Basic Information

Type: gene

Biological Identity

Species

rosa_chinensis

Chromosome

Orthogroup ID

OG0006238

Physical Location & Seq

Genomic Coordinates Reverse (-)

4084709 .. 4086995

Gene Structure 2287 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

PRQ28769

Sequence Viewer

CDS Protein Promoter (2k)

Length: 630 bp

ATGGAGGTCAAGCTATGGAATGACAAGCGTGAAAGAGAAATGTATGAAAATTTCTCTGAGTTATACGCCATTATAAAGGCCACTGAGAAGCTTGAAAGGGCATACATTCGCGACGTGATCTCTTCATCAGCGTATGAGACTGAATGCCAGAAACTCATTGCTCACTTTAAGACTTTGTCTTCCACGCTTAAAGACACCATCCCAAGCATTGAGCGCTTTGCAGATACATATAAGATGGACTGCCCAGCAGCTATAAACCGCCTTGTGACCTCTGGGGTTCCTGCCACAGTGGAGCACAGGGCTGCTGCAGCTTCTTCCATGACTTCATCGGCCGCTGCTGTGGCAGAGTGCACACAGAATTTCATTACGGCAATGGACTCATTGAAGTTGAATATGATTGCAGTTGATCAGGTGCACCCCCTACTCTCGGACCTCGCAACATCTCTCAATAAGTTGACCTTTCTGCCACCGGATTTCTTGGGGAAGGTGAAGTTGAAGGAATGGATTGCAAGGCTGGCAAAGATGGGCGCAGCCGATGAGTTGACAGAGCAACAGGCCAGGCAGCTTCACTTTGATCTCGAATCATCCTACAACTCATTTATGGCAGCTTTACCCAATGCTGGTAATTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

ko04144 map04144

Pfam Domains

Protein Families

VPS28

Protein Analysis

209

Amino Acids

23.29

Weight (kDa)

5.63

Isoelectric Point (pI)

33.27

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
VPS28	PF03997	18 - 204	9.1e-72	VPS28 protein

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Align Labels (Cladogram)

Image

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Publication-ready

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Orthologous Genes (Group: OG0006238)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G05000 AT4G05000 AT4G05000 AT4G21560 AT4G21560 AT4G21560
fragaria_vesca	FvH4_3g04140 FvH4_3g04140 FvH4_3g04140
malus_domestica	MD05G1324500.v1.1 MD10G1302300.v1.1
prunus_persica	Prupe.4G035900_v2.0.a1 Prupe.4G035900_v2.0.a1
pyrus_communis	pycom05g29870 pycom10g25480
rosa_chinensis	RchiOBHm_Chr5g0006591
rosa_laevigata	RLG00000031402
rosa_multiflora	Rmu_sc0001972.1_g000001 Rmu_sc0011154.1_g000006
rosa_roxburghii	Rroxscaffold_1G00069450
rosa_rugosa	Rorug04G0422800 Rorug04G0422800
rosa_samantha	Rh5AG050000 Rh5BG049300 Rh5CG057500 Rh5DG048700
rosa_wichuraiana	Rw5G005010

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	74
AccII	CGCG	1 cut(s)	111
AciI	CCGC	2 cut(s)	259, 333
AcoI	YGGCCR	1 cut(s)	330
AcsI	RAATTY	2 cut(s)	49, 358
AfeI	AGCGCT	1 cut(s)	215
AfiI	CCNNNNNNNGG	2 cut(s)	427, 620
AgsI	TTSAA	4 cut(s)	95, 385, 391, 496
AjiI	CACGTC	1 cut(s)	115
AjnI	CCWGG	1 cut(s)	557
AluBI	AGCT	6 cut(s)	13, 91, 251, 311, 565, 608
AluI	AGCT	6 cut(s)	13, 91, 251, 311, 565, 608
Alw21I	GWGCWC	3 cut(s)	297, 353, 417
Alw26I	GTCTC	1 cut(s)	131
Alw44I	GTGCAC	2 cut(s)	349, 413
Aor51HI	AGCGCT	1 cut(s)	215
AoxI	GGCC	3 cut(s)	78, 330, 555
ApaLI	GTGCAC	2 cut(s)	349, 413
ApeKI	GCWGC	8 cut(s)	248, 302, 305, 308, 335, 530, 562, 605
ApoI	RAATTY	2 cut(s)	49, 358
AspLEI	GCGC	2 cut(s)	216, 530
AspS9I	GGNCC	1 cut(s)	430
AsuHPI	GGTGA	1 cut(s)	499
AvaII	GGWCC	1 cut(s)	430
BaeGI	GKGCMC	2 cut(s)	353, 417
BbsI	GAAGAC	1 cut(s)	171
Bbv12I	GWGCWC	3 cut(s)	297, 353, 417
BbvI	GCAGC	8 cut(s)	260, 289, 292, 320, 322, 542, 574, 617
BccI	CCATC	3 cut(s)	206, 229, 517
BceAI	ACGGC	1 cut(s)	384
BciT130I	CCWGG	1 cut(s)	559
BclI	TGATCA	1 cut(s)	406
BcoDI	GTCTC	1 cut(s)	131
BfmI	CTRYAG	1 cut(s)	306
BfoI	RGCGCY	1 cut(s)	217
BisI	GCNGC	9 cut(s)	249, 303, 306, 309, 333, 336, 531, 563, 606
BlsI	GCNGC	9 cut(s)	250, 304, 307, 310, 334, 337, 532, 564, 607
Bme1390I	CCNGG	1 cut(s)	559
Bme18I	GGWCC	1 cut(s)	430
BmgBI	CACGTC	1 cut(s)	115
BmgT120I	GGNCC	1 cut(s)	430
BmiI	GGNNCC	1 cut(s)	279
BmrFI	CCNGG	1 cut(s)	559
BpiI	GAAGAC	1 cut(s)	171
BsaWI	WCCGGW	1 cut(s)	469
Bsc4I	CCNNNNNNNGG	2 cut(s)	427, 620
Bse3DI	GCAATG	2 cut(s)	156, 378
BseBI	CCWGG	1 cut(s)	559
BseGI	GGATG	2 cut(s)	198, 584
BseLI	CCNNNNNNNGG	2 cut(s)	427, 620
BseMI	GCAATG	2 cut(s)	156, 378
BseMII	CTCAG	2 cut(s)	48, 75
BseSI	GKGCMC	2 cut(s)	353, 417
BseX3I	CGGCCG	1 cut(s)	330
BseXI	GCAGC	8 cut(s)	260, 289, 292, 320, 322, 542, 574, 617
BseYI	CCCAGC	1 cut(s)	244
Bsh1236I	CGCG	1 cut(s)	111
Bsh1285I	CGRYCG	1 cut(s)	333
BshFI	GGCC	3 cut(s)	80, 332, 557
BsiEI	CGRYCG	1 cut(s)	333
BsiHKAI	GWGCWC	3 cut(s)	297, 353, 417
BsiSI	CCGG	1 cut(s)	470
BslI	CCNNNNNNNGG	2 cut(s)	427, 620
BsmAI	GTCTC	1 cut(s)	131
BsmI	GAATGC	1 cut(s)	149
BsnI	GGCC	3 cut(s)	80, 332, 557
Bsp1286I	GDGCHC	3 cut(s)	297, 353, 417
Bsp143I	GATC	3 cut(s)	117, 406, 574
Bsp68I	TCGCGA	1 cut(s)	111
BspACI	CCGC	2 cut(s)	259, 333
BspANI	GGCC	3 cut(s)	80, 332, 557
BspCNI	CTCAG	2 cut(s)	49, 76
BspFNI	CGCG	1 cut(s)	111
BspLI	GGNNCC	1 cut(s)	279
BspMAI	CTGCAG	1 cut(s)	310
BsrDI	GCAATG	2 cut(s)	156, 378
BssMI	GATC	3 cut(s)	117, 406, 574
Bst2UI	CCWGG	1 cut(s)	559
Bst4CI	ACNGT	1 cut(s)	289
Bst6I	CTCTTC	1 cut(s)	127
BstC8I	GCNNGC	1 cut(s)	516
BstDEI	CTNAG	2 cut(s)	57, 84
BstF5I	GGATG	2 cut(s)	198, 584
BstFNI	CGCG	1 cut(s)	111
BstH2I	RGCGCY	1 cut(s)	217
BstHHI	GCGC	2 cut(s)	216, 530
BstKTI	GATC	3 cut(s)	120, 409, 577
BstMAI	GTCTC	1 cut(s)	131
BstMBI	GATC	3 cut(s)	117, 406, 574
BstMCI	CGRYCG	1 cut(s)	333
BstMWI	GCNNNNNNNGC	4 cut(s)	213, 308, 341, 515
BstNI	CCWGG	1 cut(s)	559
BstSCI	CCNGG	1 cut(s)	557
BstSFI	CTRYAG	1 cut(s)	306
BstSLI	GKGCMC	2 cut(s)	353, 417
BstUI	CGCG	1 cut(s)	111
BstV1I	GCAGC	8 cut(s)	260, 289, 292, 320, 322, 542, 574, 617
BstV2I	GAAGAC	1 cut(s)	171
BstZI	CGGCCG	1 cut(s)	330
BsuRI	GGCC	3 cut(s)	80, 332, 557
BtrI	CACGTC	1 cut(s)	115
BtsCI	GGATG	2 cut(s)	198, 584
BtsIMutI	CAGTG	2 cut(s)	81, 294
BtuMI	TCGCGA	1 cut(s)	111
Cac8I	GCNNGC	1 cut(s)	516
CfoI	GCGC	2 cut(s)	216, 530
Cfr13I	GGNCC	1 cut(s)	430
CviAII	CATG	1 cut(s)	319
DdeI	CTNAG	2 cut(s)	57, 84
DpnI	GATC	3 cut(s)	119, 408, 576
DpnII	GATC	3 cut(s)	117, 406, 574
EaeI	YGGCCR	1 cut(s)	330
EagI	CGGCCG	1 cut(s)	330
Eam1104I	CTCTTC	1 cut(s)	127
EarI	CTCTTC	1 cut(s)	127
EclXI	CGGCCG	1 cut(s)	330
Eco47I	GGWCC	1 cut(s)	430
Eco47III	AGCGCT	1 cut(s)	215
Eco52I	CGGCCG	1 cut(s)	330
EcoRII	CCWGG	1 cut(s)	557
FaeI	CATG	1 cut(s)	322
FalI	AAGNNNNNCTT	2 cut(s)	443, 475
FatI	CATG	1 cut(s)	318
FbaI	TGATCA	1 cut(s)	406
Fnu4HI	GCNGC	9 cut(s)	249, 303, 306, 309, 333, 336, 531, 563, 606
FokI	GGATG	2 cut(s)	185, 571
Fsp4HI	GCNGC	9 cut(s)	249, 303, 306, 309, 333, 336, 531, 563, 606
GlaI	GCGC	2 cut(s)	215, 529
GluI	GCNGC	9 cut(s)	249, 303, 306, 309, 333, 336, 531, 563, 606
GsaI	CCCAGC	1 cut(s)	248
HaeII	RGCGCY	1 cut(s)	217
HaeIII	GGCC	3 cut(s)	80, 332, 557
HapII	CCGG	1 cut(s)	470
HhaI	GCGC	2 cut(s)	216, 530
Hin1II	CATG	1 cut(s)	322
Hin6I	GCGC	2 cut(s)	214, 528
HinP1I	GCGC	2 cut(s)	214, 528
HincII	GTYRAC	2 cut(s)	456, 543
HindII	GTYRAC	2 cut(s)	456, 543
HindIII	AAGCTT	1 cut(s)	89
HinfI	GANTC	2 cut(s)	377, 581
HpaII	CCGG	1 cut(s)	470
HphI	GGTGA	1 cut(s)	499
Hpy166II	GTNNAC	4 cut(s)	351, 415, 456, 543
Hpy188I	TCNGA	2 cut(s)	58, 430
Hpy188III	TCNNGA	2 cut(s)	110, 578
Hpy8I	GTNNAC	4 cut(s)	351, 415, 456, 543
Hpy99I	CGWCG	1 cut(s)	116
HpyAV	CCTTC	2 cut(s)	478, 490
HpyCH4III	ACNGT	1 cut(s)	289
HpyCH4IV	ACGT	1 cut(s)	114
HpyCH4V	TGCA	6 cut(s)	221, 308, 351, 401, 415, 509
HpyF10VI	GCNNNNNNNGC	4 cut(s)	213, 308, 341, 515
HpyF3I	CTNAG	2 cut(s)	57, 84
HpySE526I	ACGT	1 cut(s)	114
Hsp92II	CATG	1 cut(s)	322
HspAI	GCGC	2 cut(s)	214, 528
Ksp22I	TGATCA	1 cut(s)	406
Kzo9I	GATC	3 cut(s)	117, 406, 574
LmnI	GCTCC	1 cut(s)	292
Lsp1109I	GCAGC	8 cut(s)	260, 289, 292, 320, 322, 542, 574, 617
MaeII	ACGT	1 cut(s)	114
MaeIII	GTNAC	1 cut(s)	265
MalI	GATC	3 cut(s)	119, 408, 576
MboI	GATC	3 cut(s)	117, 406, 574
MboII	GAAGA	3 cut(s)	114, 171, 306
MhlI	GDGCHC	3 cut(s)	297, 353, 417
MluCI	AATT	3 cut(s)	49, 358, 625
MlyI	GAGTC	1 cut(s)	371
MnlI	CCTC	2 cut(s)	280, 443
MseI	TTAA	2 cut(s)	168, 189
MspA1I	CMGCKG	1 cut(s)	335
MspI	CCGG	1 cut(s)	470
MspR9I	CCNGG	1 cut(s)	559
Mva1269I	GAATGC	1 cut(s)	149
MvaI	CCWGG	1 cut(s)	559
MvnI	CGCG	1 cut(s)	111
MwoI	GCNNNNNNNGC	4 cut(s)	213, 308, 341, 515
NdeII	GATC	3 cut(s)	117, 406, 574
NlaIII	CATG	1 cut(s)	322
NlaIV	GGNNCC	1 cut(s)	279
NmuCI	GTSAC	1 cut(s)	265
NruI	TCGCGA	1 cut(s)	111
PctI	GAATGC	1 cut(s)	149
PfeI	GAWTC	1 cut(s)	581
PflFI	GACNNNGTC	1 cut(s)	175
PkrI	GCNGC	9 cut(s)	250, 304, 307, 310, 334, 337, 532, 564, 607
PleI	GAGTC	1 cut(s)	371
PpsI	GAGTC	1 cut(s)	371
PsiI	TTATAA	1 cut(s)	74
Psp6I	CCWGG	1 cut(s)	557
PspFI	CCCAGC	1 cut(s)	244
PspGI	CCWGG	1 cut(s)	557
PspN4I	GGNNCC	1 cut(s)	279
PspPI	GGNCC	1 cut(s)	430
PstI	CTGCAG	1 cut(s)	310
PsyI	GACNNNGTC	1 cut(s)	175
RruI	TCGCGA	1 cut(s)	111
SaqAI	TTAA	2 cut(s)	168, 189
SatI	GCNGC	9 cut(s)	249, 303, 306, 309, 333, 336, 531, 563, 606
Sau3AI	GATC	3 cut(s)	117, 406, 574
Sau96I	GGNCC	1 cut(s)	430
SchI	GAGTC	1 cut(s)	371
ScrFI	CCNGG	1 cut(s)	559
SduI	GDGCHC	3 cut(s)	297, 353, 417
SfcI	CTRYAG	1 cut(s)	306
SinI	GGWCC	1 cut(s)	430
Sse9I	AATT	3 cut(s)	49, 358, 625
SsiI	CCGC	2 cut(s)	259, 333
StyD4I	CCNGG	1 cut(s)	557
TaaI	ACNGT	1 cut(s)	289
TaiI	ACGT	1 cut(s)	117
TaqI	TCGA	1 cut(s)	579
TasI	AATT	3 cut(s)	49, 358, 625
TauI	GCSGC	1 cut(s)	335
TfiI	GAWTC	1 cut(s)	581
Tru1I	TTAA	2 cut(s)	168, 189
Tru9I	TTAA	2 cut(s)	168, 189
TscAI	CASTG	2 cut(s)	88, 294
TseFI	GTSAC	1 cut(s)	265
TseI	GCWGC	8 cut(s)	248, 302, 305, 308, 335, 530, 562, 605
Tsp45I	GTSAC	1 cut(s)	265
TspDTI	ATGAA	4 cut(s)	60, 114, 315, 352
TspRI	CASTG	2 cut(s)	88, 294
Tth111I	GACNNNGTC	1 cut(s)	175
VneI	GTGCAC	2 cut(s)	349, 413
VpaK11BI	GGWCC	1 cut(s)	430
XapI	RAATTY	2 cut(s)	49, 358

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