Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1A

Orthogroup ID

OG0015727

Physical Location & Seq

Genomic Coordinates Reverse (-)

4839530 .. 4839844

Gene Structure 315 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1AG026300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 315 bp

ATGAAAGACATCGTCAAAGCTTCGGAGGGATTTGTGTACCTAGTGAGCACGGTGGGGGTCACTGGAGCTCGTGCTCATGTGAACGAACAAGTTCCGAGTCTTTTGAGGGAGATTAAGGATGCCACCAGCAAGGCAGTGGCGGTTGGGTTTGGGCTGTCTAAGCCTGAACATGTGAAACAGGTGGTTGTGTGGGGGGCTGATGGCGTTATTGTTGGTAGTGCCATTGTGAAGGTTCTAGGTGAAGCTAGATCTCCTCTTGAAGGGTTGAGAGAACTTGAAACTCTCACCAAGTCTTTCAAGTCTGCTCTCCATTGA

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

104

Amino Acids

11.01

Weight (kDa)

9.05

Isoelectric Point (pI)

16.21

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Trp_syntA	PF00290	1 - 103	8e-30	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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Publication-ready

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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)
AciI	CCGC	1 cut(s)	140
AfaI	GTAC	1 cut(s)	38
AfiI	CCNNNNNNNGG	1 cut(s)	260
AflIII	ACRYGT	1 cut(s)	169
AgsI	TTSAA	3 cut(s)	260, 278, 298
AluBI	AGCT	3 cut(s)	20, 68, 245
AluI	AGCT	3 cut(s)	20, 68, 245
Alw21I	GWGCWC	3 cut(s)	50, 70, 76
Asp700I	GAANNNNTTC	1 cut(s)	90
AsuHPI	GGTGA	2 cut(s)	251, 277
BanII	GRGCYC	1 cut(s)	70
BauI	CACGAG	1 cut(s)	69
Bbv12I	GWGCWC	3 cut(s)	50, 70, 76
BccI	CCATC	1 cut(s)	194
BfaI	CTAG	3 cut(s)	41, 236, 246
BglII	AGATCT	1 cut(s)	248
BmsI	GCATC	1 cut(s)	109
BpmI	CTGGAG	1 cut(s)	84
Bsc4I	CCNNNNNNNGG	1 cut(s)	260
Bse1I	ACTGG	1 cut(s)	67
BseGI	GGATG	1 cut(s)	124
BseLI	CCNNNNNNNGG	1 cut(s)	260
BseNI	ACTGG	1 cut(s)	67
BseRI	GAGGAG	1 cut(s)	243
BsiHKAI	GWGCWC	3 cut(s)	50, 70, 76
BslI	CCNNNNNNNGG	1 cut(s)	260
Bsp1286I	GDGCHC	3 cut(s)	50, 70, 76
Bsp143I	GATC	1 cut(s)	248
BspACI	CCGC	1 cut(s)	140
BsrI	ACTGG	1 cut(s)	67
BssMI	GATC	1 cut(s)	248
BssSI	CACGAG	1 cut(s)	69
Bst2BI	CACGAG	1 cut(s)	69
Bst4CI	ACNGT	1 cut(s)	52
BstDEI	CTNAG	1 cut(s)	159
BstENI	CCTNNNNNAGG	1 cut(s)	258
BstF5I	GGATG	1 cut(s)	124
BstKTI	GATC	1 cut(s)	251
BstMBI	GATC	1 cut(s)	248
BstMWI	GCNNNNNNNGC	1 cut(s)	160
BstNSI	RCATGY	1 cut(s)	173
BstX2I	RGATCY	1 cut(s)	248
BstYI	RGATCY	1 cut(s)	248
BtsCI	GGATG	1 cut(s)	124
BtsI	GCAGTG	1 cut(s)	141
BtsIMutI	CAGTG	2 cut(s)	60, 141
Csp6I	GTAC	1 cut(s)	37
CviAII	CATG	2 cut(s)	77, 170
CviJI	RGCY	6 cut(s)	20, 68, 154, 163, 197, 245
CviKI_1	RGCY	6 cut(s)	20, 68, 154, 163, 197, 245
CviQI	GTAC	1 cut(s)	37
DdeI	CTNAG	1 cut(s)	159
DpnI	GATC	1 cut(s)	250
DpnII	GATC	1 cut(s)	248
Ecl136II	GAGCTC	1 cut(s)	68
Eco24I	GRGCYC	1 cut(s)	70
Eco53kI	GAGCTC	1 cut(s)	68
EcoICRI	GAGCTC	1 cut(s)	68
EcoNI	CCTNNNNNAGG	1 cut(s)	258
EcoT38I	GRGCYC	1 cut(s)	70
FaeI	CATG	2 cut(s)	80, 173
FaiI	YATR	2 cut(s)	78, 171
FatI	CATG	2 cut(s)	76, 169
FokI	GGATG	1 cut(s)	131
FriOI	GRGCYC	1 cut(s)	70
FspBI	CTAG	3 cut(s)	41, 236, 246
GsuI	CTGGAG	1 cut(s)	84
Hin1II	CATG	2 cut(s)	80, 173
HindIII	AAGCTT	1 cut(s)	18
HinfI	GANTC	1 cut(s)	97
HphI	GGTGA	2 cut(s)	251, 277
Hpy166II	GTNNAC	2 cut(s)	37, 82
Hpy188I	TCNGA	2 cut(s)	25, 96
Hpy188III	TCNNGA	1 cut(s)	257
Hpy8I	GTNNAC	2 cut(s)	37, 82
HpyAV	CCTTC	2 cut(s)	223, 254
HpyCH4III	ACNGT	1 cut(s)	52
HpyF10VI	GCNNNNNNNGC	1 cut(s)	160
HpyF3I	CTNAG	1 cut(s)	159
Hsp92II	CATG	2 cut(s)	80, 173
Kzo9I	GATC	1 cut(s)	248
LmnI	GCTCC	1 cut(s)	65
LpnPI	CCDG	4 cut(s)	48, 139, 164, 177
LweI	GCATC	1 cut(s)	109
MaeI	CTAG	3 cut(s)	41, 236, 246
MaeIII	GTNAC	1 cut(s)	58
MalI	GATC	1 cut(s)	250
MboI	GATC	1 cut(s)	248
MflI	RGATCY	1 cut(s)	248
MhlI	GDGCHC	3 cut(s)	50, 70, 76
MlyI	GAGTC	1 cut(s)	106
MnlI	CCTC	3 cut(s)	19, 99, 264
MroXI	GAANNNNTTC	1 cut(s)	90
MseI	TTAA	1 cut(s)	114
MwoI	GCNNNNNNNGC	1 cut(s)	160
NdeII	GATC	1 cut(s)	248
NlaIII	CATG	2 cut(s)	80, 173
NmuCI	GTSAC	1 cut(s)	58
NspI	RCATGY	1 cut(s)	173
PciI	ACATGT	1 cut(s)	169
PdmI	GAANNNNTTC	1 cut(s)	90
PflFI	GACNNNGTC	1 cut(s)	11
PleI	GAGTC	1 cut(s)	105
PpsI	GAGTC	1 cut(s)	105
PscI	ACATGT	1 cut(s)	169
Psp124BI	GAGCTC	1 cut(s)	70
PsuI	RGATCY	1 cut(s)	248
PsyI	GACNNNGTC	1 cut(s)	11
RsaI	GTAC	1 cut(s)	38
RsaNI	GTAC	1 cut(s)	37
SacI	GAGCTC	1 cut(s)	70
SaqAI	TTAA	1 cut(s)	114
Sau3AI	GATC	1 cut(s)	248
SchI	GAGTC	1 cut(s)	106
SduI	GDGCHC	3 cut(s)	50, 70, 76
SetI	ASST	7 cut(s)	22, 42, 70, 183, 234, 241, 247
SfaNI	GCATC	1 cut(s)	109
SsiI	CCGC	1 cut(s)	140
SspMI	CTAG	3 cut(s)	41, 236, 246
SstI	GAGCTC	1 cut(s)	70
TaaI	ACNGT	1 cut(s)	52
Tru1I	TTAA	1 cut(s)	114
Tru9I	TTAA	1 cut(s)	114
TscAI	CASTG	2 cut(s)	67, 141
TseFI	GTSAC	1 cut(s)	58
Tsp45I	GTSAC	1 cut(s)	58
TspDTI	ATGAA	1 cut(s)	17
TspRI	CASTG	2 cut(s)	67, 141
Tth111I	GACNNNGTC	1 cut(s)	11
XagI	CCTNNNNNAGG	1 cut(s)	258
XceI	RCATGY	1 cut(s)	173
XcmI	CCANNNNNNNNNTGG	1 cut(s)	133
XmnI	GAANNNNTTC	1 cut(s)	90
XspI	CTAG	3 cut(s)	41, 236, 246

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