Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000003

Orthogroup ID

OG0003225

Physical Location & Seq

Genomic Coordinates Reverse (-)

41862041 .. 41866066

Gene Structure 4026 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_3G00248540.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 630 bp

ATGAGCAGAGACTCTCCGGCACCGGCAACCGGACCCGGACTGGTTATATCGACCACGGCACCCATCCTCTCCTTCCTCGTCTCCGCCTCCACCGACCCACACCTCTCCAAGGACCTCCAGCAAACCGCCTCCAAGCTCTCCTCCAAATCCAACGTCCCCTACCGGGCCATCCGCGCCCTCTGGGTCGCTTCCCGGGCCTCCACCCGGCCCCAATTGGTCAAGCTCTTCTCCGGCTCCGGGTTCGTCTTCACCAGCCCCAAGCCCAGAGAGAAGAGTGAGGAGCTGAAGGCGAGGCTGAAGAAGCTGGCGGAGATATCAGAGAGGAATGAATATGCAGAGCTTGTGAAGGATATAACGCCTCGGAAAGATAGCGCCCCGGAGCCGTTCTCGTCTTACAAGGATCAATTGGGCTTTGGTTTACATGTTGTGGTGACCATGTTTACCGGCTATTTGGTTGGATATGCTGCATTCAGAGCATTGTTTAGCCACAGTCCTGTGATGAATGCTGCTGGAGGCATTCTTGGATTGGTCATTGGCATGCTCGTAGAAACGCTTATTTTCATAATTCAAGCTTCCCGCTACGATCTTAAATCATCTTCTTCCACATCCAAGCTAAAGAAGGATCAGTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Vma12

Protein Analysis

209

Amino Acids

22.71

Weight (kDa)

9.83

Isoelectric Point (pI)

43.88

Instability Index

Protein Domains (Pfam)

No Pfam domains detected for this protein.

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

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Align Labels (Cladogram)

Image

Tree File

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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: OG0003225)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G52980 AT5G52980
fragaria_vesca	FvH4_5g22440 FvH4_5g22440
malus_domestica	MD06G1036800.v1.1
prunus_persica	Prupe.5G032500_v2.0.a1 Prupe.5G032500_v2.0.a1 Prupe.5G032500_v2.0.a1 Prupe.5G032500_v2.0.a1 Prupe.5G032500_v2.0.a1 Prupe.5G032500_v2.0.a1 Prupe.5G032500_v2.0.a1 Prupe.5G032500_v2.0.a1 Prupe.5G032500_v2.0.a1 Prupe.5G032500_v2.0.a1 Prupe.5G032500_v2.0.a1
pyrus_communis	pycom06g03010
rosa_chinensis	RchiOBHm_Chr7g0210201 RchiOBHm_Chr7g0210231
rosa_laevigata	RLG00000003057
rosa_multiflora	Rmu_sc0005438.1_g000010 Rmu_sc0006908.1_g000007 Rmu_sc0019437.1_g000003
rosa_roxburghii	Rroxscaffold_3G00248540
rosa_rugosa	Rorug07G0119300 Rorug07G0119400 Rorug07G0119500 Rorug07G0119600 Rorug07G0119700 Rorug07G0119800
rosa_samantha	Rh1AG349500 Rh7AG252700 Rh7BG247800 Rh7CG269700 Rh7DG260300
rosa_wichuraiana	Rw1G031130 Rw7G021490

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	2 cut(s)	19, 58
AccII	CGCG	1 cut(s)	174
AciI	CCGC	5 cut(s)	84, 126, 172, 308, 577
AclWI	GGATC	1 cut(s)	408
AcuI	CTGAAG	2 cut(s)	305, 317
AfiI	CCNNNNNNNGG	5 cut(s)	29, 109, 163, 204, 237
AflIII	ACRYGT	1 cut(s)	421
AgsI	TTSAA	1 cut(s)	569
AluBI	AGCT	7 cut(s)	136, 223, 283, 304, 340, 572, 613
AluI	AGCT	7 cut(s)	136, 223, 283, 304, 340, 572, 613
Alw26I	GTCTC	2 cut(s)	3, 85
AlwI	GGATC	1 cut(s)	408
Ama87I	CYCGRG	1 cut(s)	192
AoxI	GGCC	3 cut(s)	165, 195, 206
ApeKI	GCWGC	2 cut(s)	464, 506
ArsI	GACNNNNNNTTYG	2 cut(s)	138, 170
AspLEI	GCGC	2 cut(s)	176, 374
AspS9I	GGNCC	5 cut(s)	32, 112, 165, 195, 207
AsuC2I	CCSGG	7 cut(s)	36, 164, 193, 194, 205, 238, 377
AsuHPI	GGTGA	2 cut(s)	241, 442
AvaI	CYCGRG	1 cut(s)	192
AvaII	GGWCC	2 cut(s)	32, 112
BanI	GGYRCC	2 cut(s)	19, 58
BbsI	GAAGAC	1 cut(s)	238
BbvI	GCAGC	2 cut(s)	451, 493
BccI	CCATC	2 cut(s)	71, 176
BceAI	ACGGC	2 cut(s)	72, 367
BcnI	CCSGG	7 cut(s)	36, 164, 193, 194, 205, 238, 377
BcoDI	GTCTC	2 cut(s)	3, 85
BfoI	RGCGCY	1 cut(s)	375
BisI	GCNGC	2 cut(s)	465, 507
BlsI	GCNGC	2 cut(s)	466, 508
Bme1390I	CCNGG	7 cut(s)	36, 164, 193, 194, 205, 238, 377
Bme18I	GGWCC	2 cut(s)	32, 112
BmeT110I	CYCGRG	1 cut(s)	192
BmgT120I	GGNCC	5 cut(s)	32, 112, 165, 195, 207
BmiI	GGNNCC	6 cut(s)	21, 34, 60, 209, 235, 381
BmrFI	CCNGG	7 cut(s)	36, 164, 193, 194, 205, 238, 377
BpiI	GAAGAC	1 cut(s)	238
BplI	GAGNNNNNCTC	2 cut(s)	371, 403
BpmI	CTGGAG	2 cut(s)	101, 531
BpuMI	CCSGG	7 cut(s)	36, 164, 193, 194, 205, 238, 377
BsaJI	CCNNGG	5 cut(s)	54, 108, 192, 359, 375
BsaWI	WCCGGW	1 cut(s)	29
Bsc4I	CCNNNNNNNGG	5 cut(s)	29, 109, 163, 204, 237
Bse118I	RCCGGY	2 cut(s)	22, 443
Bse1I	ACTGG	1 cut(s)	45
BseDI	CCNNGG	5 cut(s)	54, 108, 192, 359, 375
BseGI	GGATG	3 cut(s)	63, 168, 605
BseLI	CCNNNNNNNGG	5 cut(s)	29, 109, 163, 204, 237
BseNI	ACTGG	1 cut(s)	45
BseRI	GAGGAG	2 cut(s)	130, 293
BseXI	GCAGC	2 cut(s)	451, 493
Bsh1236I	CGCG	1 cut(s)	174
BshFI	GGCC	3 cut(s)	167, 197, 208
BshNI	GGYRCC	2 cut(s)	19, 58
BsiHKCI	CYCGRG	1 cut(s)	192
BslFI	GGGAC	1 cut(s)	140
BslI	CCNNNNNNNGG	5 cut(s)	29, 109, 163, 204, 237
BsmAI	GTCTC	2 cut(s)	3, 85
BsmBI	CGTCTC	1 cut(s)	85
BsmFI	GGGAC	1 cut(s)	140
BsmI	GAATGC	3 cut(s)	467, 508, 516
BsnI	GGCC	3 cut(s)	167, 197, 208
BsoBI	CYCGRG	1 cut(s)	192
Bsp143I	GATC	3 cut(s)	400, 583, 622
BspACI	CCGC	5 cut(s)	84, 126, 172, 308, 577
BspANI	GGCC	3 cut(s)	167, 197, 208
BspFNI	CGCG	1 cut(s)	174
BspLI	GGNNCC	6 cut(s)	21, 34, 60, 209, 235, 381
BspPI	GGATC	1 cut(s)	408
BspQI	GCTCTTC	1 cut(s)	230
BspT107I	GGYRCC	2 cut(s)	19, 58
BsrFI	RCCGGY	2 cut(s)	22, 443
BsrI	ACTGG	1 cut(s)	45
BssAI	RCCGGY	2 cut(s)	22, 443
BssECI	CCNNGG	5 cut(s)	54, 108, 192, 359, 375
BssMI	GATC	3 cut(s)	400, 583, 622
BssT1I	CCWWGG	1 cut(s)	108
Bst4CI	ACNGT	1 cut(s)	491
Bst6I	CTCTTC	2 cut(s)	230, 266
BstC8I	GCNNGC	2 cut(s)	306, 539
BstDSI	CCRYGG	1 cut(s)	54
BstEII	GGTNACC	1 cut(s)	430
BstENI	CCTNNNNNAGG	1 cut(s)	107
BstF5I	GGATG	3 cut(s)	63, 168, 605
BstFNI	CGCG	1 cut(s)	174
BstH2I	RGCGCY	1 cut(s)	375
BstHHI	GCGC	2 cut(s)	176, 374
BstKTI	GATC	3 cut(s)	403, 586, 625
BstMAI	GTCTC	2 cut(s)	3, 85
BstMBI	GATC	3 cut(s)	400, 583, 622
BstMWI	GCNNNNNNNGC	4 cut(s)	173, 194, 301, 473
BstNSI	RCATGY	2 cut(s)	425, 541
BstPI	GGTNACC	1 cut(s)	430
BstSCI	CCNGG	7 cut(s)	34, 162, 191, 192, 203, 236, 375
BstUI	CGCG	1 cut(s)	174
BstV1I	GCAGC	2 cut(s)	451, 493
BstV2I	GAAGAC	1 cut(s)	238
BsuRI	GGCC	3 cut(s)	167, 197, 208
BtgI	CCRYGG	1 cut(s)	54
BtsCI	GGATG	3 cut(s)	63, 168, 605
Cac8I	GCNNGC	2 cut(s)	306, 539
CfoI	GCGC	2 cut(s)	176, 374
Cfr10I	RCCGGY	2 cut(s)	22, 443
Cfr13I	GGNCC	5 cut(s)	32, 112, 165, 195, 207
Cfr9I	CCCGGG	1 cut(s)	192
CviAII	CATG	3 cut(s)	422, 436, 538
DpnI	GATC	3 cut(s)	402, 585, 624
DpnII	GATC	3 cut(s)	400, 583, 622
Eam1104I	CTCTTC	2 cut(s)	230, 266
EarI	CTCTTC	2 cut(s)	230, 266
EciI	GGCGGA	2 cut(s)	73, 323
Eco130I	CCWWGG	1 cut(s)	108
Eco32I	GATATC	1 cut(s)	315
Eco47I	GGWCC	2 cut(s)	32, 112
Eco57I	CTGAAG	2 cut(s)	305, 317
Eco88I	CYCGRG	1 cut(s)	192
Eco91I	GGTNACC	1 cut(s)	430
EcoNI	CCTNNNNNAGG	1 cut(s)	107
EcoO109I	RGGNCCY	1 cut(s)	112
EcoO65I	GGTNACC	1 cut(s)	430
EcoRV	GATATC	1 cut(s)	315
EcoT14I	CCWWGG	1 cut(s)	108
ErhI	CCWWGG	1 cut(s)	108
Esp3I	CGTCTC	1 cut(s)	85
FaeI	CATG	3 cut(s)	425, 439, 541
FaiI	YATR	8 cut(s)	47, 333, 353, 423, 437, 462, 539, 563
FaqI	GGGAC	1 cut(s)	140
FatI	CATG	3 cut(s)	421, 435, 537
FauI	CCCGC	1 cut(s)	584
Fnu4HI	GCNGC	2 cut(s)	465, 507
FokI	GGATG	3 cut(s)	50, 155, 592
Fsp4HI	GCNGC	2 cut(s)	465, 507
GlaI	GCGC	2 cut(s)	175, 373
GluI	GCNGC	2 cut(s)	465, 507
GsuI	CTGGAG	2 cut(s)	101, 531
HaeII	RGCGCY	1 cut(s)	375
HaeIII	GGCC	3 cut(s)	167, 197, 208
HhaI	GCGC	2 cut(s)	176, 374
Hin1II	CATG	3 cut(s)	425, 439, 541
Hin6I	GCGC	2 cut(s)	174, 372
HinP1I	GCGC	2 cut(s)	174, 372
HindIII	AAGCTT	1 cut(s)	570
HinfI	GANTC	1 cut(s)	11
HphI	GGTGA	2 cut(s)	241, 442
Hpy166II	GTNNAC	2 cut(s)	419, 441
Hpy188I	TCNGA	3 cut(s)	319, 363, 473
Hpy8I	GTNNAC	2 cut(s)	419, 441
HpyAV	CCTTC	4 cut(s)	82, 280, 340, 613
HpyCH4III	ACNGT	1 cut(s)	491
HpyCH4IV	ACGT	1 cut(s)	153
HpyCH4V	TGCA	2 cut(s)	335, 467
HpyF10VI	GCNNNNNNNGC	4 cut(s)	173, 194, 301, 473
HpySE526I	ACGT	1 cut(s)	153
Hsp92II	CATG	3 cut(s)	425, 439, 541
HspAI	GCGC	2 cut(s)	174, 372
Kzo9I	GATC	3 cut(s)	400, 583, 622
LguI	GCTCTTC	1 cut(s)	230
LmnI	GCTCC	3 cut(s)	239, 280, 379
Lsp1109I	GCAGC	2 cut(s)	451, 493
MaeII	ACGT	1 cut(s)	153
MaeIII	GTNAC	1 cut(s)	430
MalI	GATC	3 cut(s)	402, 585, 624
MboI	GATC	3 cut(s)	400, 583, 622
MboII	GAAGA	6 cut(s)	217, 238, 283, 310, 588, 591
MfeI	CAATTG	2 cut(s)	212, 404
MluCI	AATT	3 cut(s)	212, 404, 564
MlyI	GAGTC	1 cut(s)	5
MmeI	TCCRAC	2 cut(s)	174, 436
MseI	TTAA	1 cut(s)	588
MslI	CAYNNNNRTG	1 cut(s)	536
MspR9I	CCNGG	7 cut(s)	36, 164, 193, 194, 205, 238, 377
MunI	CAATTG	2 cut(s)	212, 404
Mva1269I	GAATGC	3 cut(s)	467, 508, 516
MvnI	CGCG	1 cut(s)	174
MwoI	GCNNNNNNNGC	4 cut(s)	173, 194, 301, 473
NciI	CCSGG	7 cut(s)	36, 164, 193, 194, 205, 238, 377
NdeII	GATC	3 cut(s)	400, 583, 622
NlaIII	CATG	3 cut(s)	425, 439, 541
NlaIV	GGNNCC	6 cut(s)	21, 34, 60, 209, 235, 381
NmuCI	GTSAC	1 cut(s)	430
NspI	RCATGY	2 cut(s)	425, 541
PaeI	GCATGC	1 cut(s)	541
PciI	ACATGT	1 cut(s)	421
PciSI	GCTCTTC	1 cut(s)	230
PctI	GAATGC	3 cut(s)	467, 508, 516
PkrI	GCNGC	2 cut(s)	466, 508
PleI	GAGTC	1 cut(s)	5
PpsI	GAGTC	1 cut(s)	5
PpuMI	RGGWCCY	1 cut(s)	112
PscI	ACATGT	1 cut(s)	421
Psp5II	RGGWCCY	1 cut(s)	112
PspEI	GGTNACC	1 cut(s)	430
PspN4I	GGNNCC	6 cut(s)	21, 34, 60, 209, 235, 381
PspPI	GGNCC	5 cut(s)	32, 112, 165, 195, 207
PspPPI	RGGWCCY	1 cut(s)	112
RseI	CAYNNNNRTG	1 cut(s)	536
SapI	GCTCTTC	1 cut(s)	230
SaqAI	TTAA	1 cut(s)	588
SatI	GCNGC	2 cut(s)	465, 507
Sau3AI	GATC	3 cut(s)	400, 583, 622
Sau96I	GGNCC	5 cut(s)	32, 112, 165, 195, 207
SchI	GAGTC	1 cut(s)	5
ScrFI	CCNGG	7 cut(s)	36, 164, 193, 194, 205, 238, 377
SinI	GGWCC	2 cut(s)	32, 112
SmaI	CCCGGG	1 cut(s)	194
SmiMI	CAYNNNNRTG	1 cut(s)	536
SphI	GCATGC	1 cut(s)	541
Sse9I	AATT	3 cut(s)	212, 404, 564
SsiI	CCGC	5 cut(s)	84, 126, 172, 308, 577
StyD4I	CCNGG	7 cut(s)	34, 162, 191, 192, 203, 236, 375
StyI	CCWWGG	1 cut(s)	108
TaaI	ACNGT	1 cut(s)	491
TaiI	ACGT	1 cut(s)	156
TaqI	TCGA	1 cut(s)	50
TasI	AATT	3 cut(s)	212, 404, 564
Tru1I	TTAA	1 cut(s)	588
Tru9I	TTAA	1 cut(s)	588
TseFI	GTSAC	1 cut(s)	430
TseI	GCWGC	2 cut(s)	464, 506
Tsp45I	GTSAC	1 cut(s)	430
TspDTI	ATGAA	3 cut(s)	342, 515, 550
TspMI	CCCGGG	1 cut(s)	192
VpaK11BI	GGWCC	2 cut(s)	32, 112
XagI	CCTNNNNNAGG	1 cut(s)	107
XceI	RCATGY	2 cut(s)	425, 541
XmaI	CCCGGG	1 cut(s)	192

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