Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4D

Orthogroup ID

OG0015727

Physical Location & Seq

Genomic Coordinates Forward (+)

57267813 .. 57268250

Gene Structure 438 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4DG351000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 438 bp

ATGTTGAAAATTAGTGAAGCAGGCGTAAGTGGGCTTGTGGTTCCAGATGTTCCTTTTGAAGAGACACAACTGTTGAGAATGGAAGCTGCGAAGAATGGCATTGAGTTGGTGCTGCTAACCACACCCACTACTACAAGAGAACGCATGAAAGACATTGTCCAAGCTTCGGAGGGATTTGTGTACCAGGTGAGCACGGTGGGGGTTACTGGAGCTTGTGAGTGTGTGAACGAACAAGTTCCAAGTCTTTTAAGGGAGATAAAAGAGGCAACAAACAAGGTAGTGGCGGTTGGTTTCGGGTTGTCGACGCCTGAACATGTGAAGCAGGTGGCGGAGTGGGGGGTTGATGGCGTTATTGTTGGCAGTGCCATTATGAAGGTATTAGGTGAAGCTAGATCTCCATTGCAAGGGTTGCGAGAATTTGAAACTTTCACCAAATAA

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

145

Amino Acids

15.63

Weight (kDa)

4.97

Isoelectric Point (pI)

32.89

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Trp_syntA	PF00290	3 - 142	1.4e-43	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)	313
Acc36I	ACCTGC	1 cut(s)	313
AccI	GTMKAC	1 cut(s)	302
AciI	CCGC	2 cut(s)	284, 329
AcsI	RAATTY	1 cut(s)	416
AcyI	GRCGYC	1 cut(s)	305
AfaI	GTAC	1 cut(s)	182
AfiI	CCNNNNNNNGG	2 cut(s)	166, 404
AflIII	ACRYGT	1 cut(s)	313
AgsI	TTSAA	3 cut(s)	7, 59, 422
AjnI	CCWGG	1 cut(s)	183
AluBI	AGCT	4 cut(s)	86, 164, 212, 389
AluI	AGCT	4 cut(s)	86, 164, 212, 389
Alw21I	GWGCWC	1 cut(s)	194
Alw26I	GTCTC	1 cut(s)	56
ApeKI	GCWGC	2 cut(s)	86, 112
ApoI	RAATTY	1 cut(s)	416
Asp700I	GAANNNNTTC	1 cut(s)	234
AsuHPI	GGTGA	3 cut(s)	199, 395, 421
Bbv12I	GWGCWC	1 cut(s)	194
BbvI	GCAGC	2 cut(s)	73, 99
BccI	CCATC	1 cut(s)	338
BciT130I	CCWGG	1 cut(s)	185
BcoDI	GTCTC	1 cut(s)	56
BfaI	CTAG	1 cut(s)	390
BfuAI	ACCTGC	1 cut(s)	313
BglII	AGATCT	1 cut(s)	392
BisI	GCNGC	2 cut(s)	87, 113
BlsI	GCNGC	2 cut(s)	88, 114
Bme1390I	CCNGG	1 cut(s)	185
BmiI	GGNNCC	1 cut(s)	42
BmrFI	CCNGG	1 cut(s)	185
BpmI	CTGGAG	1 cut(s)	228
BsaHI	GRCGYC	1 cut(s)	305
Bsc4I	CCNNNNNNNGG	2 cut(s)	166, 404
Bse1I	ACTGG	1 cut(s)	211
Bse3DI	GCAATG	1 cut(s)	398
BseBI	CCWGG	1 cut(s)	185
BseLI	CCNNNNNNNGG	2 cut(s)	166, 404
BseMI	GCAATG	1 cut(s)	398
BseNI	ACTGG	1 cut(s)	211
BseXI	GCAGC	2 cut(s)	73, 99
BsiHKAI	GWGCWC	1 cut(s)	194
BslI	CCNNNNNNNGG	2 cut(s)	166, 404
BsmAI	GTCTC	1 cut(s)	56
Bsp1286I	GDGCHC	1 cut(s)	194
Bsp143I	GATC	1 cut(s)	392
BspACI	CCGC	2 cut(s)	284, 329
BspLI	GGNNCC	1 cut(s)	42
BspMI	ACCTGC	1 cut(s)	313
BsrDI	GCAATG	1 cut(s)	398
BsrI	ACTGG	1 cut(s)	211
BssMI	GATC	1 cut(s)	392
BssNI	GRCGYC	1 cut(s)	305
Bst2UI	CCWGG	1 cut(s)	185
Bst4CI	ACNGT	2 cut(s)	72, 196
Bst6I	CTCTTC	1 cut(s)	54
BstACI	GRCGYC	1 cut(s)	305
BstAPI	GCANNNNNTGC	1 cut(s)	409
BstC8I	GCNNGC	1 cut(s)	22
BstKTI	GATC	1 cut(s)	395
BstMAI	GTCTC	1 cut(s)	56
BstMBI	GATC	1 cut(s)	392
BstMWI	GCNNNNNNNGC	1 cut(s)	409
BstNI	CCWGG	1 cut(s)	185
BstNSI	RCATGY	1 cut(s)	317
BstSCI	CCNGG	1 cut(s)	183
BstV1I	GCAGC	2 cut(s)	73, 99
BstX2I	RGATCY	1 cut(s)	392
BstYI	RGATCY	1 cut(s)	392
BtsI	GCAGTG	1 cut(s)	367
BtsIMutI	CAGTG	1 cut(s)	367
BveI	ACCTGC	1 cut(s)	313
Cac8I	GCNNGC	1 cut(s)	22
CseI	GACGC	1 cut(s)	313
CsiI	ACCWGGT	1 cut(s)	183
Csp6I	GTAC	1 cut(s)	181
CviAII	CATG	2 cut(s)	145, 314
CviJI	RGCY	5 cut(s)	34, 86, 164, 212, 389
CviKI_1	RGCY	5 cut(s)	34, 86, 164, 212, 389
CviQI	GTAC	1 cut(s)	181
DpnI	GATC	1 cut(s)	394
DpnII	GATC	1 cut(s)	392
Eam1104I	CTCTTC	1 cut(s)	54
EarI	CTCTTC	1 cut(s)	54
EciI	GGCGGA	1 cut(s)	344
EcoRII	CCWGG	1 cut(s)	183
FaeI	CATG	2 cut(s)	148, 317
FaiI	YATR	3 cut(s)	146, 315, 371
FatI	CATG	2 cut(s)	144, 313
FblI	GTMKAC	1 cut(s)	302
Fnu4HI	GCNGC	2 cut(s)	87, 113
Fsp4HI	GCNGC	2 cut(s)	87, 113
FspBI	CTAG	1 cut(s)	390
GluI	GCNGC	2 cut(s)	87, 113
GsuI	CTGGAG	1 cut(s)	228
HgaI	GACGC	1 cut(s)	313
Hin1I	GRCGYC	1 cut(s)	305
Hin1II	CATG	2 cut(s)	148, 317
HincII	GTYRAC	1 cut(s)	303
HindII	GTYRAC	1 cut(s)	303
HindIII	AAGCTT	1 cut(s)	162
HphI	GGTGA	3 cut(s)	199, 395, 421
Hpy166II	GTNNAC	3 cut(s)	181, 226, 303
Hpy188I	TCNGA	1 cut(s)	169
Hpy188III	TCNNGA	1 cut(s)	44
Hpy8I	GTNNAC	3 cut(s)	181, 226, 303
Hpy99I	CGWCG	1 cut(s)	307
HpyAV	CCTTC	1 cut(s)	367
HpyCH4III	ACNGT	2 cut(s)	72, 196
HpyCH4V	TGCA	1 cut(s)	403
HpyF10VI	GCNNNNNNNGC	1 cut(s)	409
Hsp92I	GRCGYC	1 cut(s)	305
Hsp92II	CATG	2 cut(s)	148, 317
Kzo9I	GATC	1 cut(s)	392
LmnI	GCTCC	1 cut(s)	209
LpnPI	CCDG	7 cut(s)	6, 57, 170, 192, 197, 308, 321
Lsp1109I	GCAGC	2 cut(s)	73, 99
MabI	ACCWGGT	1 cut(s)	183
MaeI	CTAG	1 cut(s)	390
MaeIII	GTNAC	1 cut(s)	202
MalI	GATC	1 cut(s)	394
MboI	GATC	1 cut(s)	392
MboII	GAAGA	2 cut(s)	71, 103
MflI	RGATCY	1 cut(s)	392
MhlI	GDGCHC	1 cut(s)	194
MluCI	AATT	2 cut(s)	9, 416
MnlI	CCTC	2 cut(s)	163, 256
MroXI	GAANNNNTTC	1 cut(s)	234
MseI	TTAA	1 cut(s)	248
MspR9I	CCNGG	1 cut(s)	185
MvaI	CCWGG	1 cut(s)	185
MwoI	GCNNNNNNNGC	1 cut(s)	409
NdeII	GATC	1 cut(s)	392
NlaIII	CATG	2 cut(s)	148, 317
NlaIV	GGNNCC	1 cut(s)	42
NspI	RCATGY	1 cut(s)	317
PaqCI	CACCTGC	1 cut(s)	313
PciI	ACATGT	1 cut(s)	313
PdmI	GAANNNNTTC	1 cut(s)	234
PflFI	GACNNNGTC	1 cut(s)	155
PkrI	GCNGC	2 cut(s)	88, 114
PscI	ACATGT	1 cut(s)	313
Psp6I	CCWGG	1 cut(s)	183
PspGI	CCWGG	1 cut(s)	183
PspN4I	GGNNCC	1 cut(s)	42
PsuI	RGATCY	1 cut(s)	392
PsyI	GACNNNGTC	1 cut(s)	155
RsaI	GTAC	1 cut(s)	182
RsaNI	GTAC	1 cut(s)	181
SalI	GTCGAC	1 cut(s)	301
SaqAI	TTAA	1 cut(s)	248
SatI	GCNGC	2 cut(s)	87, 113
Sau3AI	GATC	1 cut(s)	392
ScrFI	CCNGG	1 cut(s)	185
SduI	GDGCHC	1 cut(s)	194
SetI	ASST	9 cut(s)	88, 166, 189, 214, 279, 327, 378, 385, 391
SexAI	ACCWGGT	1 cut(s)	183
Sse9I	AATT	2 cut(s)	9, 416
SsiI	CCGC	2 cut(s)	284, 329
SspMI	CTAG	1 cut(s)	390
StyD4I	CCNGG	1 cut(s)	183
TaaI	ACNGT	2 cut(s)	72, 196
TaqI	TCGA	1 cut(s)	302
TasI	AATT	2 cut(s)	9, 416
Tru1I	TTAA	1 cut(s)	248
Tru9I	TTAA	1 cut(s)	248
TscAI	CASTG	1 cut(s)	367
TseI	GCWGC	2 cut(s)	86, 112
TspDTI	ATGAA	2 cut(s)	161, 386
TspRI	CASTG	1 cut(s)	367
Tth111I	GACNNNGTC	1 cut(s)	155
XapI	RAATTY	1 cut(s)	416
XceI	RCATGY	1 cut(s)	317
XmiI	GTMKAC	1 cut(s)	302
XmnI	GAANNNNTTC	1 cut(s)	234
XspI	CTAG	1 cut(s)	390

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