Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5A

Orthogroup ID

OG0008762

Physical Location & Seq

Genomic Coordinates Forward (+)

69201578 .. 69207280

Gene Structure 5703 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5AG399300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 843 bp

ATGGTTGAATATCGAATTACATTTCAGGGTGTTCAAGGAGCATACAGTGAGTCAGCTGCTCAAAAGGCATACCCAAATTGCGAAGCAGTGCCTTGCGAACAATTTGATACTGTATTTGAGGCTGTTGAACGGTGGCTTGTGGACAGAGCAGTTTTACCATTTGAGAATTCATTAGGTGGTAGCATCCACAGAAATTATGACCTTATACTCCGGCATAGATTGCATATAGTAGGGGAAGTGAAACTTGCAGTTCGACATTGCTTACTAGCTAACCATGGTCTTGAAATTCAAGACCTAAAAAGGGTTCTCAGCCATCCACAGGCTCTTGCTCAGTGTGAGCACACATTAACCAGGTTTGGATTAGTCAGAGAAGCAGTGGATGATACTGCTGGTGCAGCAAAGCATGTTGCATTCCACAAACTGAAAGATTCGGGAGCAGTGGCCAGCTCTGCTGCTGCAGGGATATACGGTCTGAAGATACTTGCAGAGGATATTCAGGATGATAGTGATAATGTTACTCGATTTTTAGTCCTCGCAAGAGAACCTATCATTCCTGGCACAGATAGGCCATTCAAGACGAGTATAGTTTTCTCTCTAGAGGAAGGCCCGGGAGTCCTTTTTAAGGCACTTGCTGTTTTTGCATTGCGTCAGATCAATCTTACAAAGATTGAGAGCCGTCCCTTGCGGAAGCAGCCCCTGCGAGCATCTGATGATAATAATGGTGGAATTCCAAAACCAAAATACTTTGACTATCTTTTCTATGTGGATTTTGAAACATCGATGGCTGATCATAATGCACAGAATGCCCTTAGGCATCTCAGGGTTTGTATCTTTCTAAAATAA

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

280

Amino Acids

31.29

Weight (kDa)

6.83

Isoelectric Point (pI)

35.28

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PDT	PF00800	6 - 181	1.1e-59	Prephenate dehydratase

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: OG0008762)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G07630 AT3G07630 AT3G07630
fragaria_vesca	FvH4_3g33680 FvH4_3g33680 FvH4_3g33680
malus_domestica	MD03G1109900.v1.1 MD11G1123300.v1.1
prunus_persica	Prupe.6G092500_v2.0.a1 Prupe.6G092500_v2.0.a1 Prupe.6G092500_v2.0.a1
pyrus_communis	pycom11g10410
rosa_chinensis	RchiOBHm_Chr5g0061191
rosa_laevigata	RLG00000003542 RLG00000035438
rosa_multiflora	Rmu_sc0001366.1_g000019
rosa_roxburghii	Rroxscaffold_1G00019520
rosa_rugosa	Rorug05G0338500
rosa_samantha	Rh5AG399300 Rh5BG412500 Rh5CG437200 Rh5DG426800
rosa_wichuraiana	Rw5G037670

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AciI	CCGC	1 cut(s)	685
AcoI	YGGCCR	1 cut(s)	441
AcsI	RAATTY	3 cut(s)	166, 285, 726
AcuI	CTGAAG	1 cut(s)	494
AfiI	CCNNNNNNNGG	3 cut(s)	301, 319, 622
AgsI	TTSAA	7 cut(s)	8, 35, 128, 284, 290, 574, 773
AjnI	CCWGG	2 cut(s)	350, 553
AluBI	AGCT	3 cut(s)	56, 269, 447
AluI	AGCT	3 cut(s)	56, 269, 447
Alw21I	GWGCWC	1 cut(s)	342
AlwNI	CAGNNNCTG	1 cut(s)	697
Ama87I	CYCGRG	1 cut(s)	607
AoxI	GGCC	3 cut(s)	441, 566, 604
ApeKI	GCWGC	5 cut(s)	56, 395, 452, 455, 691
ApoI	RAATTY	3 cut(s)	166, 285, 726
AspS9I	GGNCC	1 cut(s)	605
AsuC2I	CCSGG	2 cut(s)	608, 609
AvaI	CYCGRG	1 cut(s)	607
AxyI	CCTNAGG	1 cut(s)	809
BalI	TGGCCA	1 cut(s)	443
Bbv12I	GWGCWC	1 cut(s)	342
BbvI	GCAGC	5 cut(s)	43, 407, 439, 442, 703
BccI	CCATC	2 cut(s)	321, 775
BceAI	ACGGC	1 cut(s)	660
BciT130I	CCWGG	2 cut(s)	352, 555
BclI	TGATCA	1 cut(s)	787
BcnI	CCSGG	2 cut(s)	608, 609
BfaI	CTAG	2 cut(s)	266, 596
BfmI	CTRYAG	1 cut(s)	456
BisI	GCNGC	5 cut(s)	57, 396, 453, 456, 692
BlsI	GCNGC	5 cut(s)	58, 397, 454, 457, 693
Bme1390I	CCNGG	4 cut(s)	352, 555, 608, 609
BmeT110I	CYCGRG	1 cut(s)	607
BmgT120I	GGNCC	1 cut(s)	605
BmrFI	CCNGG	4 cut(s)	352, 555, 608, 609
BmsI	GCATC	3 cut(s)	192, 713, 823
BpuMI	CCSGG	2 cut(s)	608, 609
Bsa29I	ATCGAT	1 cut(s)	779
BsaJI	CCNNGG	2 cut(s)	274, 607
Bsc4I	CCNNNNNNNGG	3 cut(s)	301, 319, 622
Bse21I	CCTNAGG	1 cut(s)	809
Bse3DI	GCAATG	2 cut(s)	256, 641
BseBI	CCWGG	2 cut(s)	352, 555
BseCI	ATCGAT	1 cut(s)	779
BseDI	CCNNGG	2 cut(s)	274, 607
BseGI	GGATG	4 cut(s)	183, 313, 385, 505
BseLI	CCNNNNNNNGG	3 cut(s)	301, 319, 622
BseMI	GCAATG	2 cut(s)	256, 641
BseMII	CTCAG	3 cut(s)	322, 344, 832
BseXI	GCAGC	5 cut(s)	43, 407, 439, 442, 703
BsgI	GTGCAG	1 cut(s)	414
BshFI	GGCC	3 cut(s)	443, 568, 606
BshVI	ATCGAT	1 cut(s)	779
BsiHKAI	GWGCWC	1 cut(s)	342
BsiHKCI	CYCGRG	1 cut(s)	607
BsiSI	CCGG	2 cut(s)	211, 608
BslFI	GGGAC	1 cut(s)	663
BslI	CCNNNNNNNGG	3 cut(s)	301, 319, 622
BsmFI	GGGAC	1 cut(s)	663
BsmI	GAATGC	2 cut(s)	410, 808
BsnI	GGCC	3 cut(s)	443, 568, 606
BsoBI	CYCGRG	1 cut(s)	607
Bsp1286I	GDGCHC	1 cut(s)	342
Bsp143I	GATC	2 cut(s)	651, 787
Bsp19I	CCATGG	1 cut(s)	274
BspACI	CCGC	1 cut(s)	685
BspANI	GGCC	3 cut(s)	443, 568, 606
BspCNI	CTCAG	3 cut(s)	321, 343, 831
BspDI	ATCGAT	1 cut(s)	779
BspMAI	CTGCAG	1 cut(s)	460
BsrDI	GCAATG	2 cut(s)	256, 641
BssECI	CCNNGG	2 cut(s)	274, 607
BssMI	GATC	2 cut(s)	651, 787
BssT1I	CCWWGG	1 cut(s)	274
Bst2UI	CCWGG	2 cut(s)	352, 555
Bst4CI	ACNGT	4 cut(s)	47, 112, 132, 470
BstAPI	GCANNNNNTGC	3 cut(s)	220, 697, 803
BstC8I	GCNNGC	2 cut(s)	445, 702
BstDEI	CTNAG	4 cut(s)	308, 330, 809, 818
BstDSI	CCRYGG	1 cut(s)	274
BstENI	CCTNNNNNAGG	1 cut(s)	620
BstF5I	GGATG	4 cut(s)	183, 313, 385, 505
BstKTI	GATC	2 cut(s)	654, 790
BstMBI	GATC	2 cut(s)	651, 787
BstMWI	GCNNNNNNNGC	8 cut(s)	65, 220, 395, 449, 638, 691, 697, 803
BstNI	CCWGG	2 cut(s)	352, 555
BstNSI	RCATGY	1 cut(s)	407
BstSCI	CCNGG	4 cut(s)	350, 553, 606, 607
BstSFI	CTRYAG	1 cut(s)	456
BstV1I	GCAGC	5 cut(s)	43, 407, 439, 442, 703
Bsu15I	ATCGAT	1 cut(s)	779
Bsu36I	CCTNAGG	1 cut(s)	809
BsuRI	GGCC	3 cut(s)	443, 568, 606
BsuTUI	ATCGAT	1 cut(s)	779
BtgI	CCRYGG	1 cut(s)	274
BtsCI	GGATG	4 cut(s)	183, 313, 385, 505
BtsI	GCAGTG	3 cut(s)	93, 381, 444
BtsIMutI	CAGTG	5 cut(s)	52, 93, 338, 381, 444
Cac8I	GCNNGC	2 cut(s)	445, 702
CaiI	CAGNNNCTG	1 cut(s)	697
Cfr13I	GGNCC	1 cut(s)	605
Cfr9I	CCCGGG	1 cut(s)	607
ClaI	ATCGAT	1 cut(s)	779
CseI	GACGC	1 cut(s)	635
CsiI	ACCWGGT	1 cut(s)	350
CviAII	CATG	2 cut(s)	275, 404
DdeI	CTNAG	4 cut(s)	308, 330, 809, 818
DpnI	GATC	2 cut(s)	653, 789
DpnII	GATC	2 cut(s)	651, 787
EaeI	YGGCCR	1 cut(s)	441
Eco130I	CCWWGG	1 cut(s)	274
Eco57I	CTGAAG	1 cut(s)	494
Eco81I	CCTNAGG	1 cut(s)	809
Eco88I	CYCGRG	1 cut(s)	607
EcoNI	CCTNNNNNAGG	1 cut(s)	620
EcoRI	GAATTC	2 cut(s)	166, 726
EcoRII	CCWGG	2 cut(s)	350, 553
EcoT14I	CCWWGG	1 cut(s)	274
ErhI	CCWWGG	1 cut(s)	274
FaeI	CATG	2 cut(s)	278, 407
FalI	AAGNNNNNCTT	2 cut(s)	228, 260
FaqI	GGGAC	1 cut(s)	663
FatI	CATG	2 cut(s)	274, 403
FbaI	TGATCA	1 cut(s)	787
Fnu4HI	GCNGC	5 cut(s)	57, 396, 453, 456, 692
FokI	GGATG	4 cut(s)	170, 300, 392, 512
Fsp4HI	GCNGC	5 cut(s)	57, 396, 453, 456, 692
FspBI	CTAG	2 cut(s)	266, 596
GluI	GCNGC	5 cut(s)	57, 396, 453, 456, 692
HaeIII	GGCC	3 cut(s)	443, 568, 606
HapII	CCGG	2 cut(s)	211, 608
HgaI	GACGC	1 cut(s)	635
Hin1II	CATG	2 cut(s)	278, 407
HinfI	GANTC	3 cut(s)	50, 428, 612
HpaII	CCGG	2 cut(s)	211, 608
Hpy166II	GTNNAC	1 cut(s)	142
Hpy188I	TCNGA	4 cut(s)	368, 474, 651, 709
Hpy188III	TCNNGA	6 cut(s)	281, 290, 432, 497, 574, 596
Hpy8I	GTNNAC	1 cut(s)	142
HpyAV	CCTTC	1 cut(s)	596
HpyCH4III	ACNGT	4 cut(s)	47, 112, 132, 470
HpyCH4V	TGCA	8 cut(s)	223, 248, 395, 410, 458, 485, 641, 797
HpyF10VI	GCNNNNNNNGC	8 cut(s)	65, 220, 395, 449, 638, 691, 697, 803
HpyF3I	CTNAG	4 cut(s)	308, 330, 809, 818
Hsp92II	CATG	2 cut(s)	278, 407
Ksp22I	TGATCA	1 cut(s)	787
Kzo9I	GATC	2 cut(s)	651, 787
LmnI	GCTCC	2 cut(s)	38, 434
Lsp1109I	GCAGC	5 cut(s)	43, 407, 439, 442, 703
LweI	GCATC	3 cut(s)	192, 713, 823
MabI	ACCWGGT	1 cut(s)	350
MaeI	CTAG	2 cut(s)	266, 596
MaeIII	GTNAC	1 cut(s)	514
MalI	GATC	2 cut(s)	653, 789
MboI	GATC	2 cut(s)	651, 787
MboII	GAAGA	1 cut(s)	487
MhlI	GDGCHC	1 cut(s)	342
MlsI	TGGCCA	1 cut(s)	443
MluCI	AATT	7 cut(s)	15, 76, 101, 166, 193, 285, 726
MluNI	TGGCCA	1 cut(s)	443
MlyI	GAGTC	2 cut(s)	59, 621
MnlI	CCTC	4 cut(s)	112, 481, 542, 592
Mox20I	TGGCCA	1 cut(s)	443
MscI	TGGCCA	1 cut(s)	443
MseI	TTAA	2 cut(s)	347, 621
Msp20I	TGGCCA	1 cut(s)	443
MspA1I	CMGCKG	1 cut(s)	56
MspI	CCGG	2 cut(s)	211, 608
MspR9I	CCNGG	4 cut(s)	352, 555, 608, 609
Mva1269I	GAATGC	2 cut(s)	410, 808
MvaI	CCWGG	2 cut(s)	352, 555
MwoI	GCNNNNNNNGC	8 cut(s)	65, 220, 395, 449, 638, 691, 697, 803
NciI	CCSGG	2 cut(s)	608, 609
NcoI	CCATGG	1 cut(s)	274
NdeII	GATC	2 cut(s)	651, 787
NlaIII	CATG	2 cut(s)	278, 407
NspI	RCATGY	1 cut(s)	407
PctI	GAATGC	2 cut(s)	410, 808
PfeI	GAWTC	1 cut(s)	428
PkrI	GCNGC	5 cut(s)	58, 397, 454, 457, 693
PleI	GAGTC	2 cut(s)	58, 620
PpsI	GAGTC	2 cut(s)	58, 620
Psp6I	CCWGG	2 cut(s)	350, 553
PspGI	CCWGG	2 cut(s)	350, 553
PspPI	GGNCC	1 cut(s)	605
PstI	CTGCAG	1 cut(s)	460
PstNI	CAGNNNCTG	1 cut(s)	697
PvuII	CAGCTG	1 cut(s)	56
SaqAI	TTAA	2 cut(s)	347, 621
SatI	GCNGC	5 cut(s)	57, 396, 453, 456, 692
Sau3AI	GATC	2 cut(s)	651, 787
Sau96I	GGNCC	1 cut(s)	605
SchI	GAGTC	2 cut(s)	59, 621
ScrFI	CCNGG	4 cut(s)	352, 555, 608, 609
SduI	GDGCHC	1 cut(s)	342
SetI	ASST	8 cut(s)	58, 178, 204, 271, 297, 356, 449, 547
SexAI	ACCWGGT	1 cut(s)	350
SfaNI	GCATC	3 cut(s)	192, 713, 823
SfcI	CTRYAG	1 cut(s)	456
SmaI	CCCGGG	1 cut(s)	609
Sse9I	AATT	7 cut(s)	15, 76, 101, 166, 193, 285, 726
SsiI	CCGC	1 cut(s)	685
SspMI	CTAG	2 cut(s)	266, 596
StyD4I	CCNGG	4 cut(s)	350, 553, 606, 607
StyI	CCWWGG	1 cut(s)	274
TaaI	ACNGT	4 cut(s)	47, 112, 132, 470
TaqI	TCGA	4 cut(s)	13, 253, 520, 779
TasI	AATT	7 cut(s)	15, 76, 101, 166, 193, 285, 726
TfiI	GAWTC	1 cut(s)	428
Tru1I	TTAA	2 cut(s)	347, 621
Tru9I	TTAA	2 cut(s)	347, 621
TscAI	CASTG	5 cut(s)	52, 93, 338, 381, 444
TseI	GCWGC	5 cut(s)	56, 395, 452, 455, 691
TspDTI	ATGAA	1 cut(s)	159
TspMI	CCCGGG	1 cut(s)	607
TspRI	CASTG	5 cut(s)	52, 93, 338, 381, 444
XagI	CCTNNNNNAGG	1 cut(s)	620
XapI	RAATTY	3 cut(s)	166, 285, 726
XbaI	TCTAGA	1 cut(s)	595
XceI	RCATGY	1 cut(s)	407
XmaI	CCCGGG	1 cut(s)	607
XspI	CTAG	2 cut(s)	266, 596

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