Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1A

Orthogroup ID

OG0015727

Physical Location & Seq

Genomic Coordinates Forward (+)

65720934 .. 65721302

Gene Structure 369 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1AG430600.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 369 bp

ATGTCGGTGTACATGGACTTGTGGTTCCAGATGTTCCATTGGAAGAGAGACATTCTGCGAAAGGAAGCCATGAAAAATAATATTGAACTGGTATTACTGACTACACCCACCACTCCAATGGAGCGAATGAAGGCCATTGCTGATGCTTCCGAAGGGTTTTTGTACCTGGTGAGCTCCATTGGAGTTACGGGGGTCCGGGCATCTGTGAATGAACGAGTTCCTGCCCTTTTGAAAGTAATTAAGGAGGCTACGTCAAAGGCTGTAGCTGTTGGTTTTGGCATCTTAAAGCCTGAACAAGCTAAACAGGTAGCGGGGTGGGGAGCTGATGGTGTCATTTGTTGGTATCGCAATGGTGAAGCTGTTGGGTGA

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

122

Amino Acids

13.52

Weight (kDa)

9.13

Isoelectric Point (pI)

33.75

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Trp_syntA	PF00290	17 - 112	2.2e-28	Tryptophan synthase alpha chain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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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)	311
AfaI	GTAC	2 cut(s)	11, 164
AgsI	TTSAA	2 cut(s)	86, 232
AjnI	CCWGG	1 cut(s)	165
AloI	GAACNNNNNNTCC	2 cut(s)	8, 40
AluBI	AGCT	5 cut(s)	174, 266, 299, 323, 359
AluI	AGCT	5 cut(s)	174, 266, 299, 323, 359
Alw21I	GWGCWC	1 cut(s)	176
Alw26I	GTCTC	1 cut(s)	42
AoxI	GGCC	1 cut(s)	132
Asp700I	GAANNNNTTC	1 cut(s)	216
AspS9I	GGNCC	1 cut(s)	193
AsuC2I	CCSGG	1 cut(s)	197
AsuHPI	GGTGA	2 cut(s)	181, 365
AvaII	GGWCC	1 cut(s)	193
BanII	GRGCYC	1 cut(s)	176
Bbv12I	GWGCWC	1 cut(s)	176
BccI	CCATC	1 cut(s)	320
BciT130I	CCWGG	1 cut(s)	167
BcnI	CCSGG	1 cut(s)	197
BcoDI	GTCTC	1 cut(s)	42
BfmI	CTRYAG	1 cut(s)	261
Bme1390I	CCNGG	2 cut(s)	167, 197
Bme18I	GGWCC	1 cut(s)	193
BmgT120I	GGNCC	1 cut(s)	193
BmiI	GGNNCC	2 cut(s)	26, 194
BmrFI	CCNGG	2 cut(s)	167, 197
BmsI	GCATC	3 cut(s)	133, 209, 288
BpuMI	CCSGG	1 cut(s)	197
BsaXI	ACNNNNNCTCC	2 cut(s)	236, 266
Bse1I	ACTGG	1 cut(s)	93
Bse3DI	GCAATG	2 cut(s)	135, 355
BseBI	CCWGG	1 cut(s)	167
BseMI	GCAATG	2 cut(s)	135, 355
BseNI	ACTGG	1 cut(s)	93
BshFI	GGCC	1 cut(s)	134
BsiHKAI	GWGCWC	1 cut(s)	176
BsiSI	CCGG	1 cut(s)	196
BsmAI	GTCTC	1 cut(s)	42
BsnI	GGCC	1 cut(s)	134
Bsp1286I	GDGCHC	1 cut(s)	176
Bsp1407I	TGTACA	1 cut(s)	9
BspACI	CCGC	1 cut(s)	311
BspANI	GGCC	1 cut(s)	134
BspLI	GGNNCC	2 cut(s)	26, 194
BsrDI	GCAATG	2 cut(s)	135, 355
BsrGI	TGTACA	1 cut(s)	9
BsrI	ACTGG	1 cut(s)	93
Bst2UI	CCWGG	1 cut(s)	167
Bst6I	CTCTTC	1 cut(s)	38
BstAUI	TGTACA	1 cut(s)	9
BstMAI	GTCTC	1 cut(s)	42
BstNI	CCWGG	1 cut(s)	167
BstSCI	CCNGG	2 cut(s)	165, 195
BstSFI	CTRYAG	1 cut(s)	261
BstXI	CCANNNNNNTGG	1 cut(s)	118
BsuRI	GGCC	1 cut(s)	134
Cfr13I	GGNCC	1 cut(s)	193
CsiI	ACCWGGT	1 cut(s)	165
Csp6I	GTAC	2 cut(s)	10, 163
CviAII	CATG	2 cut(s)	13, 70
CviQI	GTAC	2 cut(s)	10, 163
Eam1104I	CTCTTC	1 cut(s)	38
EarI	CTCTTC	1 cut(s)	38
Ecl136II	GAGCTC	1 cut(s)	174
Eco24I	GRGCYC	1 cut(s)	176
Eco47I	GGWCC	1 cut(s)	193
Eco53kI	GAGCTC	1 cut(s)	174
EcoICRI	GAGCTC	1 cut(s)	174
EcoRII	CCWGG	1 cut(s)	165
EcoT38I	GRGCYC	1 cut(s)	176
FaeI	CATG	2 cut(s)	16, 73
FaiI	YATR	2 cut(s)	14, 71
FatI	CATG	2 cut(s)	12, 69
FauI	CCCGC	1 cut(s)	304
FriOI	GRGCYC	1 cut(s)	176
HaeIII	GGCC	1 cut(s)	134
HapII	CCGG	1 cut(s)	196
Hin1II	CATG	2 cut(s)	16, 73
HpaII	CCGG	1 cut(s)	196
HphI	GGTGA	2 cut(s)	181, 365
Hpy166II	GTNNAC	1 cut(s)	10
Hpy188I	TCNGA	1 cut(s)	151
Hpy188III	TCNNGA	1 cut(s)	28
Hpy8I	GTNNAC	1 cut(s)	10
HpyAV	CCTTC	2 cut(s)	124, 146
HpyCH4IV	ACGT	1 cut(s)	251
HpySE526I	ACGT	1 cut(s)	251
Hsp92II	CATG	2 cut(s)	16, 73
LmnI	GCTCC	3 cut(s)	121, 179, 320
LpnPI	CCDG	8 cut(s)	41, 74, 152, 179, 209, 234, 290, 303
LweI	GCATC	3 cut(s)	133, 209, 288
MabI	ACCWGGT	1 cut(s)	165
MaeII	ACGT	1 cut(s)	251
MaeIII	GTNAC	1 cut(s)	184
MboII	GAAGA	1 cut(s)	55
MhlI	GDGCHC	1 cut(s)	176
MluCI	AATT	1 cut(s)	237
MnlI	CCTC	1 cut(s)	238
MroXI	GAANNNNTTC	1 cut(s)	216
MseI	TTAA	2 cut(s)	240, 284
MslI	CAYNNNNRTG	1 cut(s)	116
MspI	CCGG	1 cut(s)	196
MspR9I	CCNGG	2 cut(s)	167, 197
MvaI	CCWGG	1 cut(s)	167
NciI	CCSGG	1 cut(s)	197
NlaIII	CATG	2 cut(s)	16, 73
NlaIV	GGNNCC	2 cut(s)	26, 194
PdmI	GAANNNNTTC	1 cut(s)	216
Psp124BI	GAGCTC	1 cut(s)	176
Psp6I	CCWGG	1 cut(s)	165
PspGI	CCWGG	1 cut(s)	165
PspN4I	GGNNCC	2 cut(s)	26, 194
PspPI	GGNCC	1 cut(s)	193
PsrI	GAACNNNNNNTAC	2 cut(s)	78, 110
RsaI	GTAC	2 cut(s)	11, 164
RsaNI	GTAC	2 cut(s)	10, 163
RseI	CAYNNNNRTG	1 cut(s)	116
SacI	GAGCTC	1 cut(s)	176
SaqAI	TTAA	2 cut(s)	240, 284
Sau96I	GGNCC	1 cut(s)	193
ScrFI	CCNGG	2 cut(s)	167, 197
SduI	GDGCHC	1 cut(s)	176
SetI	ASST	8 cut(s)	168, 176, 254, 268, 301, 309, 325, 361
SexAI	ACCWGGT	1 cut(s)	165
SfaNI	GCATC	3 cut(s)	133, 209, 288
SfcI	CTRYAG	1 cut(s)	261
SinI	GGWCC	1 cut(s)	193
SmiMI	CAYNNNNRTG	1 cut(s)	116
Sse9I	AATT	1 cut(s)	237
SsiI	CCGC	1 cut(s)	311
SspI	AATATT	1 cut(s)	82
SstI	GAGCTC	1 cut(s)	176
StyD4I	CCNGG	2 cut(s)	165, 195
TaiI	ACGT	1 cut(s)	254
TasI	AATT	1 cut(s)	237
TatI	WGTACW	1 cut(s)	9
Tru1I	TTAA	2 cut(s)	240, 284
Tru9I	TTAA	2 cut(s)	240, 284
TspDTI	ATGAA	3 cut(s)	86, 143, 225
VpaK11BI	GGWCC	1 cut(s)	193
XcmI	CCANNNNNNNNNTGG	1 cut(s)	115
XmnI	GAANNNNTTC	1 cut(s)	216

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