Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6D

Orthogroup ID

OG0006471

Physical Location & Seq

Genomic Coordinates Reverse (-)

46046976 .. 46049040

Gene Structure 2065 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6DG267800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 741 bp

ATGGCCTTCGTCATTTCAGCCGTCAAGCTATGCGAGCTCTCTCAGTACGTCAGACTGCTGGTGGTAGGCGTTGGTGGGTTGGGTTGTGAATTGCTCAAGGACTTGGCTTTGTCTGGCTTCCAAGAAATCGAAGTCATCGACATGGATCTCCCTGAGGTCTCTAACCTCAATCGACAGTTTCTCTTCAGGCTGAAGTTTTACGAACCCAAAATTGTTGGAGTATCGGGCTCGTGGTCAACTGGTCTTGCTCTTGGAGTCTTAGTTCAATTCAGAAATCTTCAAGCTCGGCTGAAGAAGCCTCAAAGCCCATTGCTTTTCGATTCTCGGGCTCAAAAGTCAACCCTTTCATTCAAGAAATTTACTCCAATGGCTTCTCTGACCACCACCAACACCAGCGTTGGCCTCTCCAAAACTTTCATCAAACTGAAGGAGCAAGGCAAGGTTTCATTAATCCCTTACACTACTGTCGGTGATCCTGATCTATCAGTCACCGCAGAAGCATTGAAGGTCCTCGATTCTTGTGGATCAGACATAATTGAATTAGGCGTGCCATACTCTGATCCATTAGCAGCTGGACCAGTTATACAGGCTGCAGCCACTCGTGCCTTGGCAAGATGGACCAATTTGAATTCAATCCTGGCAATGTTGAAGGCGGTACCTTTGCATGCAATCTTTTATTATCTGACCAATCTCTTTGATCTTGCTCAGAACCAGCTCACTGGTGAGATTACCTTGGAATGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000162 GO:0003674 GO:0003824 GO:0004834 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0006082 GO:0006520 GO:0006568 GO:0006576 GO:0006586 GO:0006725 GO:0006807 GO:0006950 GO:0006952 GO:0008150 GO:0008152 GO:0008652 GO:0009058 GO:0009072 GO:0009073 GO:0009308 GO:0009309 GO:0009507 GO:0009532 GO:0009536 GO:0009570 GO:0009605 GO:0009606 GO:0009607 GO:0009617 GO:0009628 GO:0009629 GO:0009630 GO:0009719 GO:0009725 GO:0009735 GO:0009987 GO:0010033 GO:0016043 GO:0016053 GO:0016829 GO:0016835 GO:0016836 GO:0018130 GO:0019438 GO:0019752 GO:0033036 GO:0033037 GO:0033554 GO:0034641 GO:0042221 GO:0042401 GO:0042430 GO:0042435 GO:0042545 GO:0042742 GO:0043207 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043436 GO:0044106 GO:0044237 GO:0044238 GO:0044249 GO:0044271 GO:0044281 GO:0044283 GO:0044422 GO:0044424 GO:0044434 GO:0044435 GO:0044444 GO:0044446 GO:0044464 GO:0045229 GO:0046219 GO:0046394 GO:0046483 GO:0050896 GO:0051179 GO:0051641 GO:0051704 GO:0051707 GO:0051716 GO:0052386 GO:0052482 GO:0052542 GO:0052543 GO:0052544 GO:0052545 GO:0070727 GO:0071554 GO:0071555 GO:0071704 GO:0071840 GO:0098542 GO:1901360 GO:1901362 GO:1901564 GO:1901566 GO:1901576 GO:1901605 GO:1901607

KEGG Pathways

Metabolic & Signaling

ko00260 ko00400 ko00402 ko01100 ko01110 ko01130 ko01230 map00260 map00400 map00402 map01100 map01110 map01130 map01230

Pfam Domains

Protein Families

Trp_syntA

Protein Analysis

246

Amino Acids

26.8

Weight (kDa)

8.37

Isoelectric Point (pI)

27.65

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
ThiF	PF00899	17 - 65	1.7e-17	ThiF family
Trp_syntA	PF00290	139 - 219	1.1e-25	Tryptophan synthase alpha chain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0006471)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G54640
fragaria_vesca	FvH4_2g22570
malus_domestica	MD05G1206300.v1.1 MD10G1193300.v1.1
prunus_persica	Prupe.8G232700_v2.0.a1
pyrus_communis	pycom05g19230 pycom10g16710
rosa_chinensis	RchiOBHm_Chr3g0488871 RchiOBHm_Chr6g0284041 RchiOBHm_Chr6g0289611
rosa_laevigata	RLG00000012288 RLG00000026432
rosa_multiflora	Rmu_co8332575.1_g000001 Rmu_sc0000607.1_g000042 Rmu_sc0001527.1_g000067 Rmu_sc0001850.1_g000026 Rmu_sc0005376.1_g000002
rosa_roxburghii	Rroxscaffold_1G00026080 Rroxscaffold_7G00177810
rosa_rugosa	Rorug06G0205100
rosa_samantha	Rh5AG506400 Rh6BG323300 Rh6CG329700 Rh6DG267800 Rh6DG315100
rosa_wichuraiana	Rw6G027310

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc65I	GGTACC	1 cut(s)	655
AccB1I	GGYRCC	1 cut(s)	655
AciI	CCGC	2 cut(s)	492, 653
AclWI	GGATC	4 cut(s)	153, 467, 532, 554
AcsI	RAATTY	2 cut(s)	356, 628
AcuI	CTGAAG	4 cut(s)	169, 212, 311, 446
AfaI	GTAC	2 cut(s)	47, 657
AgsI	TTSAA	8 cut(s)	266, 281, 352, 505, 539, 628, 633, 649
AjnI	CCWGG	1 cut(s)	636
AloI	GAACNNNNNNTCC	2 cut(s)	246, 278
AluBI	AGCT	5 cut(s)	28, 37, 284, 572, 715
AluI	AGCT	5 cut(s)	28, 37, 284, 572, 715
Alw21I	GWGCWC	1 cut(s)	39
Alw26I	GTCTC	1 cut(s)	163
AlwI	GGATC	4 cut(s)	153, 467, 532, 554
Ama87I	CYCGRG	1 cut(s)	324
AoxI	GGCC	2 cut(s)	3, 400
ApeKI	GCWGC	3 cut(s)	569, 590, 593
ApoI	RAATTY	2 cut(s)	356, 628
AseI	ATTAAT	1 cut(s)	449
Asp718I	GGTACC	1 cut(s)	655
AspS9I	GGNCC	3 cut(s)	508, 575, 618
AsuHPI	GGTGA	3 cut(s)	481, 482, 734
AvaI	CYCGRG	1 cut(s)	324
AvaII	GGWCC	3 cut(s)	508, 575, 618
AxyI	CCTNAGG	1 cut(s)	153
BanI	GGYRCC	1 cut(s)	655
BanII	GRGCYC	3 cut(s)	39, 230, 331
BauI	CACGAG	2 cut(s)	229, 600
Bbv12I	GWGCWC	1 cut(s)	39
BbvI	GCAGC	3 cut(s)	577, 581, 605
BccI	CCATC	1 cut(s)	609
BceAI	ACGGC	1 cut(s)	5
BciT130I	CCWGG	1 cut(s)	638
BcoDI	GTCTC	1 cut(s)	163
BfmI	CTRYAG	1 cut(s)	591
BisI	GCNGC	3 cut(s)	570, 591, 594
BlsI	GCNGC	3 cut(s)	571, 592, 595
Bme1390I	CCNGG	1 cut(s)	638
Bme18I	GGWCC	3 cut(s)	508, 575, 618
BmeT110I	CYCGRG	1 cut(s)	324
BmgT120I	GGNCC	3 cut(s)	508, 575, 618
BmiI	GGNNCC	1 cut(s)	657
BmrFI	CCNGG	1 cut(s)	638
BpuEI	CTTGAG	1 cut(s)	80
BsaBI	GATNNNNATC	1 cut(s)	477
BsaI	GGTCTC	1 cut(s)	163
BsaJI	CCNNGG	2 cut(s)	606, 732
BsaXI	ACNNNNNCTCC	2 cut(s)	246, 276
Bse1I	ACTGG	3 cut(s)	244, 578, 724
Bse21I	CCTNAGG	1 cut(s)	153
Bse3DI	GCAATG	2 cut(s)	308, 648
Bse8I	GATNNNNATC	1 cut(s)	477
BseBI	CCWGG	1 cut(s)	638
BseDI	CCNNGG	2 cut(s)	606, 732
BseJI	GATNNNNATC	1 cut(s)	477
BseMI	GCAATG	2 cut(s)	308, 648
BseMII	CTCAG	3 cut(s)	56, 144, 719
BseNI	ACTGG	3 cut(s)	244, 578, 724
BseXI	GCAGC	3 cut(s)	577, 581, 605
BshFI	GGCC	2 cut(s)	5, 402
BshNI	GGYRCC	1 cut(s)	655
BsiHKAI	GWGCWC	1 cut(s)	39
BsiHKCI	CYCGRG	1 cut(s)	324
BsmAI	GTCTC	1 cut(s)	163
BsnI	GGCC	2 cut(s)	5, 402
Bso31I	GGTCTC	1 cut(s)	163
BsoBI	CYCGRG	1 cut(s)	324
Bsp1286I	GDGCHC	3 cut(s)	39, 230, 331
Bsp143I	GATC	6 cut(s)	145, 472, 478, 524, 559, 697
BspACI	CCGC	2 cut(s)	492, 653
BspANI	GGCC	2 cut(s)	5, 402
BspCNI	CTCAG	3 cut(s)	55, 145, 718
BspLI	GGNNCC	1 cut(s)	657
BspMAI	CTGCAG	1 cut(s)	595
BspPI	GGATC	4 cut(s)	153, 467, 532, 554
BspT107I	GGYRCC	1 cut(s)	655
BspTNI	GGTCTC	1 cut(s)	163
BsrDI	GCAATG	2 cut(s)	308, 648
BsrI	ACTGG	3 cut(s)	244, 578, 724
BssECI	CCNNGG	2 cut(s)	606, 732
BssMI	GATC	6 cut(s)	145, 472, 478, 524, 559, 697
BssSI	CACGAG	2 cut(s)	229, 600
BssT1I	CCWWGG	2 cut(s)	606, 732
Bst2BI	CACGAG	2 cut(s)	229, 600
Bst2UI	CCWGG	1 cut(s)	638
Bst4CI	ACNGT	2 cut(s)	177, 466
Bst6I	CTCTTC	1 cut(s)	188
BstC8I	GCNNGC	3 cut(s)	35, 548, 666
BstDEI	CTNAG	4 cut(s)	42, 153, 259, 705
BstKTI	GATC	6 cut(s)	148, 475, 481, 527, 562, 700
BstMAI	GTCTC	1 cut(s)	163
BstMBI	GATC	6 cut(s)	145, 472, 478, 524, 559, 697
BstMWI	GCNNNNNNNGC	3 cut(s)	34, 295, 602
BstNI	CCWGG	1 cut(s)	638
BstNSI	RCATGY	1 cut(s)	668
BstSCI	CCNGG	1 cut(s)	636
BstSFI	CTRYAG	1 cut(s)	591
BstV1I	GCAGC	3 cut(s)	577, 581, 605
BstX2I	RGATCY	1 cut(s)	145
BstXI	CCANNNNNNTGG	1 cut(s)	719
BstYI	RGATCY	1 cut(s)	145
Bsu36I	CCTNAGG	1 cut(s)	153
BsuRI	GGCC	2 cut(s)	5, 402
BtsIMutI	CAGTG	1 cut(s)	717
Cac8I	GCNNGC	3 cut(s)	35, 548, 666
Cfr13I	GGNCC	3 cut(s)	508, 575, 618
Csp6I	GTAC	2 cut(s)	46, 656
CviAII	CATG	2 cut(s)	142, 665
CviQI	GTAC	2 cut(s)	46, 656
DdeI	CTNAG	4 cut(s)	42, 153, 259, 705
DpnI	GATC	6 cut(s)	147, 474, 480, 526, 561, 699
DpnII	GATC	6 cut(s)	145, 472, 478, 524, 559, 697
Eam1104I	CTCTTC	1 cut(s)	188
EarI	CTCTTC	1 cut(s)	188
Ecl136II	GAGCTC	1 cut(s)	37
Eco130I	CCWWGG	2 cut(s)	606, 732
Eco24I	GRGCYC	3 cut(s)	39, 230, 331
Eco31I	GGTCTC	1 cut(s)	163
Eco47I	GGWCC	3 cut(s)	508, 575, 618
Eco53kI	GAGCTC	1 cut(s)	37
Eco57I	CTGAAG	4 cut(s)	169, 212, 311, 446
Eco81I	CCTNAGG	1 cut(s)	153
Eco88I	CYCGRG	1 cut(s)	324
EcoICRI	GAGCTC	1 cut(s)	37
EcoO109I	RGGNCCY	1 cut(s)	508
EcoRI	GAATTC	1 cut(s)	628
EcoRII	CCWGG	1 cut(s)	636
EcoT14I	CCWWGG	2 cut(s)	606, 732
EcoT38I	GRGCYC	3 cut(s)	39, 230, 331
ErhI	CCWWGG	2 cut(s)	606, 732
FaeI	CATG	2 cut(s)	145, 668
FaiI	YATR	6 cut(s)	31, 143, 533, 553, 584, 666
FatI	CATG	2 cut(s)	141, 664
Fnu4HI	GCNGC	3 cut(s)	570, 591, 594
FriOI	GRGCYC	3 cut(s)	39, 230, 331
Fsp4HI	GCNGC	3 cut(s)	570, 591, 594
GluI	GCNGC	3 cut(s)	570, 591, 594
HaeIII	GGCC	2 cut(s)	5, 402
Hin1II	CATG	2 cut(s)	145, 668
HincII	GTYRAC	2 cut(s)	237, 339
HindII	GTYRAC	2 cut(s)	237, 339
HinfI	GANTC	3 cut(s)	255, 320, 515
HphI	GGTGA	3 cut(s)	481, 482, 734
Hpy166II	GTNNAC	2 cut(s)	237, 339
Hpy188I	TCNGA	7 cut(s)	53, 272, 378, 529, 559, 684, 708
Hpy188III	TCNNGA	2 cut(s)	352, 476
Hpy8I	GTNNAC	2 cut(s)	237, 339
HpyAV	CCTTC	4 cut(s)	16, 421, 499, 643
HpyCH4III	ACNGT	2 cut(s)	177, 466
HpyCH4IV	ACGT	1 cut(s)	48
HpyCH4V	TGCA	3 cut(s)	593, 664, 668
HpyF10VI	GCNNNNNNNGC	3 cut(s)	34, 295, 602
HpyF3I	CTNAG	4 cut(s)	42, 153, 259, 705
HpySE526I	ACGT	1 cut(s)	48
Hsp92II	CATG	2 cut(s)	145, 668
KpnI	GGTACC	1 cut(s)	659
Kzo9I	GATC	6 cut(s)	145, 472, 478, 524, 559, 697
LmnI	GCTCC	1 cut(s)	430
Lsp1109I	GCAGC	3 cut(s)	577, 581, 605
MaeII	ACGT	1 cut(s)	48
MaeIII	GTNAC	1 cut(s)	487
MalI	GATC	6 cut(s)	147, 474, 480, 526, 561, 699
MboI	GATC	6 cut(s)	145, 472, 478, 524, 559, 697
MboII	GAAGA	3 cut(s)	175, 269, 304
MflI	RGATCY	1 cut(s)	145
MhlI	GDGCHC	3 cut(s)	39, 230, 331
MluCI	AATT	8 cut(s)	89, 210, 266, 356, 534, 539, 622, 628
MlyI	GAGTC	1 cut(s)	264
MmeI	TCCRAC	1 cut(s)	196
MnlI	CCTC	5 cut(s)	148, 176, 309, 413, 521
MseI	TTAA	1 cut(s)	449
MslI	CAYNNNNRTG	1 cut(s)	140
MspA1I	CMGCKG	1 cut(s)	572
MspR9I	CCNGG	1 cut(s)	638
MvaI	CCWGG	1 cut(s)	638
MwoI	GCNNNNNNNGC	3 cut(s)	34, 295, 602
NdeII	GATC	6 cut(s)	145, 472, 478, 524, 559, 697
NlaIII	CATG	2 cut(s)	145, 668
NlaIV	GGNNCC	1 cut(s)	657
NmeAIII	GCCGAG	1 cut(s)	265
NmuCI	GTSAC	1 cut(s)	487
NspI	RCATGY	1 cut(s)	668
PaeI	GCATGC	1 cut(s)	668
PcsI	WCGNNNNNNNCGW	1 cut(s)	135
PfeI	GAWTC	2 cut(s)	320, 515
PkrI	GCNGC	3 cut(s)	571, 592, 595
PleI	GAGTC	1 cut(s)	263
PpsI	GAGTC	1 cut(s)	263
PpuMI	RGGWCCY	1 cut(s)	508
PshBI	ATTAAT	1 cut(s)	449
Psp124BI	GAGCTC	1 cut(s)	39
Psp5II	RGGWCCY	1 cut(s)	508
Psp6I	CCWGG	1 cut(s)	636
PspGI	CCWGG	1 cut(s)	636
PspN4I	GGNNCC	1 cut(s)	657
PspPI	GGNCC	3 cut(s)	508, 575, 618
PspPPI	RGGWCCY	1 cut(s)	508
PstI	CTGCAG	1 cut(s)	595
PsuI	RGATCY	1 cut(s)	145
PvuII	CAGCTG	1 cut(s)	572
RsaI	GTAC	2 cut(s)	47, 657
RsaNI	GTAC	2 cut(s)	46, 656
RseI	CAYNNNNRTG	1 cut(s)	140
SacI	GAGCTC	1 cut(s)	39
SaqAI	TTAA	1 cut(s)	449
SatI	GCNGC	3 cut(s)	570, 591, 594
Sau3AI	GATC	6 cut(s)	145, 472, 478, 524, 559, 697
Sau96I	GGNCC	3 cut(s)	508, 575, 618
SchI	GAGTC	1 cut(s)	264
ScrFI	CCNGG	1 cut(s)	638
SduI	GDGCHC	3 cut(s)	39, 230, 331
SfcI	CTRYAG	1 cut(s)	591
SinI	GGWCC	3 cut(s)	508, 575, 618
SmiMI	CAYNNNNRTG	1 cut(s)	140
SmlI	CTYRAG	1 cut(s)	95
SmoI	CTYRAG	1 cut(s)	95
SphI	GCATGC	1 cut(s)	668
Sse9I	AATT	8 cut(s)	89, 210, 266, 356, 534, 539, 622, 628
SsiI	CCGC	2 cut(s)	492, 653
SstI	GAGCTC	1 cut(s)	39
StyD4I	CCNGG	1 cut(s)	636
StyI	CCWWGG	2 cut(s)	606, 732
TaaI	ACNGT	2 cut(s)	177, 466
TaiI	ACGT	1 cut(s)	51
TaqI	TCGA	5 cut(s)	129, 138, 172, 318, 513
TasI	AATT	8 cut(s)	89, 210, 266, 356, 534, 539, 622, 628
TfiI	GAWTC	2 cut(s)	320, 515
Tru1I	TTAA	1 cut(s)	449
Tru9I	TTAA	1 cut(s)	449
TscAI	CASTG	1 cut(s)	724
TseFI	GTSAC	1 cut(s)	487
TseI	GCWGC	3 cut(s)	569, 590, 593
Tsp45I	GTSAC	1 cut(s)	487
TspDTI	ATGAA	3 cut(s)	336, 406, 435
TspRI	CASTG	1 cut(s)	724
VpaK11BI	GGWCC	3 cut(s)	508, 575, 618
VspI	ATTAAT	1 cut(s)	449
XapI	RAATTY	2 cut(s)	356, 628
XceI	RCATGY	1 cut(s)	668
XcmI	CCANNNNNNNNNTGG	1 cut(s)	604

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