Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3B

Orthogroup ID

OG0015727

Physical Location & Seq

Genomic Coordinates Forward (+)

9571683 .. 9572522

Gene Structure 840 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3BG116100.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 549 bp

ATGTTAGAAGATGTTGTTCCCCAACTGTCGTGCCCTATCACTCTATTCTCCTACTATAACCCTATTATCAAGCATGGCATCGAAAACTTCATGTCCACCATTAGCCAAGCCGGCGTCCGTGGGCTTGTGGTTCCGGATGTCCCTTTTGAAAACACACAACGCTTGAGAAGTGAAGCCGCGAAGAACAACGTTGAGTTGGTGCTGCTAACCACACCCACTACTACAACATGTCGAATGAAAGACATTGTCCGAGCCTCGGAGGGTTTCGTGTACCTGGTGAGTGCGGTGGGGGTCACCGGGGCTCGTCCACGTGTGAACGAACAAGTTCCGAGTCTTTTGAGGGAGATTAAGGAGGCGACGAACAAGGCAGTGGCTGTTGGGTTCGGATTGTCGAAGCCTGAGCATGTGAAGCAGGTGGCCGAGTGGGGGGCAGATGGTGCTATTGTTGGTAGTGCCATTGTGAAGGTATTGGGTGAAGCTAGATCTCCATTGCAAGGGTTGAGAGACCTTGAAACTTTCGCCAAATCTTTCAAGGCTGCTCTCCTGTAA

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

182

Amino Acids

19.68

Weight (kDa)

8.58

Isoelectric Point (pI)

32.52

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Trp_syntA	PF00290	2 - 180	1.6e-57	Tryptophan synthase alpha chain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Orthologous Genes (Group: OG0015727)

Species	Orthologous Gene IDs
pyrus_communis	pycom17g24820
rosa_chinensis	RchiOBHm_Chr1g0378511 RchiOBHm_Chr4g0436471
rosa_multiflora	Rmu_sc0000579.1_g000008 Rmu_sc0007627.1_g000012 Rmu_sc0007627.1_g000013 Rmu_sc0008712.1_g000012
rosa_roxburghii	Rroxscaffold_1G00021740
rosa_samantha	Rh1AG026300 Rh1AG430600 Rh1BG388500 Rh1DG047400 Rh1DG419600 Rh3BG116100 Rh4DG351000 Rh6AG316700

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	1 cut(s)	403
Acc36I	ACCTGC	1 cut(s)	403
AccII	CGCG	1 cut(s)	179
AccIII	TCCGGA	1 cut(s)	133
AciI	CCGC	2 cut(s)	177, 284
AclI	AACGTT	1 cut(s)	189
AcoI	YGGCCR	1 cut(s)	417
AcvI	CACGTG	1 cut(s)	311
AcyI	GRCGYC	1 cut(s)	114
AfaI	GTAC	1 cut(s)	272
AfiI	CCNNNNNNNGG	3 cut(s)	256, 426, 494
AflIII	ACRYGT	2 cut(s)	227, 310
AgsI	TTSAA	3 cut(s)	149, 512, 532
AjnI	CCWGG	1 cut(s)	273
AluBI	AGCT	1 cut(s)	479
AluI	AGCT	1 cut(s)	479
Alw26I	GTCTC	1 cut(s)	498
AlwNI	CAGNNNCTG	1 cut(s)	374
Aor13HI	TCCGGA	1 cut(s)	133
AoxI	GGCC	1 cut(s)	417
ApeKI	GCWGC	2 cut(s)	202, 536
Asp700I	GAANNNNTTC	1 cut(s)	324
AsuC2I	CCSGG	1 cut(s)	298
AsuHPI	GGTGA	3 cut(s)	286, 289, 485
BaeGI	GKGCMC	1 cut(s)	35
BanII	GRGCYC	1 cut(s)	304
BbrPI	CACGTG	1 cut(s)	311
BbvI	GCAGC	2 cut(s)	189, 523
BccI	CCATC	1 cut(s)	428
BciT130I	CCWGG	1 cut(s)	275
BcnI	CCSGG	1 cut(s)	298
BcoDI	GTCTC	1 cut(s)	498
BfaI	CTAG	1 cut(s)	480
BfuAI	ACCTGC	1 cut(s)	403
BglI	GCCNNNNNGGC	1 cut(s)	111
BglII	AGATCT	1 cut(s)	482
BisI	GCNGC	3 cut(s)	177, 203, 537
BlsI	GCNGC	3 cut(s)	178, 204, 538
Bme1390I	CCNGG	2 cut(s)	275, 298
BmiI	GGNNCC	1 cut(s)	132
BmrFI	CCNGG	2 cut(s)	275, 298
BmsI	GCATC	1 cut(s)	87
Bpu10I	CCTNAGC	1 cut(s)	399
BpuEI	CTTGAG	1 cut(s)	184
BpuMI	CCSGG	1 cut(s)	298
BsaAI	YACGTR	1 cut(s)	311
BsaHI	GRCGYC	1 cut(s)	114
BsaI	GGTCTC	1 cut(s)	498
BsaJI	CCNNGG	3 cut(s)	118, 255, 297
BsaWI	WCCGGW	1 cut(s)	133
Bsc4I	CCNNNNNNNGG	3 cut(s)	256, 426, 494
Bse118I	RCCGGY	1 cut(s)	110
Bse3DI	GCAATG	1 cut(s)	488
BseAI	TCCGGA	1 cut(s)	133
BseBI	CCWGG	1 cut(s)	275
BseDI	CCNNGG	3 cut(s)	118, 255, 297
BseGI	GGATG	1 cut(s)	142
BseLI	CCNNNNNNNGG	3 cut(s)	256, 426, 494
BseMI	GCAATG	1 cut(s)	488
BseMII	CTCAG	1 cut(s)	390
BseSI	GKGCMC	1 cut(s)	35
BseXI	GCAGC	2 cut(s)	189, 523
Bsh1236I	CGCG	1 cut(s)	179
BshFI	GGCC	1 cut(s)	419
BsiSI	CCGG	3 cut(s)	111, 134, 297
BslFI	GGGAC	1 cut(s)	125
BslI	CCNNNNNNNGG	3 cut(s)	256, 426, 494
BsmAI	GTCTC	1 cut(s)	498
BsmFI	GGGAC	1 cut(s)	125
BsnI	GGCC	1 cut(s)	419
Bso31I	GGTCTC	1 cut(s)	498
Bsp1286I	GDGCHC	2 cut(s)	35, 304
Bsp13I	TCCGGA	1 cut(s)	133
Bsp143I	GATC	1 cut(s)	482
BspACI	CCGC	2 cut(s)	177, 284
BspANI	GGCC	1 cut(s)	419
BspCNI	CTCAG	1 cut(s)	391
BspEI	TCCGGA	1 cut(s)	133
BspFNI	CGCG	1 cut(s)	179
BspLI	GGNNCC	1 cut(s)	132
BspMI	ACCTGC	1 cut(s)	403
BspTNI	GGTCTC	1 cut(s)	498
BsrDI	GCAATG	1 cut(s)	488
BsrFI	RCCGGY	1 cut(s)	110
BssAI	RCCGGY	1 cut(s)	110
BssECI	CCNNGG	3 cut(s)	118, 255, 297
BssMI	GATC	1 cut(s)	482
BssNI	GRCGYC	1 cut(s)	114
Bst2UI	CCWGG	1 cut(s)	275
Bst4CI	ACNGT	1 cut(s)	27
BstACI	GRCGYC	1 cut(s)	114
BstAPI	GCANNNNNTGC	1 cut(s)	437
BstBAI	YACGTR	1 cut(s)	311
BstC8I	GCNNGC	1 cut(s)	112
BstDEI	CTNAG	1 cut(s)	399
BstDSI	CCRYGG	1 cut(s)	118
BstEII	GGTNACC	1 cut(s)	292
BstF5I	GGATG	1 cut(s)	142
BstFNI	CGCG	1 cut(s)	179
BstKTI	GATC	1 cut(s)	485
BstMAI	GTCTC	1 cut(s)	498
BstMBI	GATC	1 cut(s)	482
BstMWI	GCNNNNNNNGC	3 cut(s)	111, 409, 437
BstNI	CCWGG	1 cut(s)	275
BstNSI	RCATGY	2 cut(s)	231, 407
BstPI	GGTNACC	1 cut(s)	292
BstSCI	CCNGG	2 cut(s)	273, 296
BstSLI	GKGCMC	1 cut(s)	35
BstUI	CGCG	1 cut(s)	179
BstV1I	GCAGC	2 cut(s)	189, 523
BstX2I	RGATCY	1 cut(s)	482
BstYI	RGATCY	1 cut(s)	482
BsuRI	GGCC	1 cut(s)	419
BtgI	CCRYGG	1 cut(s)	118
BtsCI	GGATG	1 cut(s)	142
BtsI	GCAGTG	1 cut(s)	375
BtsIMutI	CAGTG	1 cut(s)	375
BveI	ACCTGC	1 cut(s)	403
Cac8I	GCNNGC	1 cut(s)	112
CaiI	CAGNNNCTG	1 cut(s)	374
Cfr10I	RCCGGY	1 cut(s)	110
CseI	GACGC	1 cut(s)	103
CsiI	ACCWGGT	1 cut(s)	273
Csp6I	GTAC	1 cut(s)	271
CviAII	CATG	4 cut(s)	74, 91, 228, 404
CviQI	GTAC	1 cut(s)	271
DdeI	CTNAG	1 cut(s)	399
DpnI	GATC	1 cut(s)	484
DpnII	GATC	1 cut(s)	482
EaeI	YGGCCR	1 cut(s)	417
Eco24I	GRGCYC	1 cut(s)	304
Eco31I	GGTCTC	1 cut(s)	498
Eco72I	CACGTG	1 cut(s)	311
Eco91I	GGTNACC	1 cut(s)	292
EcoO65I	GGTNACC	1 cut(s)	292
EcoRII	CCWGG	1 cut(s)	273
EcoT38I	GRGCYC	1 cut(s)	304
FaeI	CATG	4 cut(s)	77, 94, 231, 407
FaiI	YATR	5 cut(s)	57, 75, 92, 229, 405
FaqI	GGGAC	1 cut(s)	125
FatI	CATG	4 cut(s)	73, 90, 227, 403
Fnu4HI	GCNGC	3 cut(s)	177, 203, 537
FokI	GGATG	1 cut(s)	149
FriOI	GRGCYC	1 cut(s)	304
Fsp4HI	GCNGC	3 cut(s)	177, 203, 537
FspBI	CTAG	1 cut(s)	480
GluI	GCNGC	3 cut(s)	177, 203, 537
HaeIII	GGCC	1 cut(s)	419
HapII	CCGG	3 cut(s)	111, 134, 297
HgaI	GACGC	1 cut(s)	103
Hin1I	GRCGYC	1 cut(s)	114
Hin1II	CATG	4 cut(s)	77, 94, 231, 407
HinfI	GANTC	1 cut(s)	331
HpaII	CCGG	3 cut(s)	111, 134, 297
HphI	GGTGA	3 cut(s)	286, 289, 485
Hpy166II	GTNNAC	4 cut(s)	96, 271, 308, 316
Hpy188I	TCNGA	4 cut(s)	251, 259, 330, 386
Hpy188III	TCNNGA	1 cut(s)	134
Hpy8I	GTNNAC	4 cut(s)	96, 271, 308, 316
Hpy99I	CGWCG	1 cut(s)	361
HpyAV	CCTTC	1 cut(s)	457
HpyCH4III	ACNGT	1 cut(s)	27
HpyCH4IV	ACGT	2 cut(s)	189, 310
HpyCH4V	TGCA	1 cut(s)	493
HpyF10VI	GCNNNNNNNGC	3 cut(s)	111, 409, 437
HpyF3I	CTNAG	1 cut(s)	399
HpySE526I	ACGT	2 cut(s)	189, 310
Hsp92I	GRCGYC	1 cut(s)	114
Hsp92II	CATG	4 cut(s)	77, 94, 231, 407
Kpn2I	TCCGGA	1 cut(s)	133
KroI	GCCGGC	1 cut(s)	110
KroNI	GCCGGC	1 cut(s)	112
Kzo9I	GATC	1 cut(s)	482
LpnPI	CCDG	7 cut(s)	124, 147, 260, 287, 310, 398, 411
Lsp1109I	GCAGC	2 cut(s)	189, 523
LweI	GCATC	1 cut(s)	87
MabI	ACCWGGT	1 cut(s)	273
MaeI	CTAG	1 cut(s)	480
MaeII	ACGT	2 cut(s)	189, 310
MaeIII	GTNAC	1 cut(s)	292
MalI	GATC	1 cut(s)	484
MboI	GATC	1 cut(s)	482
MboII	GAAGA	2 cut(s)	20, 193
MflI	RGATCY	1 cut(s)	482
MhlI	GDGCHC	2 cut(s)	35, 304
MlyI	GAGTC	1 cut(s)	340
MnlI	CCTC	4 cut(s)	253, 265, 333, 346
MroI	TCCGGA	1 cut(s)	133
MroNI	GCCGGC	1 cut(s)	110
MroXI	GAANNNNTTC	1 cut(s)	324
MseI	TTAA	1 cut(s)	348
MspI	CCGG	3 cut(s)	111, 134, 297
MspR9I	CCNGG	2 cut(s)	275, 298
MvaI	CCWGG	1 cut(s)	275
MvnI	CGCG	1 cut(s)	179
MwoI	GCNNNNNNNGC	3 cut(s)	111, 409, 437
NaeI	GCCGGC	1 cut(s)	112
NciI	CCSGG	1 cut(s)	298
NdeII	GATC	1 cut(s)	482
NgoMIV	GCCGGC	1 cut(s)	110
NlaIII	CATG	4 cut(s)	77, 94, 231, 407
NlaIV	GGNNCC	1 cut(s)	132
NmeAIII	GCCGAG	1 cut(s)	445
NmuCI	GTSAC	1 cut(s)	292
NspI	RCATGY	2 cut(s)	231, 407
PaqCI	CACCTGC	1 cut(s)	403
PciI	ACATGT	1 cut(s)	227
PdiI	GCCGGC	1 cut(s)	112
PdmI	GAANNNNTTC	1 cut(s)	324
PflFI	GACNNNGTC	1 cut(s)	245
PkrI	GCNGC	3 cut(s)	178, 204, 538
PleI	GAGTC	1 cut(s)	339
PmaCI	CACGTG	1 cut(s)	311
PmlI	CACGTG	1 cut(s)	311
PpsI	GAGTC	1 cut(s)	339
Ppu21I	YACGTR	1 cut(s)	311
PscI	ACATGT	1 cut(s)	227
Psp1406I	AACGTT	1 cut(s)	189
Psp6I	CCWGG	1 cut(s)	273
PspCI	CACGTG	1 cut(s)	311
PspEI	GGTNACC	1 cut(s)	292
PspGI	CCWGG	1 cut(s)	273
PspN4I	GGNNCC	1 cut(s)	132
PstNI	CAGNNNCTG	1 cut(s)	374
PsuI	RGATCY	1 cut(s)	482
PsyI	GACNNNGTC	1 cut(s)	245
RsaI	GTAC	1 cut(s)	272
RsaNI	GTAC	1 cut(s)	271
SaqAI	TTAA	1 cut(s)	348
SatI	GCNGC	3 cut(s)	177, 203, 537
Sau3AI	GATC	1 cut(s)	482
SchI	GAGTC	1 cut(s)	340
ScrFI	CCNGG	2 cut(s)	275, 298
SduI	GDGCHC	2 cut(s)	35, 304
SetI	ASST	7 cut(s)	192, 276, 313, 417, 468, 481, 510
SexAI	ACCWGGT	1 cut(s)	273
SfaNI	GCATC	1 cut(s)	87
SmlI	CTYRAG	1 cut(s)	163
SmoI	CTYRAG	1 cut(s)	163
SsiI	CCGC	2 cut(s)	177, 284
SspMI	CTAG	1 cut(s)	480
StyD4I	CCNGG	2 cut(s)	273, 296
TaaI	ACNGT	1 cut(s)	27
TaiI	ACGT	2 cut(s)	192, 313
TaqI	TCGA	3 cut(s)	81, 232, 392
TauI	GCSGC	1 cut(s)	179
Tru1I	TTAA	1 cut(s)	348
Tru9I	TTAA	1 cut(s)	348
TscAI	CASTG	1 cut(s)	375
TseFI	GTSAC	1 cut(s)	292
TseI	GCWGC	2 cut(s)	202, 536
Tsp45I	GTSAC	1 cut(s)	292
TspDTI	ATGAA	2 cut(s)	79, 251
TspGWI	ACGGA	1 cut(s)	107
TspRI	CASTG	1 cut(s)	375
Tth111I	GACNNNGTC	1 cut(s)	245
XceI	RCATGY	2 cut(s)	231, 407
XmnI	GAANNNNTTC	1 cut(s)	324
XspI	CTAG	1 cut(s)	480

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