Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000001

Orthogroup ID

OG0001283

Physical Location & Seq

Genomic Coordinates Reverse (-)

76784664 .. 76790256

Gene Structure 5593 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_1G00055350.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 873 bp

ATGGAATCATCAGCTTTGTTATACAATCAGCTCAAGACAGCAGAACCGTTTTTCTTATTAGCGGGTCCGAATGTGATTGAATCCGAGGAGCACATTTTCCGGATGGCCAAGCACATAAAGACTATTGCGACAAAAGTTGGATTGCCACTGGTGTTCAAGTCAAGCTTTGACAAAGCTAACCGTACATCCTCAAAATCATTCCGGGGCCCTGGCATGGCTGAAGGGTTAAAGATCCTTGAGAAGGTTAAAATAGCTTATGACCTCCCTATAGTTACAGATGTACACGAATCTATACAGTGCGAAGAAGTTGGCAAAGTTGCAGATATCATTCAGATTCCTGCATTTTTATGCCGTCAGACAGATCTTCTAGTTGCAGCAGCCAAGACTGGAAAGATTGTCAATATTAAGAAGGGTCAATTCTGTGCTCCTTCTGTCATGGTAAATTCTGCTGAGAAGATTCGACTGGCAGGAAATCCAAATGTGATGGTTTGTGAGAGGGGAACTATGTTTGGTTATAATGATTTAATTGTTGATCCGCGTAATTTGGAGTGGATCAGAGAAGCTAATTGTCCTGTTGTTGCTGATGTTACACATGCATTGCAACAGCCTGCTGGGAGAAAGTTGGATGACGGAGGTGTTGCCAGTGGTGGTCTTCGTGAATTGATACCATGTATTGCAAGGACAGCAGTTGCTGTTGGGGTGGATGGAATTTTCATGGAGGTACATGATGATCCTTCTAATGCGCCAGTTGATGGTCCAACCCAATGGCCGTTGCGCCATTTGGAGGAACTACTGGTAGAGCTTATTGCAATTGCTAGGGTAAGCAAGGGGAAGCAACGCTTCAACATTGATCTCTCACCCTATCGTGATTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0000271 GO:0000902 GO:0000904 GO:0003006 GO:0003674 GO:0003824 GO:0005975 GO:0005976 GO:0005996 GO:0008150 GO:0008152 GO:0008676 GO:0009058 GO:0009059 GO:0009653 GO:0009664 GO:0009826 GO:0009832 GO:0009856 GO:0009860 GO:0009932 GO:0009987 GO:0010306 GO:0010383 GO:0010393 GO:0010396 GO:0016043 GO:0016049 GO:0016051 GO:0016740 GO:0016765 GO:0017144 GO:0022414 GO:0030154 GO:0032501 GO:0032502 GO:0032989 GO:0033692 GO:0034637 GO:0034645 GO:0040007 GO:0042546 GO:0043170 GO:0044036 GO:0044038 GO:0044085 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044262 GO:0044264 GO:0044281 GO:0044283 GO:0044706 GO:0045229 GO:0045488 GO:0045489 GO:0046364 GO:0048468 GO:0048588 GO:0048589 GO:0048856 GO:0048868 GO:0048869 GO:0051704 GO:0052325 GO:0052546 GO:0060560 GO:0070589 GO:0070592 GO:0071554 GO:0071555 GO:0071669 GO:0071704 GO:0071840 GO:1901576

KEGG Pathways

Metabolic & Signaling

ko00540 ko01100 map00540 map01100

Pfam Domains

Protein Families

DAHP_synth_1

Protein Analysis

290

Amino Acids

31.76

Weight (kDa)

6.61

Isoelectric Point (pI)

29.93

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
DAHP_synth_1	PF00793	15 - 265	1.1e-65	DAHP synthetase I family

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0001283)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G16340 AT1G16340 AT1G16340 AT1G16340 AT1G79500 AT1G79500 AT1G79500 AT1G79500
fragaria_vesca	FvH4_3g14500 FvH4_3g14500
malus_domestica	MD05G1236400.v1.1 MD10G1213400.v1.1
prunus_persica	Prupe.4G129800_v2.0.a1
pyrus_communis	pycom05g21340 pycom10g18020
rosa_chinensis	RchiOBHm_Chr2g0110821 RchiOBHm_Chr5g0023881 RchiOBHm_Chr5g0042561 RchiOBHm_Chr6g0274781
rosa_laevigata	RLG00000018663 RLG00000032744
rosa_multiflora	Rmu_co8249761.1_g000001 Rmu_ssc0000027.1_g000002
rosa_roxburghii	Rroxscaffold_1G00055350 Rroxscaffold_2G00121930 Rroxscaffold_5G00352330
rosa_rugosa	Rorug05G0080000 Rorug05G0080000 Rorug06G0026900
rosa_samantha	Rh1AG097200 Rh1AG097300 Rh2BG270300 Rh2BG304100 Rh2CG282400 Rh4BG085300 Rh4CG199500 Rh4DG214900 Rh4DG223600 Rh5AG170100 Rh5AG377700 Rh5BG167400 Rh5BG226400 Rh5BG292100 Rh5BG528700 Rh5CG182900 Rh5CG230300 Rh5CG252700 Rh5CG553200 Rh5DG169400 Rh5DG383700 Rh6DG195400
rosa_wichuraiana	Rw0G008480 Rw0G009290 Rw4G015290 Rw5G015380

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	516
AccB7I	CCANNNNNTGG	1 cut(s)	752
AccII	CGCG	1 cut(s)	538
AccIII	TCCGGA	1 cut(s)	99
AciI	CCGC	2 cut(s)	62, 536
AclWI	GGATC	4 cut(s)	226, 527, 560, 725
AcoI	YGGCCR	2 cut(s)	105, 767
AcsI	RAATTY	2 cut(s)	442, 708
AcuI	CTGAAG	1 cut(s)	240
AfaI	GTAC	3 cut(s)	184, 282, 723
AfiI	CCNNNNNNNGG	4 cut(s)	214, 241, 752, 784
AgsI	TTSAA	3 cut(s)	80, 157, 844
AjnI	CCWGG	1 cut(s)	208
AluBI	AGCT	7 cut(s)	14, 31, 165, 176, 254, 563, 802
AluI	AGCT	7 cut(s)	14, 31, 165, 176, 254, 563, 802
Alw21I	GWGCWC	2 cut(s)	93, 427
AlwI	GGATC	4 cut(s)	226, 527, 560, 725
AlwNI	CAGNNNCTG	1 cut(s)	692
Aor13HI	TCCGGA	1 cut(s)	99
AoxI	GGCC	3 cut(s)	105, 205, 767
ApaI	GGGCCC	1 cut(s)	209
ApeKI	GCWGC	2 cut(s)	374, 377
ApoI	RAATTY	2 cut(s)	442, 708
AspLEI	GCGC	2 cut(s)	745, 777
AspS9I	GGNCC	4 cut(s)	65, 205, 206, 755
AsuC2I	CCSGG	1 cut(s)	203
AsuHPI	GGTGA	1 cut(s)	849
AvaII	GGWCC	2 cut(s)	65, 755
BaeGI	GKGCMC	1 cut(s)	209
BalI	TGGCCA	1 cut(s)	107
BanII	GRGCYC	1 cut(s)	209
BbsI	GAAGAC	1 cut(s)	644
Bbv12I	GWGCWC	2 cut(s)	93, 427
BbvI	GCAGC	2 cut(s)	386, 389
BccI	CCATC	4 cut(s)	97, 478, 698, 746
BceAI	ACGGC	2 cut(s)	336, 754
BciT130I	CCWGG	1 cut(s)	210
BcnI	CCSGG	1 cut(s)	203
BfaI	CTAG	2 cut(s)	368, 816
BfmI	CTRYAG	1 cut(s)	267
BglII	AGATCT	1 cut(s)	361
BisI	GCNGC	2 cut(s)	375, 378
BlsI	GCNGC	2 cut(s)	376, 379
Bme1390I	CCNGG	2 cut(s)	203, 210
Bme18I	GGWCC	2 cut(s)	65, 755
BmgT120I	GGNCC	4 cut(s)	65, 205, 206, 755
BmiI	GGNNCC	3 cut(s)	66, 206, 207
BmrFI	CCNGG	2 cut(s)	203, 210
BpiI	GAAGAC	1 cut(s)	644
BpuEI	CTTGAG	2 cut(s)	17, 257
BpuMI	CCSGG	1 cut(s)	203
BsaJI	CCNNGG	3 cut(s)	84, 202, 208
BsaWI	WCCGGW	1 cut(s)	99
Bsc4I	CCNNNNNNNGG	4 cut(s)	214, 241, 752, 784
Bse1I	ACTGG	6 cut(s)	153, 391, 468, 642, 746, 798
Bse3DI	GCAATG	1 cut(s)	596
BseAI	TCCGGA	1 cut(s)	99
BseBI	CCWGG	1 cut(s)	210
BseDI	CCNNGG	3 cut(s)	84, 202, 208
BseGI	GGATG	4 cut(s)	108, 185, 631, 709
BseLI	CCNNNNNNNGG	4 cut(s)	214, 241, 752, 784
BseMI	GCAATG	1 cut(s)	596
BseMII	CTCAG	1 cut(s)	441
BseNI	ACTGG	6 cut(s)	153, 391, 468, 642, 746, 798
BseRI	GAGGAG	1 cut(s)	101
BseSI	GKGCMC	1 cut(s)	209
BseXI	GCAGC	2 cut(s)	386, 389
BseYI	CCCAGC	1 cut(s)	611
Bsh1236I	CGCG	1 cut(s)	538
BshFI	GGCC	3 cut(s)	107, 207, 769
BsiHKAI	GWGCWC	2 cut(s)	93, 427
BsiSI	CCGG	2 cut(s)	100, 202
BslI	CCNNNNNNNGG	4 cut(s)	214, 241, 752, 784
BsnI	GGCC	3 cut(s)	107, 207, 769
Bsp120I	GGGCCC	1 cut(s)	205
Bsp1286I	GDGCHC	3 cut(s)	93, 209, 427
Bsp13I	TCCGGA	1 cut(s)	99
Bsp1407I	TGTACA	1 cut(s)	280
Bsp143I	GATC	6 cut(s)	231, 361, 532, 552, 730, 850
BspACI	CCGC	2 cut(s)	62, 536
BspANI	GGCC	3 cut(s)	107, 207, 769
BspCNI	CTCAG	1 cut(s)	442
BspEI	TCCGGA	1 cut(s)	99
BspFNI	CGCG	1 cut(s)	538
BspLI	GGNNCC	3 cut(s)	66, 206, 207
BspPI	GGATC	4 cut(s)	226, 527, 560, 725
BsrDI	GCAATG	1 cut(s)	596
BsrGI	TGTACA	1 cut(s)	280
BsrI	ACTGG	6 cut(s)	153, 391, 468, 642, 746, 798
BssECI	CCNNGG	3 cut(s)	84, 202, 208
BssMI	GATC	6 cut(s)	231, 361, 532, 552, 730, 850
Bst2UI	CCWGG	1 cut(s)	210
Bst4CI	ACNGT	3 cut(s)	48, 182, 297
BstAUI	TGTACA	1 cut(s)	280
BstC8I	GCNNGC	1 cut(s)	609
BstDEI	CTNAG	1 cut(s)	450
BstENI	CCTNNNNNAGG	1 cut(s)	239
BstF5I	GGATG	4 cut(s)	108, 185, 631, 709
BstFNI	CGCG	1 cut(s)	538
BstHHI	GCGC	2 cut(s)	745, 777
BstKTI	GATC	6 cut(s)	234, 364, 535, 555, 733, 853
BstMBI	GATC	6 cut(s)	231, 361, 532, 552, 730, 850
BstMWI	GCNNNNNNNGC	1 cut(s)	683
BstNI	CCWGG	1 cut(s)	210
BstNSI	RCATGY	1 cut(s)	596
BstSCI	CCNGG	2 cut(s)	201, 208
BstSFI	CTRYAG	1 cut(s)	267
BstSLI	GKGCMC	1 cut(s)	209
BstUI	CGCG	1 cut(s)	538
BstV1I	GCAGC	2 cut(s)	386, 389
BstV2I	GAAGAC	1 cut(s)	644
BstX2I	RGATCY	2 cut(s)	231, 361
BstXI	CCANNNNNNTGG	1 cut(s)	765
BstYI	RGATCY	2 cut(s)	231, 361
BsuRI	GGCC	3 cut(s)	107, 207, 769
BtsCI	GGATG	4 cut(s)	108, 185, 631, 709
BtsIMutI	CAGTG	3 cut(s)	146, 302, 649
Cac8I	GCNNGC	1 cut(s)	609
CaiI	CAGNNNCTG	1 cut(s)	692
CfoI	GCGC	2 cut(s)	745, 777
Cfr13I	GGNCC	4 cut(s)	65, 205, 206, 755
Csp6I	GTAC	3 cut(s)	183, 281, 722
CviAII	CATG	6 cut(s)	214, 436, 593, 669, 715, 725
CviQI	GTAC	3 cut(s)	183, 281, 722
DdeI	CTNAG	1 cut(s)	450
DpnI	GATC	6 cut(s)	233, 363, 534, 554, 732, 852
DpnII	GATC	6 cut(s)	231, 361, 532, 552, 730, 850
EaeI	YGGCCR	2 cut(s)	105, 767
Eco24I	GRGCYC	1 cut(s)	209
Eco32I	GATATC	1 cut(s)	325
Eco47I	GGWCC	2 cut(s)	65, 755
Eco57I	CTGAAG	1 cut(s)	240
EcoNI	CCTNNNNNAGG	1 cut(s)	239
EcoO109I	RGGNCCY	2 cut(s)	205, 206
EcoRII	CCWGG	1 cut(s)	208
EcoRV	GATATC	1 cut(s)	325
EcoT22I	ATGCAT	1 cut(s)	598
EcoT38I	GRGCYC	1 cut(s)	209
FaeI	CATG	6 cut(s)	217, 439, 596, 672, 718, 728
FalI	AAGNNNNNCTT	4 cut(s)	149, 181, 824, 856
FatI	CATG	6 cut(s)	213, 435, 592, 668, 714, 724
FauI	CCCGC	1 cut(s)	55
Fnu4HI	GCNGC	2 cut(s)	375, 378
FokI	GGATG	4 cut(s)	115, 172, 638, 716
FriOI	GRGCYC	1 cut(s)	209
Fsp4HI	GCNGC	2 cut(s)	375, 378
FspBI	CTAG	2 cut(s)	368, 816
GlaI	GCGC	2 cut(s)	744, 776
GluI	GCNGC	2 cut(s)	375, 378
GsaI	CCCAGC	1 cut(s)	615
HaeIII	GGCC	3 cut(s)	107, 207, 769
HapII	CCGG	2 cut(s)	100, 202
HhaI	GCGC	2 cut(s)	745, 777
Hin1II	CATG	6 cut(s)	217, 439, 596, 672, 718, 728
Hin6I	GCGC	2 cut(s)	743, 775
HinP1I	GCGC	2 cut(s)	743, 775
HindIII	AAGCTT	1 cut(s)	163
HinfI	GANTC	5 cut(s)	5, 80, 287, 334, 457
HpaII	CCGG	2 cut(s)	100, 202
HphI	GGTGA	1 cut(s)	849
Hpy166II	GTNNAC	1 cut(s)	283
Hpy188I	TCNGA	5 cut(s)	69, 85, 333, 357, 557
Hpy188III	TCNNGA	4 cut(s)	34, 100, 656, 866
Hpy8I	GTNNAC	1 cut(s)	283
HpyAV	CCTTC	5 cut(s)	215, 235, 403, 438, 744
HpyCH4III	ACNGT	3 cut(s)	48, 182, 297
HpyCH4V	TGCA	7 cut(s)	320, 341, 374, 596, 601, 677, 809
HpyF10VI	GCNNNNNNNGC	1 cut(s)	683
HpyF3I	CTNAG	1 cut(s)	450
Hsp92II	CATG	6 cut(s)	217, 439, 596, 672, 718, 728
HspAI	GCGC	2 cut(s)	743, 775
Kpn2I	TCCGGA	1 cut(s)	99
Kzo9I	GATC	6 cut(s)	231, 361, 532, 552, 730, 850
LmnI	GCTCC	2 cut(s)	88, 430
Lsp1109I	GCAGC	2 cut(s)	386, 389
MaeI	CTAG	2 cut(s)	368, 816
MaeIII	GTNAC	2 cut(s)	271, 586
MalI	GATC	6 cut(s)	233, 363, 534, 554, 732, 852
MboI	GATC	6 cut(s)	231, 361, 532, 552, 730, 850
MboII	GAAGA	4 cut(s)	314, 356, 466, 644
MfeI	CAATTG	1 cut(s)	810
MflI	RGATCY	2 cut(s)	231, 361
MhlI	GDGCHC	3 cut(s)	93, 209, 427
MlsI	TGGCCA	1 cut(s)	107
MluCI	AATT	8 cut(s)	416, 442, 525, 541, 565, 659, 708, 810
MluNI	TGGCCA	1 cut(s)	107
MmeI	TCCRAC	3 cut(s)	118, 603, 782
MnlI	CCTC	7 cut(s)	79, 199, 272, 489, 626, 712, 778
Mox20I	TGGCCA	1 cut(s)	107
Mph1103I	ATGCAT	1 cut(s)	598
MroI	TCCGGA	1 cut(s)	99
MscI	TGGCCA	1 cut(s)	107
MseI	TTAA	4 cut(s)	227, 246, 405, 524
MslI	CAYNNNNRTG	1 cut(s)	346
Msp20I	TGGCCA	1 cut(s)	107
MspI	CCGG	2 cut(s)	100, 202
MspR9I	CCNGG	2 cut(s)	203, 210
MunI	CAATTG	1 cut(s)	810
MvaI	CCWGG	1 cut(s)	210
MvnI	CGCG	1 cut(s)	538
MwoI	GCNNNNNNNGC	1 cut(s)	683
NciI	CCSGG	1 cut(s)	203
NdeII	GATC	6 cut(s)	231, 361, 532, 552, 730, 850
NlaIII	CATG	6 cut(s)	217, 439, 596, 672, 718, 728
NlaIV	GGNNCC	3 cut(s)	66, 206, 207
NsiI	ATGCAT	1 cut(s)	598
NspI	RCATGY	1 cut(s)	596
PfeI	GAWTC	5 cut(s)	5, 80, 287, 334, 457
PflMI	CCANNNNNTGG	1 cut(s)	752
PkrI	GCNGC	2 cut(s)	376, 379
PsiI	TTATAA	1 cut(s)	516
Psp6I	CCWGG	1 cut(s)	208
PspFI	CCCAGC	1 cut(s)	611
PspGI	CCWGG	1 cut(s)	208
PspN4I	GGNNCC	3 cut(s)	66, 206, 207
PspOMI	GGGCCC	1 cut(s)	205
PspPI	GGNCC	4 cut(s)	65, 205, 206, 755
PstNI	CAGNNNCTG	1 cut(s)	692
PsuI	RGATCY	2 cut(s)	231, 361
RsaI	GTAC	3 cut(s)	184, 282, 723
RsaNI	GTAC	3 cut(s)	183, 281, 722
RseI	CAYNNNNRTG	1 cut(s)	346
SaqAI	TTAA	4 cut(s)	227, 246, 405, 524
SatI	GCNGC	2 cut(s)	375, 378
Sau3AI	GATC	6 cut(s)	231, 361, 532, 552, 730, 850
Sau96I	GGNCC	4 cut(s)	65, 205, 206, 755
ScrFI	CCNGG	2 cut(s)	203, 210
SduI	GDGCHC	3 cut(s)	93, 209, 427
SfcI	CTRYAG	1 cut(s)	267
SinI	GGWCC	2 cut(s)	65, 755
SmiMI	CAYNNNNRTG	1 cut(s)	346
SmlI	CTYRAG	2 cut(s)	32, 236
SmoI	CTYRAG	2 cut(s)	32, 236
Sse9I	AATT	8 cut(s)	416, 442, 525, 541, 565, 659, 708, 810
SsiI	CCGC	2 cut(s)	62, 536
SspI	AATATT	1 cut(s)	403
SspMI	CTAG	2 cut(s)	368, 816
StyD4I	CCNGG	2 cut(s)	201, 208
TaaI	ACNGT	3 cut(s)	48, 182, 297
TaqI	TCGA	1 cut(s)	460
TasI	AATT	8 cut(s)	416, 442, 525, 541, 565, 659, 708, 810
TatI	WGTACW	1 cut(s)	280
TfiI	GAWTC	5 cut(s)	5, 80, 287, 334, 457
Tru1I	TTAA	4 cut(s)	227, 246, 405, 524
Tru9I	TTAA	4 cut(s)	227, 246, 405, 524
TscAI	CASTG	3 cut(s)	153, 302, 649
TseI	GCWGC	2 cut(s)	374, 377
TspDTI	ATGAA	1 cut(s)	703
TspGWI	ACGGA	1 cut(s)	645
TspRI	CASTG	3 cut(s)	153, 302, 649
Van91I	CCANNNNNTGG	1 cut(s)	752
VpaK11BI	GGWCC	2 cut(s)	65, 755
XagI	CCTNNNNNAGG	1 cut(s)	239
XapI	RAATTY	2 cut(s)	442, 708
XceI	RCATGY	1 cut(s)	596
XspI	CTAG	2 cut(s)	368, 816
Zsp2I	ATGCAT	1 cut(s)	598

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