Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3C

Orthogroup ID

OG0002070

Physical Location & Seq

Genomic Coordinates Forward (+)

9574951 .. 9579370

Gene Structure 4420 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3CG118700.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 972 bp

ATGGCTATTCCTAGTTATCTTAAACTTACTGCTCCCGGCTTTATACATACAAAGAAACCCCAAAACCCATTTCAACAACAGCTTCATTCTCCATCTCAAACATCATTAACCTTATCAATCAAAAGAGTTCTTAGGCCAAATCCAATGGCTGCTCTCACCCACCCTTGTGCCCCTAGCATAAGCATCTCACAAACTTTCACAAAATTGAAGTCACAAGGGAAAGTGGCTTTCATCCCCTACATCACCGCCGGCGATCCAGATCTCTCAACAACCGGGGCGGCATTGAAGGTGCTCGATTCTTGTGGATCAGACGTAATCGAACTAGGCCTTCCCTACTCCGATCCGTTACTAGACGGTCCTGTCATATGTGCTTCAGCCACCCGTTCCTTGGCTAGAGGGACAAACTTCAACAAAGTCATCTCAATGTTGAAGGAAGTTGTTCCACAACTGTCTTGCCCCATTGTTCTTTTTTCATACTATAACCCTATCATCAATCTTGGCATCAAAAACTATATGTTCACCATTAGTCAAGCAGGTGTACGTGGGCTTGTGGTTCCGGATGTTCCTTTTGAAGAGACACAAATCTTAAGGAAGGAAGCTGCGAAAAATAACATCGAGTTGGTGCTACTGACCACTCCAGCTACTACAACAGACCGAATGAAAGACATCGTCAAAGCTTCTGAGGGATTTGTGTACCTAGTGAGCACGGTGGGGGTCACCGGAGCTCGTGCTCGTGTGAACGAACAAGTTCCGAGTCTTTTGAGGGAGATTAAGGATGCCACCAGCAAGGCAGTGGCGGTTGGGTTTGGGCTGTCTAAGCCTGAACATGTGAAACAGGTGGCTGAGTGGGGGGCTGATGGCGTTATTGTTGGTAGTGCCATTGTGAAGGTTCTAGGTGAAGCTAGATCTCCTCTTGAAGGGTTGAGAGAGCTTGAAACTTTCACCAAGTCTTTCAAGTCTGCTCTCCATTGA

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

323

Amino Acids

34.76

Weight (kDa)

9.25

Isoelectric Point (pI)

34.79

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Trp_syntA	PF00290	66 - 322	1.7e-89	Tryptophan synthase alpha chain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

Font Size (px)

Line Width

Align Labels (Cladogram)

Image

Tree File

Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0002070)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G02610
fragaria_vesca	FvH4_6g10820 FvH4_6g10830
malus_domestica	MD17G1246800.v1.1
prunus_persica	Prupe.3G144200_v2.0.a1 Prupe.3G144300_v2.0.a1 Prupe.3G144400_v2.0.a1 Prupe.3G144500_v2.0.a1
pyrus_communis	pycom17g24810
rosa_chinensis	RchiOBHm_Chr1g0317261 RchiOBHm_Chr1g0325481 RchiOBHm_Chr3g0462061 RchiOBHm_Chr3g0462091 RchiOBHm_Chr5g0067051
rosa_laevigata	RLG00000013482 RLG00000024883 RLG00000030122
rosa_multiflora	Rmu_sc0007627.1_g000011 Rmu_sc0009268.1_g000017
rosa_roxburghii	Rroxscaffold_1G00014060 Rroxscaffold_6G00417740 Rroxscaffold_6G00417750
rosa_rugosa	Rorug03G0054600
rosa_samantha	Rh1AG067300 Rh1BG055800 Rh1CG068700 Rh1DG073600 Rh3AG113000 Rh3AG113100 Rh3BG116000 Rh3CG118700 Rh3CG118800 Rh3DG117800 Rh3DG117900 Rh5AG440900 Rh5BG458200 Rh5CG480000 Rh5DG473200
rosa_wichuraiana	Rw0G007850 Rw0G020470 Rw3G009530 Rw3G009540 Rw4G030480 Rw5G041210

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	1 cut(s)	524
AasI	GACNNNNNNGTC	1 cut(s)	359
Acc36I	ACCTGC	1 cut(s)	524
AccIII	TCCGGA	1 cut(s)	556
AciI	CCGC	3 cut(s)	246, 278, 797
AclWI	GGATC	3 cut(s)	248, 313, 335
AcuI	CTGAAG	1 cut(s)	357
AfaI	GTAC	2 cut(s)	540, 695
AfiI	CCNNNNNNNGG	2 cut(s)	388, 917
AflII	CTTAAG	1 cut(s)	586
AflIII	ACRYGT	1 cut(s)	826
AgsI	TTSAA	9 cut(s)	74, 208, 286, 409, 430, 572, 917, 935, 955
AjuI	GAANNNNNNNTTGG	2 cut(s)	54, 86
AleI	CACNNNNGTG	1 cut(s)	165
AluBI	AGCT	7 cut(s)	82, 599, 641, 677, 725, 902, 931
AluI	AGCT	7 cut(s)	82, 599, 641, 677, 725, 902, 931
Alw21I	GWGCWC	4 cut(s)	294, 707, 727, 733
Alw26I	GTCTC	1 cut(s)	569
AlwI	GGATC	3 cut(s)	248, 313, 335
Aor13HI	TCCGGA	1 cut(s)	556
AoxI	GGCC	2 cut(s)	134, 325
ApeKI	GCWGC	2 cut(s)	149, 599
ArsI	GACNNNNNNTTYG	2 cut(s)	194, 226
Asp700I	GAANNNNTTC	2 cut(s)	438, 747
AspS9I	GGNCC	1 cut(s)	356
AsuC2I	CCSGG	2 cut(s)	36, 274
AsuHPI	GGTGA	6 cut(s)	148, 235, 511, 709, 908, 934
AvaII	GGWCC	1 cut(s)	356
BaeGI	GKGCMC	1 cut(s)	172
BanII	GRGCYC	1 cut(s)	727
BauI	CACGAG	2 cut(s)	726, 732
Bbv12I	GWGCWC	4 cut(s)	294, 707, 727, 733
BbvI	GCAGC	2 cut(s)	136, 586
BccI	CCATC	2 cut(s)	100, 851
BcnI	CCSGG	2 cut(s)	36, 274
BcoDI	GTCTC	1 cut(s)	569
BfaI	CTAG	8 cut(s)	12, 174, 323, 350, 393, 698, 893, 903
BfrI	CTTAAG	1 cut(s)	586
BfuAI	ACCTGC	1 cut(s)	524
BglII	AGATCT	2 cut(s)	259, 905
BisI	GCNGC	3 cut(s)	150, 279, 600
BlsI	GCNGC	3 cut(s)	151, 280, 601
Bme1390I	CCNGG	2 cut(s)	36, 274
Bme18I	GGWCC	1 cut(s)	356
BmgT120I	GGNCC	1 cut(s)	356
BmiI	GGNNCC	1 cut(s)	555
BmrFI	CCNGG	2 cut(s)	36, 274
BmsI	GCATC	3 cut(s)	192, 510, 766
BpmI	CTGGAG	1 cut(s)	621
BpuMI	CCSGG	2 cut(s)	36, 274
BsaAI	YACGTR	1 cut(s)	542
BsaBI	GATNNNNATC	1 cut(s)	258
BsaJI	CCNNGG	2 cut(s)	273, 387
BsaWI	WCCGGW	2 cut(s)	556, 719
Bsc4I	CCNNNNNNNGG	2 cut(s)	388, 917
Bse118I	RCCGGY	1 cut(s)	248
Bse8I	GATNNNNATC	1 cut(s)	258
BseAI	TCCGGA	1 cut(s)	556
BseDI	CCNNGG	2 cut(s)	273, 387
BseGI	GGATG	3 cut(s)	231, 565, 781
BseJI	GATNNNNATC	1 cut(s)	258
BseLI	CCNNNNNNNGG	2 cut(s)	388, 917
BseMII	CTCAG	2 cut(s)	672, 834
BseRI	GAGGAG	1 cut(s)	900
BseSI	GKGCMC	1 cut(s)	172
BseXI	GCAGC	2 cut(s)	136, 586
BshFI	GGCC	2 cut(s)	136, 327
BsiHKAI	GWGCWC	4 cut(s)	294, 707, 727, 733
BsiSI	CCGG	5 cut(s)	36, 249, 273, 557, 720
BslFI	GGGAC	1 cut(s)	412
BslI	CCNNNNNNNGG	2 cut(s)	388, 917
BsmAI	GTCTC	1 cut(s)	569
BsmFI	GGGAC	1 cut(s)	412
BsnI	GGCC	2 cut(s)	136, 327
Bsp1286I	GDGCHC	5 cut(s)	172, 294, 707, 727, 733
Bsp13I	TCCGGA	1 cut(s)	556
Bsp143I	GATC	5 cut(s)	253, 259, 305, 340, 905
BspACI	CCGC	3 cut(s)	246, 278, 797
BspANI	GGCC	2 cut(s)	136, 327
BspCNI	CTCAG	2 cut(s)	673, 835
BspEI	TCCGGA	1 cut(s)	556
BspLI	GGNNCC	1 cut(s)	555
BspMI	ACCTGC	1 cut(s)	524
BspPI	GGATC	3 cut(s)	248, 313, 335
BspTI	CTTAAG	1 cut(s)	586
BsrFI	RCCGGY	1 cut(s)	248
BssAI	RCCGGY	1 cut(s)	248
BssECI	CCNNGG	2 cut(s)	273, 387
BssMI	GATC	5 cut(s)	253, 259, 305, 340, 905
BssSI	CACGAG	2 cut(s)	726, 732
BssT1I	CCWWGG	1 cut(s)	387
Bst2BI	CACGAG	2 cut(s)	726, 732
Bst4CI	ACNGT	3 cut(s)	356, 450, 709
Bst6I	CTCTTC	1 cut(s)	567
BstAFI	CTTAAG	1 cut(s)	586
BstBAI	YACGTR	1 cut(s)	542
BstC8I	GCNNGC	1 cut(s)	250
BstDEI	CTNAG	4 cut(s)	131, 681, 816, 843
BstEII	GGTNACC	1 cut(s)	715
BstENI	CCTNNNNNAGG	1 cut(s)	915
BstF5I	GGATG	3 cut(s)	231, 565, 781
BstKTI	GATC	5 cut(s)	256, 262, 308, 343, 908
BstMAI	GTCTC	1 cut(s)	569
BstMBI	GATC	5 cut(s)	253, 259, 305, 340, 905
BstMWI	GCNNNNNNNGC	1 cut(s)	817
BstNSI	RCATGY	1 cut(s)	830
BstPI	GGTNACC	1 cut(s)	715
BstSCI	CCNGG	2 cut(s)	34, 272
BstSLI	GKGCMC	1 cut(s)	172
BstV1I	GCAGC	2 cut(s)	136, 586
BstX2I	RGATCY	2 cut(s)	259, 905
BstYI	RGATCY	2 cut(s)	259, 905
BsuRI	GGCC	2 cut(s)	136, 327
BtsCI	GGATG	3 cut(s)	231, 565, 781
BtsI	GCAGTG	1 cut(s)	798
BtsIMutI	CAGTG	1 cut(s)	798
BveI	ACCTGC	1 cut(s)	524
Cac8I	GCNNGC	1 cut(s)	250
Cfr10I	RCCGGY	1 cut(s)	248
Cfr13I	GGNCC	1 cut(s)	356
Csp6I	GTAC	2 cut(s)	539, 694
CviAII	CATG	1 cut(s)	827
CviQI	GTAC	2 cut(s)	539, 694
DdeI	CTNAG	4 cut(s)	131, 681, 816, 843
DpnI	GATC	5 cut(s)	255, 261, 307, 342, 907
DpnII	GATC	5 cut(s)	253, 259, 305, 340, 905
DrdI	GACNNNNNNGTC	1 cut(s)	359
DseDI	GACNNNNNNGTC	1 cut(s)	359
Eam1104I	CTCTTC	1 cut(s)	567
EarI	CTCTTC	1 cut(s)	567
Ecl136II	GAGCTC	1 cut(s)	725
Eco130I	CCWWGG	1 cut(s)	387
Eco147I	AGGCCT	1 cut(s)	327
Eco24I	GRGCYC	1 cut(s)	727
Eco47I	GGWCC	1 cut(s)	356
Eco53kI	GAGCTC	1 cut(s)	725
Eco57I	CTGAAG	1 cut(s)	357
Eco91I	GGTNACC	1 cut(s)	715
EcoICRI	GAGCTC	1 cut(s)	725
EcoNI	CCTNNNNNAGG	1 cut(s)	915
EcoO65I	GGTNACC	1 cut(s)	715
EcoT14I	CCWWGG	1 cut(s)	387
EcoT38I	GRGCYC	1 cut(s)	727
ErhI	CCWWGG	1 cut(s)	387
FaeI	CATG	1 cut(s)	830
FaqI	GGGAC	1 cut(s)	412
FatI	CATG	1 cut(s)	826
FauNDI	CATATG	1 cut(s)	365
Fnu4HI	GCNGC	3 cut(s)	150, 279, 600
FokI	GGATG	3 cut(s)	218, 572, 788
FriOI	GRGCYC	1 cut(s)	727
Fsp4HI	GCNGC	3 cut(s)	150, 279, 600
FspBI	CTAG	8 cut(s)	12, 174, 323, 350, 393, 698, 893, 903
GluI	GCNGC	3 cut(s)	150, 279, 600
GsuI	CTGGAG	1 cut(s)	621
HaeIII	GGCC	2 cut(s)	136, 327
HapII	CCGG	5 cut(s)	36, 249, 273, 557, 720
Hin1II	CATG	1 cut(s)	830
HindIII	AAGCTT	1 cut(s)	675
HinfI	GANTC	2 cut(s)	296, 754
HpaII	CCGG	5 cut(s)	36, 249, 273, 557, 720
HphI	GGTGA	6 cut(s)	148, 235, 511, 709, 908, 934
Hpy166II	GTNNAC	4 cut(s)	519, 539, 694, 739
Hpy188I	TCNGA	4 cut(s)	310, 340, 682, 753
Hpy188III	TCNNGA	3 cut(s)	257, 557, 914
Hpy8I	GTNNAC	4 cut(s)	519, 539, 694, 739
HpyAV	CCTTC	6 cut(s)	280, 338, 424, 586, 880, 911
HpyCH4III	ACNGT	3 cut(s)	356, 450, 709
HpyCH4IV	ACGT	2 cut(s)	312, 541
HpyF10VI	GCNNNNNNNGC	1 cut(s)	817
HpyF3I	CTNAG	4 cut(s)	131, 681, 816, 843
HpySE526I	ACGT	2 cut(s)	312, 541
Hsp92II	CATG	1 cut(s)	830
Kpn2I	TCCGGA	1 cut(s)	556
KroI	GCCGGC	1 cut(s)	248
KroNI	GCCGGC	1 cut(s)	250
Kzo9I	GATC	5 cut(s)	253, 259, 305, 340, 905
LmnI	GCTCC	2 cut(s)	37, 722
Lsp1109I	GCAGC	2 cut(s)	136, 586
LweI	GCATC	3 cut(s)	192, 510, 766
MaeI	CTAG	8 cut(s)	12, 174, 323, 350, 393, 698, 893, 903
MaeII	ACGT	2 cut(s)	312, 541
MaeIII	GTNAC	3 cut(s)	210, 345, 715
MalI	GATC	5 cut(s)	255, 261, 307, 342, 907
MboI	GATC	5 cut(s)	253, 259, 305, 340, 905
MboII	GAAGA	1 cut(s)	584
MflI	RGATCY	2 cut(s)	259, 905
MhlI	GDGCHC	5 cut(s)	172, 294, 707, 727, 733
MluCI	AATT	1 cut(s)	203
MlyI	GAGTC	1 cut(s)	763
MnlI	CCTC	4 cut(s)	389, 676, 756, 921
MreI	CGCCGGCG	1 cut(s)	248
MroI	TCCGGA	1 cut(s)	556
MroNI	GCCGGC	1 cut(s)	248
MroXI	GAANNNNTTC	2 cut(s)	438, 747
MseI	TTAA	4 cut(s)	21, 107, 587, 771
MslI	CAYNNNNRTG	2 cut(s)	165, 422
MspCI	CTTAAG	1 cut(s)	586
MspI	CCGG	5 cut(s)	36, 249, 273, 557, 720
MspR9I	CCNGG	2 cut(s)	36, 274
MwoI	GCNNNNNNNGC	1 cut(s)	817
NaeI	GCCGGC	1 cut(s)	250
NciI	CCSGG	2 cut(s)	36, 274
NdeI	CATATG	1 cut(s)	365
NdeII	GATC	5 cut(s)	253, 259, 305, 340, 905
NgoMIV	GCCGGC	1 cut(s)	248
NlaIII	CATG	1 cut(s)	830
NlaIV	GGNNCC	1 cut(s)	555
NmuCI	GTSAC	2 cut(s)	210, 715
NspI	RCATGY	1 cut(s)	830
OliI	CACNNNNGTG	1 cut(s)	165
PaqCI	CACCTGC	1 cut(s)	524
PceI	AGGCCT	1 cut(s)	327
PciI	ACATGT	1 cut(s)	826
PdiI	GCCGGC	1 cut(s)	250
PdmI	GAANNNNTTC	2 cut(s)	438, 747
PfeI	GAWTC	1 cut(s)	296
PflFI	GACNNNGTC	1 cut(s)	668
PkrI	GCNGC	3 cut(s)	151, 280, 601
PleI	GAGTC	1 cut(s)	762
PpsI	GAGTC	1 cut(s)	762
Ppu21I	YACGTR	1 cut(s)	542
PscI	ACATGT	1 cut(s)	826
Psp124BI	GAGCTC	1 cut(s)	727
PspEI	GGTNACC	1 cut(s)	715
PspN4I	GGNNCC	1 cut(s)	555
PspPI	GGNCC	1 cut(s)	356
PsuI	RGATCY	2 cut(s)	259, 905
PsyI	GACNNNGTC	1 cut(s)	668
RsaI	GTAC	2 cut(s)	540, 695
RsaNI	GTAC	2 cut(s)	539, 694
RseI	CAYNNNNRTG	2 cut(s)	165, 422
SacI	GAGCTC	1 cut(s)	727
SaqAI	TTAA	4 cut(s)	21, 107, 587, 771
SatI	GCNGC	3 cut(s)	150, 279, 600
Sau3AI	GATC	5 cut(s)	253, 259, 305, 340, 905
Sau96I	GGNCC	1 cut(s)	356
SchI	GAGTC	1 cut(s)	763
ScrFI	CCNGG	2 cut(s)	36, 274
SduI	GDGCHC	5 cut(s)	172, 294, 707, 727, 733
SfaNI	GCATC	3 cut(s)	192, 510, 766
SgrAI	CRCCGGYG	1 cut(s)	248
SinI	GGWCC	1 cut(s)	356
SmiMI	CAYNNNNRTG	2 cut(s)	165, 422
SmlI	CTYRAG	1 cut(s)	586
SmoI	CTYRAG	1 cut(s)	586
Sse9I	AATT	1 cut(s)	203
SseBI	AGGCCT	1 cut(s)	327
SsiI	CCGC	3 cut(s)	246, 278, 797
SspMI	CTAG	8 cut(s)	12, 174, 323, 350, 393, 698, 893, 903
SstI	GAGCTC	1 cut(s)	727
StuI	AGGCCT	1 cut(s)	327
StyD4I	CCNGG	2 cut(s)	34, 272
StyI	CCWWGG	1 cut(s)	387
TaaI	ACNGT	3 cut(s)	356, 450, 709
TaiI	ACGT	2 cut(s)	315, 544
TaqI	TCGA	3 cut(s)	294, 318, 615
TaqII	GACCGA	1 cut(s)	669
TasI	AATT	1 cut(s)	203
TauI	GCSGC	1 cut(s)	281
TfiI	GAWTC	1 cut(s)	296
Tru1I	TTAA	4 cut(s)	21, 107, 587, 771
Tru9I	TTAA	4 cut(s)	21, 107, 587, 771
TscAI	CASTG	1 cut(s)	798
TseFI	GTSAC	2 cut(s)	210, 715
TseI	GCWGC	2 cut(s)	149, 599
Tsp45I	GTSAC	2 cut(s)	210, 715
TspDTI	ATGAA	4 cut(s)	74, 220, 462, 674
TspGWI	ACGGA	1 cut(s)	333
TspRI	CASTG	1 cut(s)	798
Tth111I	GACNNNGTC	1 cut(s)	668
Vha464I	CTTAAG	1 cut(s)	586
VpaK11BI	GGWCC	1 cut(s)	356
XagI	CCTNNNNNAGG	1 cut(s)	915
XceI	RCATGY	1 cut(s)	830
XcmI	CCANNNNNNNNNTGG	2 cut(s)	385, 790
XmnI	GAANNNNTTC	2 cut(s)	438, 747
XspI	CTAG	8 cut(s)	12, 174, 323, 350, 393, 698, 893, 903

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