Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1D

Orthogroup ID

OG0002070

Physical Location & Seq

Genomic Coordinates Reverse (-)

13430243 .. 13431241

Gene Structure 999 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1DG073600.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 594 bp

ATGGCTGCTCTCACCACCACTACCCCTAACAGAATCTTAGAAATTTTCACAAAATTGAAGTCACAATGGAAAGTGGCATTTATCCCCTACATCACCGCTGGAGATCCTGATCTCTCGACTACCGCAGAAGCATTGAAGGTGCTCAATTCTTGTGGATCGGACATAATCGAACTAGGGGTGCCCTACTCCTATCCATTACTAGACGGTCCCGTCATACGTGATTCAGCTACTCGTTCCTTGGCTAGAGGGACAAACTTGAACAAGGTTATCTCAATGTTGAAGGAGGTTATTCCACAGTTGTCTTGCCCTATCACTCTGATGTCCTACTCTAACCCTATTATCAATCATGGCATCGTAAACTTCATGTTGAACATTAGTGAAGCAGGCATAAGTGGGCTTGTGGTTCCGGATGTTCCTTTTGAAGAGACACAACTGTTGAGAATGGAAGCTGCGAAGAATGACATTGAGTTGGTGCTGCTAACCACACCCACTACTGCAAGAGATCGCATGAAAGACATTGTCCAAGCTTCGGAGGGATTTGTGTACCTGGTGAGCACGGTGGGGGTTACGTTACTGGAGCTCGTGAGCCTGTGA

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

197

Amino Acids

21.42

Weight (kDa)

4.89

Isoelectric Point (pI)

31.34

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Trp_syntA	PF00290	16 - 190	1.6e-62	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)
AasI	GACNNNNNNGTC	1 cut(s)	209
AccB1I	GGYRCC	1 cut(s)	178
AccIII	TCCGGA	1 cut(s)	406
AciI	CCGC	2 cut(s)	96, 123
AclWI	GGATC	2 cut(s)	98, 163
AcsI	RAATTY	1 cut(s)	42
AfaI	GTAC	1 cut(s)	545
AfiI	CCNNNNNNNGG	1 cut(s)	529
AgsI	TTSAA	6 cut(s)	58, 136, 259, 280, 370, 422
AjnI	CCWGG	1 cut(s)	546
AluBI	AGCT	4 cut(s)	227, 449, 527, 580
AluI	AGCT	4 cut(s)	227, 449, 527, 580
Alw21I	GWGCWC	3 cut(s)	144, 557, 582
Alw26I	GTCTC	1 cut(s)	419
AlwI	GGATC	2 cut(s)	98, 163
Aor13HI	TCCGGA	1 cut(s)	406
ApeKI	GCWGC	3 cut(s)	5, 449, 475
ApoI	RAATTY	1 cut(s)	42
ArsI	GACNNNNNNTTYG	2 cut(s)	44, 76
AspS9I	GGNCC	1 cut(s)	206
AsuHPI	GGTGA	3 cut(s)	4, 85, 562
AvaII	GGWCC	1 cut(s)	206
BaeGI	GKGCMC	1 cut(s)	183
BanI	GGYRCC	1 cut(s)	178
BanII	GRGCYC	1 cut(s)	582
BauI	CACGAG	1 cut(s)	581
Bbv12I	GWGCWC	3 cut(s)	144, 557, 582
BbvI	GCAGC	2 cut(s)	436, 462
BciT130I	CCWGG	1 cut(s)	548
BcoDI	GTCTC	1 cut(s)	419
BfaI	CTAG	3 cut(s)	173, 200, 243
BisI	GCNGC	3 cut(s)	6, 450, 476
BlsI	GCNGC	3 cut(s)	7, 451, 477
Bme1390I	CCNGG	1 cut(s)	548
Bme18I	GGWCC	1 cut(s)	206
BmgT120I	GGNCC	1 cut(s)	206
BmiI	GGNNCC	3 cut(s)	180, 208, 405
BmrFI	CCNGG	1 cut(s)	548
BmsI	GCATC	1 cut(s)	360
BpmI	CTGGAG	1 cut(s)	120
BsaAI	YACGTR	1 cut(s)	218
BsaBI	GATNNNNATC	1 cut(s)	108
BsaJI	CCNNGG	1 cut(s)	237
BsaWI	WCCGGW	1 cut(s)	406
Bsc4I	CCNNNNNNNGG	1 cut(s)	529
Bse1I	ACTGG	1 cut(s)	579
Bse8I	GATNNNNATC	1 cut(s)	108
BseAI	TCCGGA	1 cut(s)	406
BseBI	CCWGG	1 cut(s)	548
BseDI	CCNNGG	1 cut(s)	237
BseGI	GGATG	1 cut(s)	415
BseJI	GATNNNNATC	1 cut(s)	108
BseLI	CCNNNNNNNGG	1 cut(s)	529
BseNI	ACTGG	1 cut(s)	579
BseSI	GKGCMC	1 cut(s)	183
BseXI	GCAGC	2 cut(s)	436, 462
BshNI	GGYRCC	1 cut(s)	178
BsiHKAI	GWGCWC	3 cut(s)	144, 557, 582
BsiSI	CCGG	1 cut(s)	407
BslFI	GGGAC	2 cut(s)	192, 262
BslI	CCNNNNNNNGG	1 cut(s)	529
BsmAI	GTCTC	1 cut(s)	419
BsmFI	GGGAC	2 cut(s)	192, 262
Bsp1286I	GDGCHC	4 cut(s)	144, 183, 557, 582
Bsp13I	TCCGGA	1 cut(s)	406
Bsp143I	GATC	4 cut(s)	103, 109, 155, 502
BspACI	CCGC	2 cut(s)	96, 123
BspEI	TCCGGA	1 cut(s)	406
BspLI	GGNNCC	3 cut(s)	180, 208, 405
BspPI	GGATC	2 cut(s)	98, 163
BspT107I	GGYRCC	1 cut(s)	178
BsrI	ACTGG	1 cut(s)	579
BssECI	CCNNGG	1 cut(s)	237
BssMI	GATC	4 cut(s)	103, 109, 155, 502
BssSI	CACGAG	1 cut(s)	581
BssT1I	CCWWGG	1 cut(s)	237
Bst2BI	CACGAG	1 cut(s)	581
Bst2UI	CCWGG	1 cut(s)	548
Bst4CI	ACNGT	4 cut(s)	206, 297, 435, 559
Bst6I	CTCTTC	1 cut(s)	417
BstBAI	YACGTR	1 cut(s)	218
BstC8I	GCNNGC	1 cut(s)	385
BstDEI	CTNAG	1 cut(s)	37
BstF5I	GGATG	1 cut(s)	415
BstKTI	GATC	4 cut(s)	106, 112, 158, 505
BstMAI	GTCTC	1 cut(s)	419
BstMBI	GATC	4 cut(s)	103, 109, 155, 502
BstNI	CCWGG	1 cut(s)	548
BstSCI	CCNGG	1 cut(s)	546
BstSLI	GKGCMC	1 cut(s)	183
BstV1I	GCAGC	2 cut(s)	436, 462
BstX2I	RGATCY	1 cut(s)	103
BstYI	RGATCY	1 cut(s)	103
BtsCI	GGATG	1 cut(s)	415
Cac8I	GCNNGC	1 cut(s)	385
Cfr13I	GGNCC	1 cut(s)	206
CsiI	ACCWGGT	1 cut(s)	546
Csp6I	GTAC	1 cut(s)	544
CspCI	CAANNNNNGTGG	2 cut(s)	133, 168
CviAII	CATG	3 cut(s)	347, 364, 508
CviJI	RGCY	8 cut(s)	5, 227, 242, 397, 449, 527, 580, 588
CviKI_1	RGCY	8 cut(s)	5, 227, 242, 397, 449, 527, 580, 588
CviQI	GTAC	1 cut(s)	544
DdeI	CTNAG	1 cut(s)	37
DpnI	GATC	4 cut(s)	105, 111, 157, 504
DpnII	GATC	4 cut(s)	103, 109, 155, 502
DrdI	GACNNNNNNGTC	1 cut(s)	209
DseDI	GACNNNNNNGTC	1 cut(s)	209
Eam1104I	CTCTTC	1 cut(s)	417
EarI	CTCTTC	1 cut(s)	417
Ecl136II	GAGCTC	1 cut(s)	580
Eco130I	CCWWGG	1 cut(s)	237
Eco24I	GRGCYC	1 cut(s)	582
Eco47I	GGWCC	1 cut(s)	206
Eco53kI	GAGCTC	1 cut(s)	580
EcoICRI	GAGCTC	1 cut(s)	580
EcoRII	CCWGG	1 cut(s)	546
EcoT14I	CCWWGG	1 cut(s)	237
EcoT38I	GRGCYC	1 cut(s)	582
ErhI	CCWWGG	1 cut(s)	237
FaeI	CATG	3 cut(s)	350, 367, 511
FaiI	YATR	6 cut(s)	164, 215, 348, 365, 389, 509
FaqI	GGGAC	2 cut(s)	192, 262
FatI	CATG	3 cut(s)	346, 363, 507
Fnu4HI	GCNGC	3 cut(s)	6, 450, 476
FokI	GGATG	1 cut(s)	422
FriOI	GRGCYC	1 cut(s)	582
Fsp4HI	GCNGC	3 cut(s)	6, 450, 476
FspBI	CTAG	3 cut(s)	173, 200, 243
GluI	GCNGC	3 cut(s)	6, 450, 476
GsuI	CTGGAG	1 cut(s)	120
HapII	CCGG	1 cut(s)	407
Hin1II	CATG	3 cut(s)	350, 367, 511
HindIII	AAGCTT	1 cut(s)	525
HinfI	GANTC	2 cut(s)	33, 221
HpaII	CCGG	1 cut(s)	407
HphI	GGTGA	3 cut(s)	4, 85, 562
Hpy166II	GTNNAC	2 cut(s)	358, 544
Hpy188I	TCNGA	3 cut(s)	160, 318, 532
Hpy188III	TCNNGA	4 cut(s)	107, 115, 407, 583
Hpy8I	GTNNAC	2 cut(s)	358, 544
HpyAV	CCTTC	2 cut(s)	130, 274
HpyCH4III	ACNGT	4 cut(s)	206, 297, 435, 559
HpyCH4IV	ACGT	2 cut(s)	217, 569
HpyCH4V	TGCA	1 cut(s)	497
HpyF3I	CTNAG	1 cut(s)	37
HpySE526I	ACGT	2 cut(s)	217, 569
Hsp92II	CATG	3 cut(s)	350, 367, 511
Kpn2I	TCCGGA	1 cut(s)	406
Kzo9I	GATC	4 cut(s)	103, 109, 155, 502
LmnI	GCTCC	1 cut(s)	577
LpnPI	CCDG	7 cut(s)	84, 120, 369, 420, 533, 560, 560
Lsp1109I	GCAGC	2 cut(s)	436, 462
LweI	GCATC	1 cut(s)	360
MabI	ACCWGGT	1 cut(s)	546
MaeI	CTAG	3 cut(s)	173, 200, 243
MaeII	ACGT	2 cut(s)	217, 569
MaeIII	GTNAC	3 cut(s)	60, 565, 570
MalI	GATC	4 cut(s)	105, 111, 157, 504
MboI	GATC	4 cut(s)	103, 109, 155, 502
MboII	GAAGA	2 cut(s)	434, 466
MflI	RGATCY	1 cut(s)	103
MhlI	GDGCHC	4 cut(s)	144, 183, 557, 582
MluCI	AATT	3 cut(s)	42, 53, 145
MnlI	CCTC	3 cut(s)	239, 277, 526
MroI	TCCGGA	1 cut(s)	406
MslI	CAYNNNNRTG	1 cut(s)	317
MspA1I	CMGCKG	1 cut(s)	98
MspI	CCGG	1 cut(s)	407
MspR9I	CCNGG	1 cut(s)	548
MvaI	CCWGG	1 cut(s)	548
NdeII	GATC	4 cut(s)	103, 109, 155, 502
NlaIII	CATG	3 cut(s)	350, 367, 511
NlaIV	GGNNCC	3 cut(s)	180, 208, 405
NmuCI	GTSAC	1 cut(s)	60
PfeI	GAWTC	2 cut(s)	33, 221
PflFI	GACNNNGTC	1 cut(s)	518
PkrI	GCNGC	3 cut(s)	7, 451, 477
Ppu21I	YACGTR	1 cut(s)	218
Psp124BI	GAGCTC	1 cut(s)	582
Psp6I	CCWGG	1 cut(s)	546
PspGI	CCWGG	1 cut(s)	546
PspN4I	GGNNCC	3 cut(s)	180, 208, 405
PspPI	GGNCC	1 cut(s)	206
PsuI	RGATCY	1 cut(s)	103
PsyI	GACNNNGTC	1 cut(s)	518
RsaI	GTAC	1 cut(s)	545
RsaNI	GTAC	1 cut(s)	544
RseI	CAYNNNNRTG	1 cut(s)	317
SacI	GAGCTC	1 cut(s)	582
SatI	GCNGC	3 cut(s)	6, 450, 476
Sau3AI	GATC	4 cut(s)	103, 109, 155, 502
Sau96I	GGNCC	1 cut(s)	206
ScrFI	CCNGG	1 cut(s)	548
SduI	GDGCHC	4 cut(s)	144, 183, 557, 582
SexAI	ACCWGGT	1 cut(s)	546
SfaNI	GCATC	1 cut(s)	360
SinI	GGWCC	1 cut(s)	206
SmiMI	CAYNNNNRTG	1 cut(s)	317
Sse9I	AATT	3 cut(s)	42, 53, 145
SsiI	CCGC	2 cut(s)	96, 123
SspMI	CTAG	3 cut(s)	173, 200, 243
SstI	GAGCTC	1 cut(s)	582
StyD4I	CCNGG	1 cut(s)	546
StyI	CCWWGG	1 cut(s)	237
TaaI	ACNGT	4 cut(s)	206, 297, 435, 559
TaiI	ACGT	2 cut(s)	220, 572
TaqI	TCGA	2 cut(s)	116, 168
TasI	AATT	3 cut(s)	42, 53, 145
TfiI	GAWTC	2 cut(s)	33, 221
TseFI	GTSAC	1 cut(s)	60
TseI	GCWGC	3 cut(s)	5, 449, 475
Tsp45I	GTSAC	1 cut(s)	60
TspDTI	ATGAA	2 cut(s)	352, 524
Tth111I	GACNNNGTC	1 cut(s)	518
VpaK11BI	GGWCC	1 cut(s)	206
XapI	RAATTY	1 cut(s)	42
XspI	CTAG	3 cut(s)	173, 200, 243

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