Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5A

Orthogroup ID

OG0001544

Physical Location & Seq

Genomic Coordinates Forward (+)

25208653 .. 25212175

Gene Structure 3523 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5AG213800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 990 bp

ATGGTTAACACTGTGGGATTACATATGTTGAGCCTAATTCGGAAGATCCGAGGTGGGTTTTTCGTTCTTGGGCCGCCGGTAGCCCGGTTCGGTGAGGCTGTGGTTGCATTACCCGGTGGCTGTGACATTGGGGCTAGACCGGTGGACCTTTACATTCGGGGTCTTCAAGCTCTTGGTGCTGTTGTGGAGATGAAGGATGGCAAAGTTCAGGCATATGCATTAAATGGAAGAGGATTGGTTGGGGGAAGTTTCCAACTTGATTACCCTAGCGTTAGGGCAACAGAAACCCTTCTGATGGCTGCATGTATGGCTGATGGAACAACTATACTGTCCATTGTTGCCAGAGAGCAGGAAGCAACAAAGCTTGTCATCAAGGGAAAATCTCATTTTCATGGTTGTAAATGTACTATTGCACCTGATCGCATTGAAGCAGGCACGTTTTTGCTTGCTGCAGCTATTGCTCGCTCATTCATTTTAATTTCACCTGTCATTCCTTCCCAAGTTTCCTGTCTGATGCAAAAACTCTTGGCCGCTGGTTGCAAAATAAGGCAATGCTCTCATGATACCTTGGATAATTTGCGAGGTTTTGAGGTTAAGACAGGGCCATTTCCCGGGTTTCCTACAGATCTCCAACCGCAAACAATGGCCCTGCTAACCACGTGCAATGGTTTTAGTCCTGTAGAAGAGTTTGTATTTGAAAAGCGCATGGCAAATGTAAACGAACTGCGGAAGCTTGGAGCAAAAATTCAAGTCTGTGCAAGCTCTGCTCTGGTTTTCGGGAAAGATAATAGAAGTGGTTTGTCTGGTTCCTGCCTTGCTGCAACTGACCTCAGAGTTGGGATATCATTGGTATTAGGTGCATTGGCTGCAGAAGGTACTACTGAGATCAGCAGTGTTGCTCATATTGACCGTGGTTATGAGAATGTAGATATACAACTTCATATGCTGGGAGCCGATATCAAAAGATTAATGGCCCCTGCTTCTTCCTAG

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

329

Amino Acids

34.86

Weight (kDa)

8.67

Isoelectric Point (pI)

38.5

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
EPSP_synthase	PF00275	13 - 115	2.7e-17	EPSP synthase (3-phosphoshikimate 1-carboxyvinyltransferase)
EPSP_synthase	PF00275	115 - 308	2e-32	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

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

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	4 cut(s)	74, 531, 635, 727
AclWI	GGATC	1 cut(s)	40
AcoI	YGGCCR	1 cut(s)	528
AcsI	RAATTY	1 cut(s)	744
AcvI	CACGTG	1 cut(s)	660
AfaI	GTAC	2 cut(s)	406, 877
AfiI	CCNNNNNNNGG	2 cut(s)	295, 611
AgeI	ACCGGT	1 cut(s)	139
AgsI	TTSAA	4 cut(s)	167, 428, 698, 749
AluBI	AGCT	5 cut(s)	170, 364, 455, 733, 762
AluI	AGCT	5 cut(s)	170, 364, 455, 733, 762
AlwI	GGATC	1 cut(s)	40
Ama87I	CYCGRG	1 cut(s)	611
AoxI	GGCC	5 cut(s)	71, 528, 602, 645, 972
ApeKI	GCWGC	5 cut(s)	299, 449, 452, 818, 866
ApoI	RAATTY	1 cut(s)	744
AseI	ATTAAT	1 cut(s)	968
AsiGI	ACCGGT	1 cut(s)	139
Asp700I	GAANNNNTTC	1 cut(s)	288
AspLEI	GCGC	1 cut(s)	705
AspS9I	GGNCC	5 cut(s)	71, 145, 602, 646, 973
AsuC2I	CCSGG	4 cut(s)	85, 114, 612, 613
AsuHPI	GGTGA	2 cut(s)	104, 474
AvaI	CYCGRG	1 cut(s)	611
AvaII	GGWCC	1 cut(s)	145
BbrPI	CACGTG	1 cut(s)	660
BbsI	GAAGAC	1 cut(s)	155
BbvI	GCAGC	5 cut(s)	286, 436, 464, 805, 853
BccI	CCATC	3 cut(s)	191, 289, 308
BcnI	CCSGG	4 cut(s)	85, 114, 612, 613
BfaI	CTAG	3 cut(s)	135, 267, 988
BfmI	CTRYAG	4 cut(s)	450, 621, 678, 867
BglII	AGATCT	1 cut(s)	625
BisI	GCNGC	7 cut(s)	74, 300, 450, 453, 531, 819, 867
BlsI	GCNGC	7 cut(s)	75, 301, 451, 454, 532, 820, 868
Bme1390I	CCNGG	4 cut(s)	85, 114, 612, 613
Bme18I	GGWCC	1 cut(s)	145
BmeT110I	CYCGRG	1 cut(s)	611
BmgT120I	GGNCC	5 cut(s)	71, 145, 602, 646, 973
BmiI	GGNNCC	3 cut(s)	808, 952, 975
BmrFI	CCNGG	4 cut(s)	85, 114, 612, 613
BmsI	GCATC	1 cut(s)	504
BpiI	GAAGAC	1 cut(s)	155
BpuMI	CCSGG	4 cut(s)	85, 114, 612, 613
BsaAI	YACGTR	1 cut(s)	660
BsaJI	CCNNGG	4 cut(s)	49, 567, 611, 910
BsaWI	WCCGGW	1 cut(s)	139
Bsc4I	CCNNNNNNNGG	2 cut(s)	295, 611
Bse118I	RCCGGY	2 cut(s)	76, 139
Bse3DI	GCAATG	2 cut(s)	557, 670
BseDI	CCNNGG	4 cut(s)	49, 567, 611, 910
BseGI	GGATG	1 cut(s)	202
BseLI	CCNNNNNNNGG	2 cut(s)	295, 611
BseMI	GCAATG	2 cut(s)	557, 670
BseMII	CTCAG	2 cut(s)	844, 873
BseXI	GCAGC	5 cut(s)	286, 436, 464, 805, 853
BseYI	CCCAGC	1 cut(s)	946
BshFI	GGCC	5 cut(s)	73, 530, 604, 647, 974
BshTI	ACCGGT	1 cut(s)	139
BsiHKCI	CYCGRG	1 cut(s)	611
BsiSI	CCGG	5 cut(s)	77, 85, 114, 140, 612
BslI	CCNNNNNNNGG	2 cut(s)	295, 611
BsnI	GGCC	5 cut(s)	73, 530, 604, 647, 974
BsoBI	CYCGRG	1 cut(s)	611
Bsp143I	GATC	4 cut(s)	45, 418, 625, 885
BspACI	CCGC	4 cut(s)	74, 531, 635, 727
BspANI	GGCC	5 cut(s)	73, 530, 604, 647, 974
BspCNI	CTCAG	2 cut(s)	843, 874
BspHI	TCATGA	1 cut(s)	559
BspLI	GGNNCC	3 cut(s)	808, 952, 975
BspMAI	CTGCAG	2 cut(s)	454, 871
BspPI	GGATC	1 cut(s)	40
BsrDI	GCAATG	2 cut(s)	557, 670
BsrFI	RCCGGY	2 cut(s)	76, 139
BssAI	RCCGGY	2 cut(s)	76, 139
BssECI	CCNNGG	4 cut(s)	49, 567, 611, 910
BssMI	GATC	4 cut(s)	45, 418, 625, 885
BssT1I	CCWWGG	1 cut(s)	567
Bst4CI	ACNGT	3 cut(s)	13, 330, 911
Bst6I	CTCTTC	2 cut(s)	223, 678
BstAPI	GCANNNNNTGC	3 cut(s)	458, 764, 866
BstBAI	YACGTR	1 cut(s)	660
BstC8I	GCNNGC	4 cut(s)	433, 447, 463, 760
BstDEI	CTNAG	2 cut(s)	830, 882
BstDSI	CCRYGG	1 cut(s)	910
BstF5I	GGATG	1 cut(s)	202
BstHHI	GCGC	1 cut(s)	705
BstKTI	GATC	4 cut(s)	48, 421, 628, 888
BstMBI	GATC	4 cut(s)	45, 418, 625, 885
BstMWI	GCNNNNNNNGC	6 cut(s)	104, 176, 308, 458, 764, 866
BstNSI	RCATGY	1 cut(s)	306
BstSCI	CCNGG	4 cut(s)	83, 112, 610, 611
BstSFI	CTRYAG	4 cut(s)	450, 621, 678, 867
BstV1I	GCAGC	5 cut(s)	286, 436, 464, 805, 853
BstV2I	GAAGAC	1 cut(s)	155
BstX2I	RGATCY	2 cut(s)	45, 625
BstYI	RGATCY	2 cut(s)	45, 625
BsuRI	GGCC	5 cut(s)	73, 530, 604, 647, 974
BtgI	CCRYGG	1 cut(s)	910
BtsCI	GGATG	1 cut(s)	202
BtsI	GCAGTG	1 cut(s)	898
BtsIMutI	CAGTG	2 cut(s)	9, 898
Cac8I	GCNNGC	4 cut(s)	433, 447, 463, 760
CciI	TCATGA	1 cut(s)	559
CfoI	GCGC	1 cut(s)	705
Cfr10I	RCCGGY	2 cut(s)	76, 139
Cfr13I	GGNCC	5 cut(s)	71, 145, 602, 646, 973
Cfr9I	CCCGGG	1 cut(s)	611
Csp6I	GTAC	2 cut(s)	405, 876
CspAI	ACCGGT	1 cut(s)	139
CviAII	CATG	4 cut(s)	303, 392, 560, 706
CviQI	GTAC	2 cut(s)	405, 876
DdeI	CTNAG	2 cut(s)	830, 882
DpnI	GATC	4 cut(s)	47, 420, 627, 887
DpnII	GATC	4 cut(s)	45, 418, 625, 885
EaeI	YGGCCR	1 cut(s)	528
Eam1104I	CTCTTC	2 cut(s)	223, 678
EarI	CTCTTC	2 cut(s)	223, 678
Eco130I	CCWWGG	1 cut(s)	567
Eco32I	GATATC	2 cut(s)	843, 958
Eco47I	GGWCC	1 cut(s)	145
Eco72I	CACGTG	1 cut(s)	660
Eco88I	CYCGRG	1 cut(s)	611
EcoRV	GATATC	2 cut(s)	843, 958
EcoT14I	CCWWGG	1 cut(s)	567
EcoT22I	ATGCAT	1 cut(s)	220
ErhI	CCWWGG	1 cut(s)	567
FaeI	CATG	4 cut(s)	306, 395, 563, 709
FatI	CATG	4 cut(s)	302, 391, 559, 705
FauNDI	CATATG	3 cut(s)	24, 214, 942
Fnu4HI	GCNGC	7 cut(s)	74, 300, 450, 453, 531, 819, 867
FokI	GGATG	1 cut(s)	209
Fsp4HI	GCNGC	7 cut(s)	74, 300, 450, 453, 531, 819, 867
FspBI	CTAG	3 cut(s)	135, 267, 988
GlaI	GCGC	1 cut(s)	704
GluI	GCNGC	7 cut(s)	74, 300, 450, 453, 531, 819, 867
GsaI	CCCAGC	1 cut(s)	950
HaeIII	GGCC	5 cut(s)	73, 530, 604, 647, 974
HapII	CCGG	5 cut(s)	77, 85, 114, 140, 612
HhaI	GCGC	1 cut(s)	705
Hin1II	CATG	4 cut(s)	306, 395, 563, 709
Hin6I	GCGC	1 cut(s)	703
HinP1I	GCGC	1 cut(s)	703
HincII	GTYRAC	1 cut(s)	7
HindII	GTYRAC	1 cut(s)	7
HindIII	AAGCTT	2 cut(s)	362, 731
HpaI	GTTAAC	1 cut(s)	7
HpaII	CCGG	5 cut(s)	77, 85, 114, 140, 612
HphI	GGTGA	2 cut(s)	104, 474
Hpy166II	GTNNAC	3 cut(s)	7, 145, 718
Hpy188I	TCNGA	5 cut(s)	42, 50, 294, 513, 833
Hpy188III	TCNNGA	2 cut(s)	560, 778
Hpy8I	GTNNAC	3 cut(s)	7, 145, 718
HpyAV	CCTTC	4 cut(s)	187, 299, 504, 866
HpyCH4III	ACNGT	3 cut(s)	13, 330, 911
HpyCH4IV	ACGT	2 cut(s)	437, 659
HpyF10VI	GCNNNNNNNGC	6 cut(s)	104, 176, 308, 458, 764, 866
HpyF3I	CTNAG	2 cut(s)	830, 882
HpySE526I	ACGT	2 cut(s)	437, 659
Hsp92II	CATG	4 cut(s)	306, 395, 563, 709
HspAI	GCGC	1 cut(s)	703
KspAI	GTTAAC	1 cut(s)	7
Kzo9I	GATC	4 cut(s)	45, 418, 625, 885
LmnI	GCTCC	2 cut(s)	737, 950
Lsp1109I	GCAGC	5 cut(s)	286, 436, 464, 805, 853
LweI	GCATC	1 cut(s)	504
MaeI	CTAG	3 cut(s)	135, 267, 988
MaeII	ACGT	2 cut(s)	437, 659
MaeIII	GTNAC	1 cut(s)	122
MalI	GATC	4 cut(s)	47, 420, 627, 887
MboI	GATC	4 cut(s)	45, 418, 625, 885
MboII	GAAGA	5 cut(s)	55, 155, 240, 695, 975
MflI	RGATCY	2 cut(s)	45, 625
MluCI	AATT	4 cut(s)	36, 477, 574, 744
MmeI	TCCRAC	2 cut(s)	277, 655
MnlI	CCTC	6 cut(s)	44, 88, 224, 575, 583, 839
Mph1103I	ATGCAT	1 cut(s)	220
MroXI	GAANNNNTTC	1 cut(s)	288
MseI	TTAA	5 cut(s)	6, 221, 476, 594, 968
MslI	CAYNNNNRTG	1 cut(s)	390
MspA1I	CMGCKG	1 cut(s)	533
MspI	CCGG	5 cut(s)	77, 85, 114, 140, 612
MspR9I	CCNGG	4 cut(s)	85, 114, 612, 613
MwoI	GCNNNNNNNGC	6 cut(s)	104, 176, 308, 458, 764, 866
NciI	CCSGG	4 cut(s)	85, 114, 612, 613
NdeI	CATATG	3 cut(s)	24, 214, 942
NdeII	GATC	4 cut(s)	45, 418, 625, 885
NlaIII	CATG	4 cut(s)	306, 395, 563, 709
NlaIV	GGNNCC	3 cut(s)	808, 952, 975
NmuCI	GTSAC	1 cut(s)	122
NsiI	ATGCAT	1 cut(s)	220
NspI	RCATGY	1 cut(s)	306
PagI	TCATGA	1 cut(s)	559
PcsI	WCGNNNNNNNCGW	1 cut(s)	46
PdmI	GAANNNNTTC	1 cut(s)	288
PinAI	ACCGGT	1 cut(s)	139
PkrI	GCNGC	7 cut(s)	75, 301, 451, 454, 532, 820, 868
PmaCI	CACGTG	1 cut(s)	660
PmlI	CACGTG	1 cut(s)	660
Ppu21I	YACGTR	1 cut(s)	660
PshBI	ATTAAT	1 cut(s)	968
PspCI	CACGTG	1 cut(s)	660
PspFI	CCCAGC	1 cut(s)	946
PspN4I	GGNNCC	3 cut(s)	808, 952, 975
PspPI	GGNCC	5 cut(s)	71, 145, 602, 646, 973
PstI	CTGCAG	2 cut(s)	454, 871
PsuI	RGATCY	2 cut(s)	45, 625
RsaI	GTAC	2 cut(s)	406, 877
RsaNI	GTAC	2 cut(s)	405, 876
RseI	CAYNNNNRTG	1 cut(s)	390
SaqAI	TTAA	5 cut(s)	6, 221, 476, 594, 968
SatI	GCNGC	7 cut(s)	74, 300, 450, 453, 531, 819, 867
Sau3AI	GATC	4 cut(s)	45, 418, 625, 885
Sau96I	GGNCC	5 cut(s)	71, 145, 602, 646, 973
ScrFI	CCNGG	4 cut(s)	85, 114, 612, 613
SfaNI	GCATC	1 cut(s)	504
SfcI	CTRYAG	4 cut(s)	450, 621, 678, 867
SinI	GGWCC	1 cut(s)	145
SmaI	CCCGGG	1 cut(s)	613
SmiMI	CAYNNNNRTG	1 cut(s)	390
Sse9I	AATT	4 cut(s)	36, 477, 574, 744
SsiI	CCGC	4 cut(s)	74, 531, 635, 727
SspMI	CTAG	3 cut(s)	135, 267, 988
StyD4I	CCNGG	4 cut(s)	83, 112, 610, 611
StyI	CCWWGG	1 cut(s)	567
TaaI	ACNGT	3 cut(s)	13, 330, 911
TaiI	ACGT	2 cut(s)	440, 662
TasI	AATT	4 cut(s)	36, 477, 574, 744
TatI	WGTACW	1 cut(s)	404
TauI	GCSGC	2 cut(s)	76, 533
Tru1I	TTAA	5 cut(s)	6, 221, 476, 594, 968
Tru9I	TTAA	5 cut(s)	6, 221, 476, 594, 968
TscAI	CASTG	2 cut(s)	16, 898
TseFI	GTSAC	1 cut(s)	122
TseI	GCWGC	5 cut(s)	299, 449, 452, 818, 866
Tsp45I	GTSAC	1 cut(s)	122
TspDTI	ATGAA	4 cut(s)	206, 380, 460, 929
TspMI	CCCGGG	1 cut(s)	611
TspRI	CASTG	2 cut(s)	16, 898
VpaK11BI	GGWCC	1 cut(s)	145
VspI	ATTAAT	1 cut(s)	968
XapI	RAATTY	1 cut(s)	744
XceI	RCATGY	1 cut(s)	306
XmaI	CCCGGG	1 cut(s)	611
XmnI	GAANNNNTTC	1 cut(s)	288
XspI	CTAG	3 cut(s)	135, 267, 988
Zsp2I	ATGCAT	1 cut(s)	220

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