Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5D

Orthogroup ID

OG0009370

Physical Location & Seq

Genomic Coordinates Reverse (-)

1692661 .. 1696255

Gene Structure 3595 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5DG024200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1056 bp

ATGGCTGTAAAGGGTGGCTCTATCTGGAGTTGTGCTAAAACCCCTTATTCTCATCAGGGTATTTCAGATTTGAGGTCTAATCGTTCTGGGTTGGGTTTGAATTTGAGTTTGCGCAAATGGGAATGTTGCAGTTTGGGGGTTTCTTTGGCTCACAAAGCTATCACCCCAGTTGAAGATGAGAAGCCAAATTTGCCAGGGATGGAATCCGCAGGAGCAATTCAGAGGGTTGAGGATAATGAGTCTAAGGGTTTTCACAAGGATATGAACCTTCTTCCCAAACCATTGACAGCAGCTGATATTTCTCCTTCGCCAGATGATGGTTCAAAAGTTAGAGTTGCTTATCAGGGGTTACCGGGGGCATATAGTGAGGCTGCTGCCCTAAAAGCTTACCCGAAGTGTGAAACTGTTCCATGTGACCAGTTTGAAGCTGCATTTAAGGCCGTTGAACTGTGGTTAGTGGATAAAGCAGTTCTTCCTATTGAGAATTCTGTTGGTGGAAGCATCCACCGTAATTATGACTTGCTTCTTCGCCATAGATTGCACATAGTTGGAGAGGTACAACTTCTAGTGAACCATTGCCTCTTGGGATTGCCTGGTGTAAGGAAAGAGGAACTAAAACGTGTTCTAAGCCATCCTCAGGCTCTTGCTCAATGTGAGATGACACTAAGCAGCTTAGGCATCATCCGAATCAATACCGATGACACTGCTCTTGCTGCGCAGATGGTGGCCTCAACTGGCCTAAAAGATACTGGTGCTGTTGCAAGTTCTCGAGCTGCAGAAATCTATGGGCTTCAGATTCTTGCAGATAAAGTTCAAGATGATGACGATAATATTACTCGCTTTCTGATACTCGCAAGAGAACCAATAATGCCAGGAACTGAGCGGCAATATAAGACAAGCGTTGTTTTCACTCTAGAAGAAGGTCCTGGTGTACTATTCAAAGCCTTAGCAGTGTTTGCACTTAGGGGCATTAATTTGACAAAGATTGAAAGTCGCCCCCAAAAACAACGTCCATTAAGGGTTGTTGATGATTCTAATGAAGGAAGTGCCAAGTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003824 GO:0004664 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0006082 GO:0006520 GO:0006558 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0008652 GO:0009058 GO:0009072 GO:0009073 GO:0009094 GO:0009095 GO:0009507 GO:0009536 GO:0009987 GO:0016053 GO:0016829 GO:0016835 GO:0016836 GO:0017144 GO:0019438 GO:0019752 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043436 GO:0044237 GO:0044238 GO:0044249 GO:0044281 GO:0044283 GO:0044424 GO:0044444 GO:0044464 GO:0046394 GO:0047769 GO:0071704 GO:1901360 GO:1901362 GO:1901564 GO:1901566 GO:1901576 GO:1901605 GO:1901607 GO:1902221 GO:1902223

KEGG Pathways

Metabolic & Signaling

ko00400 ko01100 ko01110 ko01130 ko01230 map00400 map01100 map01110 map01130 map01230

Pfam Domains

Protein Families

PDT

Protein Analysis

351

Amino Acids

38.1

Weight (kDa)

6.72

Isoelectric Point (pI)

42.51

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PDT	PF00800	112 - 287	1.3e-58	Prephenate dehydratase
ACT	PF01842	300 - 341	2.8e-06	ACT domain

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: OG0009370)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G11790 AT1G11790
fragaria_vesca	FvH4_3g01940 FvH4_3g01940
malus_domestica	MD05G1348000.v1.1 MD10G1322400.v1.1
prunus_persica	Prupe.4G019500_v2.0.a1 Prupe.4G019500_v2.0.a1 Prupe.4G019500_v2.0.a1
pyrus_communis	pycom05g31550 pycom10g27290
rosa_chinensis	RchiOBHm_Chr5g0002851
rosa_laevigata	RLG00000031065
rosa_multiflora	Rmu_sc0013603.1_g000010 Rmu_sc0020722.1_g000001
rosa_roxburghii	Rroxscaffold_1G00073000
rosa_rugosa	Rorug04G0400200
rosa_samantha	Rh5AG023000 Rh5BG025700 Rh5CG025600 Rh5DG024200
rosa_wichuraiana	Rw5G002150

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc16I	TGCGCA	2 cut(s)	113, 717
AccB7I	CCANNNNNTGG	1 cut(s)	317
AccBSI	CCGCTC	1 cut(s)	883
AciI	CCGC	2 cut(s)	207, 883
AcsI	RAATTY	3 cut(s)	100, 187, 484
AcuI	CTGAAG	1 cut(s)	776
AfaI	GTAC	2 cut(s)	558, 933
AfiI	CCNNNNNNNGG	2 cut(s)	317, 637
AflIII	ACRYGT	1 cut(s)	619
AgsI	TTSAA	8 cut(s)	100, 173, 324, 425, 446, 815, 940, 989
AjnI	CCWGG	4 cut(s)	193, 592, 871, 925
AluBI	AGCT	6 cut(s)	158, 293, 386, 428, 672, 773
AluI	AGCT	6 cut(s)	158, 293, 386, 428, 672, 773
AlwNI	CAGNNNCTG	2 cut(s)	293, 878
Ama87I	CYCGRG	1 cut(s)	768
AoxI	GGCC	3 cut(s)	438, 726, 736
ApeKI	GCWGC	7 cut(s)	290, 371, 374, 428, 669, 713, 773
ApoI	RAATTY	3 cut(s)	100, 187, 484
ArsI	GACNNNNNNTTYG	2 cut(s)	994, 1026
AseI	ATTAAT	1 cut(s)	972
Asp700I	GAANNNNTTC	1 cut(s)	405
AspLEI	GCGC	2 cut(s)	114, 718
AspS9I	GGNCC	1 cut(s)	923
AsuC2I	CCSGG	1 cut(s)	354
AsuHPI	GGTGA	1 cut(s)	154
AvaI	CYCGRG	1 cut(s)	768
AvaII	GGWCC	1 cut(s)	923
AxyI	CCTNAGG	1 cut(s)	636
BbvI	GCAGC	7 cut(s)	302, 358, 361, 415, 681, 700, 760
BccI	CCATC	4 cut(s)	193, 311, 639, 715
BceAI	ACGGC	1 cut(s)	425
BcgI	CGANNNNNNTGC	2 cut(s)	686, 720
BciT130I	CCWGG	4 cut(s)	195, 594, 873, 927
BcnI	CCSGG	1 cut(s)	354
BfaI	CTAG	2 cut(s)	566, 914
BfmI	CTRYAG	1 cut(s)	774
BisI	GCNGC	8 cut(s)	291, 372, 375, 429, 670, 714, 774, 884
BlsI	GCNGC	8 cut(s)	292, 373, 376, 430, 671, 715, 775, 885
Bme1390I	CCNGG	5 cut(s)	195, 354, 594, 873, 927
Bme18I	GGWCC	1 cut(s)	923
BmeT110I	CYCGRG	1 cut(s)	768
BmgT120I	GGNCC	1 cut(s)	923
BmrFI	CCNGG	5 cut(s)	195, 354, 594, 873, 927
BmrI	ACTGGG	1 cut(s)	161
BmsI	GCATC	2 cut(s)	510, 687
BmuI	ACTGGG	1 cut(s)	161
BpmI	CTGGAG	1 cut(s)	46
Bpu10I	CCTNAGC	2 cut(s)	673, 946
BpuMI	CCSGG	1 cut(s)	354
BsaJI	CCNNGG	2 cut(s)	194, 353
Bsc4I	CCNNNNNNNGG	2 cut(s)	317, 637
Bse1I	ACTGG	4 cut(s)	167, 418, 739, 754
Bse21I	CCTNAGG	1 cut(s)	636
Bse3DI	GCAATG	1 cut(s)	574
BseBI	CCWGG	4 cut(s)	195, 594, 873, 927
BseDI	CCNNGG	2 cut(s)	194, 353
BseGI	GGATG	4 cut(s)	204, 501, 631, 681
BseLI	CCNNNNNNNGG	2 cut(s)	317, 637
BseMI	GCAATG	1 cut(s)	574
BseMII	CTCAG	2 cut(s)	650, 870
BseNI	ACTGG	4 cut(s)	167, 418, 739, 754
BseXI	GCAGC	7 cut(s)	302, 358, 361, 415, 681, 700, 760
BshFI	GGCC	3 cut(s)	440, 728, 738
BsiHKCI	CYCGRG	1 cut(s)	768
BsiSI	CCGG	1 cut(s)	353
BslI	CCNNNNNNNGG	2 cut(s)	317, 637
BsnI	GGCC	3 cut(s)	440, 728, 738
BsoBI	CYCGRG	1 cut(s)	768
BspACI	CCGC	2 cut(s)	207, 883
BspANI	GGCC	3 cut(s)	440, 728, 738
BspCNI	CTCAG	2 cut(s)	649, 871
BspMAI	CTGCAG	1 cut(s)	778
BsrBI	CCGCTC	1 cut(s)	883
BsrDI	GCAATG	1 cut(s)	574
BsrI	ACTGG	4 cut(s)	167, 418, 739, 754
BssECI	CCNNGG	2 cut(s)	194, 353
Bst2UI	CCWGG	4 cut(s)	195, 594, 873, 927
Bst4CI	ACNGT	3 cut(s)	406, 450, 509
BstAPI	GCANNNNNTGC	1 cut(s)	956
BstDEI	CTNAG	8 cut(s)	243, 626, 636, 665, 673, 879, 946, 962
BstEII	GGTNACC	1 cut(s)	348
BstF5I	GGATG	4 cut(s)	204, 501, 631, 681
BstHHI	GCGC	2 cut(s)	114, 718
BstMWI	GCNNNNNNNGC	7 cut(s)	155, 190, 383, 437, 675, 713, 956
BstNI	CCWGG	4 cut(s)	195, 594, 873, 927
BstPI	GGTNACC	1 cut(s)	348
BstSCI	CCNGG	5 cut(s)	193, 352, 592, 871, 925
BstSFI	CTRYAG	1 cut(s)	774
BstV1I	GCAGC	7 cut(s)	302, 358, 361, 415, 681, 700, 760
Bsu36I	CCTNAGG	1 cut(s)	636
BsuRI	GGCC	3 cut(s)	440, 728, 738
BtsCI	GGATG	4 cut(s)	204, 501, 631, 681
BtsI	GCAGTG	2 cut(s)	702, 957
BtsIMutI	CAGTG	2 cut(s)	702, 957
CaiI	CAGNNNCTG	2 cut(s)	293, 878
CfoI	GCGC	2 cut(s)	114, 718
Cfr13I	GGNCC	1 cut(s)	923
Csp6I	GTAC	2 cut(s)	557, 932
CviAII	CATG	1 cut(s)	411
CviQI	GTAC	2 cut(s)	557, 932
DdeI	CTNAG	8 cut(s)	243, 626, 636, 665, 673, 879, 946, 962
Eco47I	GGWCC	1 cut(s)	923
Eco57I	CTGAAG	1 cut(s)	776
Eco81I	CCTNAGG	1 cut(s)	636
Eco88I	CYCGRG	1 cut(s)	768
Eco91I	GGTNACC	1 cut(s)	348
EcoO109I	RGGNCCY	1 cut(s)	923
EcoO65I	GGTNACC	1 cut(s)	348
EcoRI	GAATTC	1 cut(s)	484
EcoRII	CCWGG	4 cut(s)	193, 592, 871, 925
FaeI	CATG	1 cut(s)	414
FaiI	YATR	9 cut(s)	263, 361, 363, 412, 516, 534, 545, 786, 891
FalI	AAGNNNNNCTT	2 cut(s)	456, 488
FatI	CATG	1 cut(s)	410
Fnu4HI	GCNGC	8 cut(s)	291, 372, 375, 429, 670, 714, 774, 884
FokI	GGATG	4 cut(s)	211, 488, 618, 668
Fsp4HI	GCNGC	8 cut(s)	291, 372, 375, 429, 670, 714, 774, 884
FspBI	CTAG	2 cut(s)	566, 914
FspI	TGCGCA	2 cut(s)	113, 717
GlaI	GCGC	2 cut(s)	113, 717
GluI	GCNGC	8 cut(s)	291, 372, 375, 429, 670, 714, 774, 884
GsuI	CTGGAG	1 cut(s)	46
HaeIII	GGCC	3 cut(s)	440, 728, 738
HapII	CCGG	1 cut(s)	353
HhaI	GCGC	2 cut(s)	114, 718
Hin1II	CATG	1 cut(s)	414
Hin6I	GCGC	2 cut(s)	112, 716
HinP1I	GCGC	2 cut(s)	112, 716
HindIII	AAGCTT	1 cut(s)	384
HinfI	GANTC	5 cut(s)	203, 239, 687, 796, 1031
HpaII	CCGG	1 cut(s)	353
HphI	GGTGA	1 cut(s)	154
Hpy166II	GTNNAC	2 cut(s)	571, 932
Hpy188I	TCNGA	5 cut(s)	67, 222, 686, 795, 846
Hpy188III	TCNNGA	4 cut(s)	25, 768, 815, 914
Hpy8I	GTNNAC	2 cut(s)	571, 932
HpyAV	CCTTC	4 cut(s)	278, 315, 914, 1034
HpyCH4III	ACNGT	3 cut(s)	406, 450, 509
HpyCH4IV	ACGT	2 cut(s)	619, 1009
HpyCH4V	TGCA	7 cut(s)	129, 431, 541, 761, 776, 803, 959
HpyF10VI	GCNNNNNNNGC	7 cut(s)	155, 190, 383, 437, 675, 713, 956
HpyF3I	CTNAG	8 cut(s)	243, 626, 636, 665, 673, 879, 946, 962
HpySE526I	ACGT	2 cut(s)	619, 1009
Hsp92II	CATG	1 cut(s)	414
HspAI	GCGC	2 cut(s)	112, 716
LmnI	GCTCC	1 cut(s)	212
Lsp1109I	GCAGC	7 cut(s)	302, 358, 361, 415, 681, 700, 760
LweI	GCATC	2 cut(s)	510, 687
MaeI	CTAG	2 cut(s)	566, 914
MaeII	ACGT	2 cut(s)	619, 1009
MaeIII	GTNAC	2 cut(s)	348, 413
MbiI	CCGCTC	1 cut(s)	883
MboII	GAAGA	5 cut(s)	185, 263, 464, 518, 929
MluCI	AATT	6 cut(s)	100, 187, 216, 484, 511, 973
MlyI	GAGTC	1 cut(s)	248
MmeI	TCCRAC	1 cut(s)	529
MnlI	CCTC	9 cut(s)	66, 216, 223, 361, 547, 590, 601, 645, 739
MroXI	GAANNNNTTC	1 cut(s)	405
MseI	TTAA	3 cut(s)	435, 972, 1016
MspA1I	CMGCKG	1 cut(s)	293
MspI	CCGG	1 cut(s)	353
MspR9I	CCNGG	5 cut(s)	195, 354, 594, 873, 927
MvaI	CCWGG	4 cut(s)	195, 594, 873, 927
MwoI	GCNNNNNNNGC	7 cut(s)	155, 190, 383, 437, 675, 713, 956
NciI	CCSGG	1 cut(s)	354
NlaIII	CATG	1 cut(s)	414
NmuCI	GTSAC	1 cut(s)	413
NsbI	TGCGCA	2 cut(s)	113, 717
PaeR7I	CTCGAG	1 cut(s)	768
PdmI	GAANNNNTTC	1 cut(s)	405
PfeI	GAWTC	4 cut(s)	203, 687, 796, 1031
PflMI	CCANNNNNTGG	1 cut(s)	317
PkrI	GCNGC	8 cut(s)	292, 373, 376, 430, 671, 715, 775, 885
PleI	GAGTC	1 cut(s)	247
PpsI	GAGTC	1 cut(s)	247
PpuMI	RGGWCCY	1 cut(s)	923
PshBI	ATTAAT	1 cut(s)	972
Psp5II	RGGWCCY	1 cut(s)	923
Psp6I	CCWGG	4 cut(s)	193, 592, 871, 925
PspEI	GGTNACC	1 cut(s)	348
PspGI	CCWGG	4 cut(s)	193, 592, 871, 925
PspPI	GGNCC	1 cut(s)	923
PspPPI	RGGWCCY	1 cut(s)	923
PstI	CTGCAG	1 cut(s)	778
PstNI	CAGNNNCTG	2 cut(s)	293, 878
PvuII	CAGCTG	1 cut(s)	293
RsaI	GTAC	2 cut(s)	558, 933
RsaNI	GTAC	2 cut(s)	557, 932
SaqAI	TTAA	3 cut(s)	435, 972, 1016
SatI	GCNGC	8 cut(s)	291, 372, 375, 429, 670, 714, 774, 884
Sau96I	GGNCC	1 cut(s)	923
SchI	GAGTC	1 cut(s)	248
ScrFI	CCNGG	5 cut(s)	195, 354, 594, 873, 927
SfaNI	GCATC	2 cut(s)	510, 687
SfcI	CTRYAG	1 cut(s)	774
Sfr274I	CTCGAG	1 cut(s)	768
SinI	GGWCC	1 cut(s)	923
SlaI	CTCGAG	1 cut(s)	768
SmlI	CTYRAG	1 cut(s)	768
SmoI	CTYRAG	1 cut(s)	768
Sse9I	AATT	6 cut(s)	100, 187, 216, 484, 511, 973
SsiI	CCGC	2 cut(s)	207, 883
SspI	AATATT	1 cut(s)	832
SspMI	CTAG	2 cut(s)	566, 914
StyD4I	CCNGG	5 cut(s)	193, 352, 592, 871, 925
TaaI	ACNGT	3 cut(s)	406, 450, 509
TaiI	ACGT	2 cut(s)	622, 1012
TaqI	TCGA	1 cut(s)	769
TasI	AATT	6 cut(s)	100, 187, 216, 484, 511, 973
TatI	WGTACW	1 cut(s)	931
TauI	GCSGC	1 cut(s)	886
TfiI	GAWTC	4 cut(s)	203, 687, 796, 1031
Tru1I	TTAA	3 cut(s)	435, 972, 1016
Tru9I	TTAA	3 cut(s)	435, 972, 1016
TscAI	CASTG	2 cut(s)	709, 957
TseFI	GTSAC	1 cut(s)	413
TseI	GCWGC	7 cut(s)	290, 371, 374, 428, 669, 713, 773
Tsp45I	GTSAC	1 cut(s)	413
TspDTI	ATGAA	2 cut(s)	278, 1053
TspRI	CASTG	2 cut(s)	709, 957
Van91I	CCANNNNNTGG	1 cut(s)	317
VpaK11BI	GGWCC	1 cut(s)	923
VspI	ATTAAT	1 cut(s)	972
XapI	RAATTY	3 cut(s)	100, 187, 484
XbaI	TCTAGA	1 cut(s)	913
XhoI	CTCGAG	1 cut(s)	768
XmnI	GAANNNNTTC	1 cut(s)	405
XspI	CTAG	2 cut(s)	566, 914

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