Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4A

Orthogroup ID

OG0000901

Physical Location & Seq

Genomic Coordinates Forward (+)

26029631 .. 26030665

Gene Structure 1035 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4AG120600.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 645 bp

ATGAGAGGAATGATGGGTGGTTCTGGGGCATGTCTGTTTGAAGAACTTGGACTACACTATATTGGTCCTGTGGATGGTCATAATGTCGAAGACCTTGTCTACATTTTGAACAACATCAAATCCTTACCAGAACCAGGGCTTGTTCTGATTCATGTCATCACTGAGAAAGGAAAAAGCTATGCTCCAGCTGAAGTTTCCCCTGATAAGATGCATGAAACAATCCCAGACAGATGTTTCGATGTTGGGATAGCAGAACAGCATGCTATAACCTTTGCTGCTGGCCTAGCTGCAGAAGGCCTTAAACCTCTTTGTGCTATTTACTCTTCGTTTCTTCAGAGTGGTGATGATCAGGTGGCTCATGATGTAGACTTACAAAAGCTCCCAGTGAGATTTGCTATAGATAGGGCTGGTCTTGTAGGTGCAGATGGTCCAACACATTGCGGAGCCTTTGGTACAACTTTCATGGCTTGTTTACCTAATATGGTGGTCATGGCCCCTTCTTCTGAGACTGAACTTATGCACTTGGTTTCCACGGCTTCTGCCATAGATGATAGGCCTAGTTGCTTCCGATATCATAGAGGAAACGGCATTGGATCAATTCTTCCACCAGACAACAAAGGAACCCCATTGGAGGTAAATCATTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

ko00730 ko00900 ko01100 ko01110 ko01130 map00730 map00900 map01100 map01110 map01130

Pfam Domains

Protein Families

DXP_synthase_N Transket_pyr Transketolase_C

Protein Analysis

214

Amino Acids

22.84

Weight (kDa)

5.12

Isoelectric Point (pI)

51.9

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
DXP_synthase_N	PF13292	10 - 54	4e-11	1-deoxy-D-xylulose-5-phosphate synthase
Transket_pyr	PF02779	69 - 195	2.8e-35	Transketolase, pyrimidine binding domain

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)

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Publication-ready

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

Orthologous Genes (Group: OG0000901)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G21500 AT3G21500 AT3G21500 AT4G15560
fragaria_vesca	FvH4_1g19340 FvH4_1g19340 FvH4_1g19340 FvH4_1g19340 FvH4_4g16950 FvH4_4g16950 FvH4_4g16950
malus_domestica	MD01G1041300.v1.1 MD13G1175400.v1.1 MD15G1309900.v1.1 MD16G1177200.v1.1
prunus_persica	Prupe.1G144100_v2.0.a1 Prupe.1G144100_v2.0.a1 Prupe.1G144100_v2.0.a1 Prupe.1G472400_v2.0.a1 Prupe.1G472400_v2.0.a1 Prupe.6G204700_v2.0.a1
pyrus_communis	pycom01g06900 pycom01g06910 pycom04g12340 pycom13g15130 pycom15g10740 pycom15g27390 pycom16g14880
rosa_chinensis	RchiOBHm_Chr2g0110711 RchiOBHm_Chr4g0403671 RchiOBHm_Chr4g0403701 RchiOBHm_Chr4g0420531
rosa_laevigata	RLG00000007753 RLG00000008956 RLG00000008960 RLG00000017835
rosa_multiflora	Rmu_co8068784.1_g000001 Rmu_sc0000389.1_g000047 Rmu_sc0001496.1_g000014 Rmu_sc0002248.1_g000052 Rmu_sc0004115.1_g000015
rosa_roxburghii	Rroxscaffold_2G00133000 Rroxscaffold_5G00348270 Rroxscaffold_5G00348360 Rroxscaffold_5G00363150
rosa_rugosa	Rorug02G0169200 Rorug04G0045300 Rorug04G0164800
rosa_samantha	Rh2BG231400 Rh2CG223700 Rh2DG227600 Rh4AG120600 Rh4AG120700 Rh4BG113400 Rh4BG113500 Rh4BG113700 Rh4BG113800 Rh4BG229100 Rh4CG129000 Rh4DG112700 Rh4DG113600
rosa_wichuraiana	Rw2G017080 Rw4G009750 Rw4G009820 Rw4G019540

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccI	GTMKAC	2 cut(s)	99, 366
AciI	CCGC	1 cut(s)	441
AclWI	GGATC	1 cut(s)	601
AcuI	CTGAAG	2 cut(s)	210, 317
AfaI	GTAC	1 cut(s)	454
AfiI	CCNNNNNNNGG	3 cut(s)	74, 134, 631
AgsI	TTSAA	2 cut(s)	41, 109
AjnI	CCWGG	1 cut(s)	133
AluBI	AGCT	4 cut(s)	177, 188, 287, 379
AluI	AGCT	4 cut(s)	177, 188, 287, 379
Alw26I	GTCTC	1 cut(s)	500
AlwI	GGATC	1 cut(s)	601
AoxI	GGCC	4 cut(s)	280, 295, 492, 554
ApeKI	GCWGC	2 cut(s)	275, 287
ArsI	GACNNNNNNTTYG	4 cut(s)	81, 113, 218, 250
AspS9I	GGNCC	3 cut(s)	65, 428, 493
AsuHPI	GGTGA	1 cut(s)	353
AvaII	GGWCC	2 cut(s)	65, 428
BbsI	GAAGAC	1 cut(s)	96
BbvI	GCAGC	2 cut(s)	262, 274
BccI	CCATC	3 cut(s)	7, 68, 419
BceAI	ACGGC	2 cut(s)	549, 601
BciT130I	CCWGG	1 cut(s)	135
BclI	TGATCA	1 cut(s)	346
BcoDI	GTCTC	1 cut(s)	500
BfaI	CTAG	2 cut(s)	284, 558
BfmI	CTRYAG	2 cut(s)	288, 396
BisI	GCNGC	2 cut(s)	276, 288
BlsI	GCNGC	2 cut(s)	277, 289
Bme1390I	CCNGG	1 cut(s)	135
Bme18I	GGWCC	2 cut(s)	65, 428
BmgT120I	GGNCC	3 cut(s)	65, 428, 493
BmiI	GGNNCC	3 cut(s)	445, 495, 622
BmrFI	CCNGG	1 cut(s)	135
BmrI	ACTGGG	1 cut(s)	377
BmsI	GCATC	1 cut(s)	198
BmuI	ACTGGG	1 cut(s)	377
BpiI	GAAGAC	1 cut(s)	96
BpmI	CTGGAG	1 cut(s)	168
BsaJI	CCNNGG	2 cut(s)	134, 531
BsaXI	ACNNNNNCTCC	2 cut(s)	363, 393
Bsc4I	CCNNNNNNNGG	3 cut(s)	74, 134, 631
Bse1I	ACTGG	1 cut(s)	383
Bse3DI	GCAATG	1 cut(s)	436
BseBI	CCWGG	1 cut(s)	135
BseDI	CCNNGG	2 cut(s)	134, 531
BseGI	GGATG	1 cut(s)	79
BseLI	CCNNNNNNNGG	3 cut(s)	74, 134, 631
BseMI	GCAATG	1 cut(s)	436
BseMII	CTCAG	2 cut(s)	153, 495
BseNI	ACTGG	1 cut(s)	383
BseXI	GCAGC	2 cut(s)	262, 274
BsgI	GTGCAG	1 cut(s)	441
BshFI	GGCC	4 cut(s)	282, 297, 494, 556
BslI	CCNNNNNNNGG	3 cut(s)	74, 134, 631
BsmAI	GTCTC	1 cut(s)	500
BsnI	GGCC	4 cut(s)	282, 297, 494, 556
Bsp143I	GATC	2 cut(s)	346, 593
BspACI	CCGC	1 cut(s)	441
BspANI	GGCC	4 cut(s)	282, 297, 494, 556
BspCNI	CTCAG	2 cut(s)	154, 496
BspHI	TCATGA	1 cut(s)	358
BspLI	GGNNCC	3 cut(s)	445, 495, 622
BspMAI	CTGCAG	1 cut(s)	292
BspPI	GGATC	1 cut(s)	601
BsrDI	GCAATG	1 cut(s)	436
BsrI	ACTGG	1 cut(s)	383
BssECI	CCNNGG	2 cut(s)	134, 531
BssMI	GATC	2 cut(s)	346, 593
Bst2UI	CCWGG	1 cut(s)	135
Bst6I	CTCTTC	1 cut(s)	328
BstC8I	GCNNGC	2 cut(s)	261, 280
BstDEI	CTNAG	2 cut(s)	162, 504
BstDSI	CCRYGG	1 cut(s)	531
BstF5I	GGATG	1 cut(s)	79
BstKTI	GATC	2 cut(s)	349, 596
BstMAI	GTCTC	1 cut(s)	500
BstMBI	GATC	2 cut(s)	346, 593
BstMWI	GCNNNNNNNGC	1 cut(s)	284
BstNI	CCWGG	1 cut(s)	135
BstNSI	RCATGY	2 cut(s)	33, 263
BstSCI	CCNGG	1 cut(s)	133
BstSFI	CTRYAG	2 cut(s)	288, 396
BstV1I	GCAGC	2 cut(s)	262, 274
BstV2I	GAAGAC	1 cut(s)	96
BsuRI	GGCC	4 cut(s)	282, 297, 494, 556
BtgI	CCRYGG	1 cut(s)	531
BtsCI	GGATG	1 cut(s)	79
BtsIMutI	CAGTG	2 cut(s)	159, 390
Cac8I	GCNNGC	2 cut(s)	261, 280
CciI	TCATGA	1 cut(s)	358
Cfr13I	GGNCC	3 cut(s)	65, 428, 493
Csp6I	GTAC	1 cut(s)	453
CviAII	CATG	7 cut(s)	30, 152, 212, 260, 359, 463, 490
CviQI	GTAC	1 cut(s)	453
DdeI	CTNAG	2 cut(s)	162, 504
DpnI	GATC	2 cut(s)	348, 595
DpnII	GATC	2 cut(s)	346, 593
Eam1104I	CTCTTC	1 cut(s)	328
EarI	CTCTTC	1 cut(s)	328
Eco147I	AGGCCT	2 cut(s)	297, 556
Eco32I	GATATC	1 cut(s)	572
Eco47I	GGWCC	2 cut(s)	65, 428
Eco57I	CTGAAG	2 cut(s)	210, 317
EcoRII	CCWGG	1 cut(s)	133
EcoRV	GATATC	1 cut(s)	572
EcoT22I	ATGCAT	1 cut(s)	213
FaeI	CATG	7 cut(s)	33, 155, 215, 263, 362, 466, 493
FatI	CATG	7 cut(s)	29, 151, 211, 259, 358, 462, 489
FbaI	TGATCA	1 cut(s)	346
FblI	GTMKAC	2 cut(s)	99, 366
Fnu4HI	GCNGC	2 cut(s)	276, 288
FokI	GGATG	1 cut(s)	86
Fsp4HI	GCNGC	2 cut(s)	276, 288
FspBI	CTAG	2 cut(s)	284, 558
GluI	GCNGC	2 cut(s)	276, 288
GsuI	CTGGAG	1 cut(s)	168
HaeIII	GGCC	4 cut(s)	282, 297, 494, 556
Hin1II	CATG	7 cut(s)	33, 155, 215, 263, 362, 466, 493
HinfI	GANTC	1 cut(s)	148
HphI	GGTGA	1 cut(s)	353
Hpy166II	GTNNAC	3 cut(s)	100, 367, 473
Hpy188I	TCNGA	4 cut(s)	147, 336, 505, 569
Hpy188III	TCNNGA	1 cut(s)	359
Hpy8I	GTNNAC	3 cut(s)	100, 367, 473
HpyAV	CCTTC	2 cut(s)	287, 507
HpyCH4V	TGCA	4 cut(s)	211, 290, 422, 520
HpyF10VI	GCNNNNNNNGC	1 cut(s)	284
HpyF3I	CTNAG	2 cut(s)	162, 504
Hsp92II	CATG	7 cut(s)	33, 155, 215, 263, 362, 466, 493
Ksp22I	TGATCA	1 cut(s)	346
Kzo9I	GATC	2 cut(s)	346, 593
LmnI	GCTCC	3 cut(s)	187, 384, 443
Lsp1109I	GCAGC	2 cut(s)	262, 274
LweI	GCATC	1 cut(s)	198
MaeI	CTAG	2 cut(s)	284, 558
MalI	GATC	2 cut(s)	348, 595
MboI	GATC	2 cut(s)	346, 593
MboII	GAAGA	6 cut(s)	53, 101, 315, 323, 492, 593
MluCI	AATT	1 cut(s)	597
MmeI	TCCRAC	1 cut(s)	455
MnlI	CCTC	3 cut(s)	315, 572, 625
Mph1103I	ATGCAT	1 cut(s)	213
MseI	TTAA	2 cut(s)	300, 643
MspA1I	CMGCKG	1 cut(s)	188
MspR9I	CCNGG	1 cut(s)	135
MvaI	CCWGG	1 cut(s)	135
MwoI	GCNNNNNNNGC	1 cut(s)	284
NdeII	GATC	2 cut(s)	346, 593
NlaIII	CATG	7 cut(s)	33, 155, 215, 263, 362, 466, 493
NlaIV	GGNNCC	3 cut(s)	445, 495, 622
NsiI	ATGCAT	1 cut(s)	213
NspI	RCATGY	2 cut(s)	33, 263
PaeI	GCATGC	1 cut(s)	263
PagI	TCATGA	1 cut(s)	358
PceI	AGGCCT	2 cut(s)	297, 556
PfeI	GAWTC	1 cut(s)	148
PflFI	GACNNNGTC	1 cut(s)	95
PkrI	GCNGC	2 cut(s)	277, 289
Psp6I	CCWGG	1 cut(s)	133
PspGI	CCWGG	1 cut(s)	133
PspN4I	GGNNCC	3 cut(s)	445, 495, 622
PspPI	GGNCC	3 cut(s)	65, 428, 493
PsrI	GAACNNNNNNTAC	2 cut(s)	36, 68
PstI	CTGCAG	1 cut(s)	292
PsyI	GACNNNGTC	1 cut(s)	95
PvuII	CAGCTG	1 cut(s)	188
RsaI	GTAC	1 cut(s)	454
RsaNI	GTAC	1 cut(s)	453
SaqAI	TTAA	2 cut(s)	300, 643
SatI	GCNGC	2 cut(s)	276, 288
Sau3AI	GATC	2 cut(s)	346, 593
Sau96I	GGNCC	3 cut(s)	65, 428, 493
ScrFI	CCNGG	1 cut(s)	135
SfaNI	GCATC	1 cut(s)	198
SfcI	CTRYAG	2 cut(s)	288, 396
SinI	GGWCC	2 cut(s)	65, 428
SphI	GCATGC	1 cut(s)	263
Sse9I	AATT	1 cut(s)	597
SseBI	AGGCCT	2 cut(s)	297, 556
SsiI	CCGC	1 cut(s)	441
SspMI	CTAG	2 cut(s)	284, 558
StuI	AGGCCT	2 cut(s)	297, 556
StyD4I	CCNGG	1 cut(s)	133
TaqI	TCGA	2 cut(s)	87, 237
TasI	AATT	1 cut(s)	597
TfiI	GAWTC	1 cut(s)	148
Tru1I	TTAA	2 cut(s)	300, 643
Tru9I	TTAA	2 cut(s)	300, 643
TscAI	CASTG	2 cut(s)	166, 390
TseI	GCWGC	2 cut(s)	275, 287
TspDTI	ATGAA	3 cut(s)	140, 228, 451
TspRI	CASTG	2 cut(s)	166, 390
Tth111I	GACNNNGTC	1 cut(s)	95
VpaK11BI	GGWCC	2 cut(s)	65, 428
XceI	RCATGY	2 cut(s)	33, 263
XmiI	GTMKAC	2 cut(s)	99, 366
XspI	CTAG	2 cut(s)	284, 558
Zsp2I	ATGCAT	1 cut(s)	213

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