Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3A

Orthogroup ID

OG0002070

Physical Location & Seq

Genomic Coordinates Forward (+)

9574951 .. 9578402

Gene Structure 3452 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3AG113000.1

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

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Publication-ready

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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.