTGTAGAAGAGTCTGTATTTGAAAAGCGCATGGCAAATGTAAACGAACTGCGGAAGCTTGGAGCAAAAATTCAAGTCTGTGCAAGCTCTACTCTGGTTTTTGGGAAAGATAATAGAAGTGGTTTGTCTGGTTCCTGCCTTGCTGCAACTGACCTTAGAGGTGGGATATCATTGGTATTAGCTGCATTGGCTGCAGAATGTACTACTGAGATCAGCAGTGTTGCCCATATTGACCGTGGTTATGAGAATGTAGATACACAACTTCATATGCTGGGAGACGATATCAAAAGATTAACAGCCCATGCTTCTTCCTAG

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

338

Amino Acids

35.8

Weight (kDa)

8.71

Isoelectric Point (pI)

35.43

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
EPSP_synthase	PF00275	13 - 115	1.9e-18	EPSP synthase (3-phosphoshikimate 1-carboxyvinyltransferase)
EPSP_synthase	PF00275	116 - 318	1.9e-33	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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Align Labels (Cladogram)

Image

Tree File

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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)
AccII	CGCG	2 cut(s)	114, 664
AciI	CCGC	5 cut(s)	74, 114, 528, 662, 754
AclWI	GGATC	1 cut(s)	40
AcoI	YGGCCR	1 cut(s)	525
AcsI	RAATTY	3 cut(s)	377, 601, 771
AfaI	GTAC	2 cut(s)	403, 904
AfiI	CCNNNNNNNGG	3 cut(s)	272, 295, 638
AgeI	ACCGGT	1 cut(s)	139
AgsI	TTSAA	5 cut(s)	167, 474, 590, 725, 776
AluBI	AGCT	6 cut(s)	170, 361, 452, 760, 789, 884
AluI	AGCT	6 cut(s)	170, 361, 452, 760, 789, 884
Alw26I	GTCTC	1 cut(s)	972
AlwI	GGATC	1 cut(s)	40
AoxI	GGCC	3 cut(s)	71, 525, 629
ApeKI	GCWGC	7 cut(s)	299, 425, 446, 449, 845, 884, 893
ApoI	RAATTY	3 cut(s)	377, 601, 771
AsiGI	ACCGGT	1 cut(s)	139
Asp700I	GAANNNNTTC	2 cut(s)	288, 585
AspLEI	GCGC	1 cut(s)	732
AspS9I	GGNCC	3 cut(s)	71, 145, 629
AsuC2I	CCSGG	2 cut(s)	85, 639
AsuHPI	GGTGA	3 cut(s)	104, 471, 608
AvaII	GGWCC	1 cut(s)	145
BbsI	GAAGAC	1 cut(s)	155
BbvI	GCAGC	7 cut(s)	286, 433, 437, 461, 832, 871, 880
BccI	CCATC	3 cut(s)	191, 289, 308
BcnI	CCSGG	2 cut(s)	85, 639
BcoDI	GTCTC	1 cut(s)	972
BfaI	CTAG	3 cut(s)	135, 267, 1015
BfmI	CTRYAG	4 cut(s)	447, 648, 705, 894
BglII	AGATCT	1 cut(s)	652
BisI	GCNGC	9 cut(s)	74, 300, 426, 447, 450, 528, 846, 885, 894
BlsI	GCNGC	9 cut(s)	75, 301, 427, 448, 451, 529, 847, 886, 895
Bme1390I	CCNGG	2 cut(s)	85, 639
Bme18I	GGWCC	1 cut(s)	145
BmgT120I	GGNCC	3 cut(s)	71, 145, 629
BmiI	GGNNCC	1 cut(s)	835
BmrFI	CCNGG	2 cut(s)	85, 639
BmsI	GCATC	1 cut(s)	501
BpiI	GAAGAC	1 cut(s)	155
BpuMI	CCSGG	2 cut(s)	85, 639
BsaJI	CCNNGG	2 cut(s)	49, 937
BsaWI	WCCGGW	1 cut(s)	139
Bsc4I	CCNNNNNNNGG	3 cut(s)	272, 295, 638
Bse118I	RCCGGY	1 cut(s)	139
Bse1I	ACTGG	1 cut(s)	333
Bse3DI	GCAATG	2 cut(s)	554, 697
BseDI	CCNNGG	2 cut(s)	49, 937
BseGI	GGATG	1 cut(s)	202
BseLI	CCNNNNNNNGG	3 cut(s)	272, 295, 638
BseMI	GCAATG	2 cut(s)	554, 697
BseMII	CTCAG	1 cut(s)	900
BseNI	ACTGG	1 cut(s)	333
BseXI	GCAGC	7 cut(s)	286, 433, 437, 461, 832, 871, 880
BseYI	CCCAGC	1 cut(s)	973
Bsh1236I	CGCG	2 cut(s)	114, 664
BshFI	GGCC	3 cut(s)	73, 527, 631
BshTI	ACCGGT	1 cut(s)	139
BsiSI	CCGG	3 cut(s)	85, 140, 639
BslI	CCNNNNNNNGG	3 cut(s)	272, 295, 638
BsmAI	GTCTC	1 cut(s)	972
BsmBI	CGTCTC	1 cut(s)	972
BsnI	GGCC	3 cut(s)	73, 527, 631
Bsp143I	GATC	4 cut(s)	45, 415, 652, 912
BspACI	CCGC	5 cut(s)	74, 114, 528, 662, 754
BspANI	GGCC	3 cut(s)	73, 527, 631
BspCNI	CTCAG	1 cut(s)	901
BspFNI	CGCG	2 cut(s)	114, 664
BspHI	TCATGA	1 cut(s)	556
BspLI	GGNNCC	1 cut(s)	835
BspMAI	CTGCAG	2 cut(s)	451, 898
BspPI	GGATC	1 cut(s)	40
BsrDI	GCAATG	2 cut(s)	554, 697
BsrFI	RCCGGY	1 cut(s)	139
BsrI	ACTGG	1 cut(s)	333
BssAI	RCCGGY	1 cut(s)	139
BssECI	CCNNGG	2 cut(s)	49, 937
BssMI	GATC	4 cut(s)	45, 415, 652, 912
Bst4CI	ACNGT	3 cut(s)	13, 330, 938
Bst6I	CTCTTC	2 cut(s)	223, 705
BstAPI	GCANNNNNTGC	2 cut(s)	455, 893
BstC8I	GCNNGC	4 cut(s)	430, 444, 460, 787
BstDEI	CTNAG	3 cut(s)	565, 857, 909
BstDSI	CCRYGG	1 cut(s)	937
BstF5I	GGATG	1 cut(s)	202
BstFNI	CGCG	2 cut(s)	114, 664
BstHHI	GCGC	1 cut(s)	732
BstKTI	GATC	4 cut(s)	48, 418, 655, 915
BstMAI	GTCTC	1 cut(s)	972
BstMBI	GATC	4 cut(s)	45, 415, 652, 912
BstMWI	GCNNNNNNNGC	6 cut(s)	104, 176, 308, 455, 890, 893
BstNSI	RCATGY	2 cut(s)	306, 690
BstSCI	CCNGG	2 cut(s)	83, 637
BstSFI	CTRYAG	4 cut(s)	447, 648, 705, 894
BstUI	CGCG	2 cut(s)	114, 664
BstV1I	GCAGC	7 cut(s)	286, 433, 437, 461, 832, 871, 880
BstV2I	GAAGAC	1 cut(s)	155
BstX2I	RGATCY	2 cut(s)	45, 652
BstYI	RGATCY	2 cut(s)	45, 652
BsuRI	GGCC	3 cut(s)	73, 527, 631
BtgI	CCRYGG	1 cut(s)	937
BtsCI	GGATG	1 cut(s)	202
BtsI	GCAGTG	1 cut(s)	925
BtsIMutI	CAGTG	3 cut(s)	9, 340, 925
Cac8I	GCNNGC	4 cut(s)	430, 444, 460, 787
CciI	TCATGA	1 cut(s)	556
CfoI	GCGC	1 cut(s)	732
Cfr10I	RCCGGY	1 cut(s)	139
Cfr13I	GGNCC	3 cut(s)	71, 145, 629
Csp6I	GTAC	2 cut(s)	402, 903
CspAI	ACCGGT	1 cut(s)	139
CviAII	CATG	6 cut(s)	303, 389, 557, 687, 733, 1004
CviQI	GTAC	2 cut(s)	402, 903
DdeI	CTNAG	3 cut(s)	565, 857, 909
DpnI	GATC	4 cut(s)	47, 417, 654, 914
DpnII	GATC	4 cut(s)	45, 415, 652, 912
EaeI	YGGCCR	1 cut(s)	525
Eam1104I	CTCTTC	2 cut(s)	223, 705
EarI	CTCTTC	2 cut(s)	223, 705
Eco32I	GATATC	2 cut(s)	870, 985
Eco47I	GGWCC	1 cut(s)	145
EcoRV	GATATC	2 cut(s)	870, 985
EcoT22I	ATGCAT	1 cut(s)	220
Esp3I	CGTCTC	1 cut(s)	972
FaeI	CATG	6 cut(s)	306, 392, 560, 690, 736, 1007
FatI	CATG	6 cut(s)	302, 388, 556, 686, 732, 1003
FauNDI	CATATG	2 cut(s)	214, 969
Fnu4HI	GCNGC	9 cut(s)	74, 300, 426, 447, 450, 528, 846, 885, 894
FokI	GGATG	1 cut(s)	209
Fsp4HI	GCNGC	9 cut(s)	74, 300, 426, 447, 450, 528, 846, 885, 894
FspBI	CTAG	3 cut(s)	135, 267, 1015
GlaI	GCGC	1 cut(s)	731
GluI	GCNGC	9 cut(s)	74, 300, 426, 447, 450, 528, 846, 885, 894
GsaI	CCCAGC	1 cut(s)	977
HaeIII	GGCC	3 cut(s)	73, 527, 631
HapII	CCGG	3 cut(s)	85, 140, 639
HhaI	GCGC	1 cut(s)	732
Hin1II	CATG	6 cut(s)	306, 392, 560, 690, 736, 1007
Hin6I	GCGC	1 cut(s)	730
HinP1I	GCGC	1 cut(s)	730
HincII	GTYRAC	1 cut(s)	7
HindII	GTYRAC	1 cut(s)	7
HindIII	AAGCTT	2 cut(s)	359, 758
HinfI	GANTC	2 cut(s)	31, 713
HpaI	GTTAAC	1 cut(s)	7
HpaII	CCGG	3 cut(s)	85, 140, 639
HphI	GGTGA	3 cut(s)	104, 471, 608
Hpy166II	GTNNAC	3 cut(s)	7, 145, 745
Hpy188I	TCNGA	5 cut(s)	42, 50, 294, 510, 580
Hpy188III	TCNNGA	1 cut(s)	557
Hpy8I	GTNNAC	3 cut(s)	7, 145, 745
HpyAV	CCTTC	3 cut(s)	187, 299, 501
HpyCH4III	ACNGT	3 cut(s)	13, 330, 938
HpyCH4IV	ACGT	1 cut(s)	434
HpyF10VI	GCNNNNNNNGC	6 cut(s)	104, 176, 308, 455, 890, 893
HpyF3I	CTNAG	3 cut(s)	565, 857, 909
HpySE526I	ACGT	1 cut(s)	434
Hsp92II	CATG	6 cut(s)	306, 392, 560, 690, 736, 1007
HspAI	GCGC	1 cut(s)	730
KspAI	GTTAAC	1 cut(s)	7
Kzo9I	GATC	4 cut(s)	45, 415, 652, 912
LmnI	GCTCC	1 cut(s)	764
Lsp1109I	GCAGC	7 cut(s)	286, 433, 437, 461, 832, 871, 880
LweI	GCATC	1 cut(s)	501
MaeI	CTAG	3 cut(s)	135, 267, 1015
MaeII	ACGT	1 cut(s)	434
MaeIII	GTNAC	1 cut(s)	122
MalI	GATC	4 cut(s)	47, 417, 654, 914
MboI	GATC	4 cut(s)	45, 415, 652, 912
MboII	GAAGA	5 cut(s)	55, 155, 240, 722, 1002
MflI	RGATCY	2 cut(s)	45, 652
MluCI	AATT	5 cut(s)	36, 377, 474, 601, 771
MlyI	GAGTC	2 cut(s)	40, 722
MmeI	TCCRAC	2 cut(s)	277, 682
MnlI	CCTC	6 cut(s)	44, 88, 224, 602, 610, 854
Mph1103I	ATGCAT	1 cut(s)	220
MroXI	GAANNNNTTC	2 cut(s)	288, 585
MseI	TTAA	5 cut(s)	6, 221, 621, 698, 995
MslI	CAYNNNNRTG	1 cut(s)	387
MspA1I	CMGCKG	2 cut(s)	76, 530
MspI	CCGG	3 cut(s)	85, 140, 639
MspR9I	CCNGG	2 cut(s)	85, 639
MvnI	CGCG	2 cut(s)	114, 664
MwoI	GCNNNNNNNGC	6 cut(s)	104, 176, 308, 455, 890, 893
NciI	CCSGG	2 cut(s)	85, 639
NdeI	CATATG	2 cut(s)	214, 969
NdeII	GATC	4 cut(s)	45, 415, 652, 912
NlaIII	CATG	6 cut(s)	306, 392, 560, 690, 736, 1007
NlaIV	GGNNCC	1 cut(s)	835
NmuCI	GTSAC	1 cut(s)	122
NsiI	ATGCAT	1 cut(s)	220
NspI	RCATGY	2 cut(s)	306, 690
PagI	TCATGA	1 cut(s)	556
PcsI	WCGNNNNNNNCGW	1 cut(s)	46
PdmI	GAANNNNTTC	2 cut(s)	288, 585
PinAI	ACCGGT	1 cut(s)	139
PkrI	GCNGC	9 cut(s)	75, 301, 427, 448, 451, 529, 847, 886, 895
PleI	GAGTC	2 cut(s)	39, 721
PpsI	GAGTC	2 cut(s)	39, 721
PspFI	CCCAGC	1 cut(s)	973
PspN4I	GGNNCC	1 cut(s)	835
PspPI	GGNCC	3 cut(s)	71, 145, 629
PstI	CTGCAG	2 cut(s)	451, 898
PsuI	RGATCY	2 cut(s)	45, 652
RsaI	GTAC	2 cut(s)	403, 904
RsaNI	GTAC	2 cut(s)	402, 903
RseI	CAYNNNNRTG	1 cut(s)	387
SaqAI	TTAA	5 cut(s)	6, 221, 621, 698, 995
SatI	GCNGC	9 cut(s)	74, 300, 426, 447, 450, 528, 846, 885, 894
Sau3AI	GATC	4 cut(s)	45, 415, 652, 912
Sau96I	GGNCC	3 cut(s)	71, 145, 629
SchI	GAGTC	2 cut(s)	40, 722
ScrFI	CCNGG	2 cut(s)	85, 639
SfaNI	GCATC	1 cut(s)	501
SfcI	CTRYAG	4 cut(s)	447, 648, 705, 894
SinI	GGWCC	1 cut(s)	145
SmiMI	CAYNNNNRTG	1 cut(s)	387
Sse9I	AATT	5 cut(s)	36, 377, 474, 601, 771
SsiI	CCGC	5 cut(s)	74, 114, 528, 662, 754
SspMI	CTAG	3 cut(s)	135, 267, 1015
StyD4I	CCNGG	2 cut(s)	83, 637
TaaI	ACNGT	3 cut(s)	13, 330, 938
TaiI	ACGT	1 cut(s)	437
TasI	AATT	5 cut(s)	36, 377, 474, 601, 771
TatI	WGTACW	2 cut(s)	401, 902
TauI	GCSGC	2 cut(s)	76, 530
Tru1I	TTAA	5 cut(s)	6, 221, 621, 698, 995
Tru9I	TTAA	5 cut(s)	6, 221, 621, 698, 995
TscAI	CASTG	3 cut(s)	16, 340, 925
TseFI	GTSAC	1 cut(s)	122
TseI	GCWGC	7 cut(s)	299, 425, 446, 449, 845, 884, 893
Tsp45I	GTSAC	1 cut(s)	122
TspDTI	ATGAA	5 cut(s)	206, 371, 377, 457, 956
TspRI	CASTG	3 cut(s)	16, 340, 925
VpaK11BI	GGWCC	1 cut(s)	145
XapI	RAATTY	3 cut(s)	377, 601, 771
XceI	RCATGY	2 cut(s)	306, 690
XcmI	CCANNNNNNNNNTGG	1 cut(s)	935
XmnI	GAANNNNTTC	2 cut(s)	288, 585
XspI	CTAG	3 cut(s)	135, 267, 1015
Zsp2I	ATGCAT	1 cut(s)	220

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