Basic Information

Type: gene

Biological Identity

Species

rosa_wichuraiana

Chromosome

Chr5

Orthogroup ID

OG0006238

Physical Location & Seq

Genomic Coordinates Reverse (-)

5194505 .. 5195133

Gene Structure 629 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rw5G005010.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 555 bp

ATGGAGGTTAAGCTATGGAATGACAAGCGTGAAAGAGAAATGTATGAAAATTTCTCTGAGTTATACGCCATTATAAAGGCCACTGAGAAGCTTGAAAGGGCATACATTCGCGACGTGATCTCTTCATCAGCCATTGAGCGCTTTGCAGATACGTATAAGATGGACTGCCCAGCAGCTATAAACCGCCTTGTGACCTCTGGGGTTCCTGCTACAGTGGAGCACAGGGCTGCTGCAGCTTCTTCCATGACTTCATCGGCCGCTGCTGTGGCAGAGTGCACACAGAATTTCATTACGGCAATGGACTCATTGAAGTTGAATATGATTGCAGTTGATCAGGTGCACCCCCTACTCTCGGACCTCGCAACATCTCTCAATAAGCTGACCTTTCTGCCACCGGATTTCTTGGGGAAGGTGAAGTTGAAGGAATGGATTGCAAGGCTGGCAAAGATGGGCGCAGCAGATGAGTTGACAGAGCAACAGGCCAGGCAGCTTCACTTTGATCTCGAATCATCCTACAACTCATTTATGGCAGCTTTACCCAATGCTGGTAATTGA

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

184

Amino Acids

20.45

Weight (kDa)

5.44

Isoelectric Point (pI)

35.46

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
VPS28	PF03997	44 - 179	4.6e-51	VPS28 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: 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)	184, 258
AcoI	YGGCCR	1 cut(s)	255
AcsI	RAATTY	2 cut(s)	49, 283
AfeI	AGCGCT	1 cut(s)	140
AfiI	CCNNNNNNNGG	2 cut(s)	352, 545
AgsI	TTSAA	4 cut(s)	95, 310, 316, 421
AjiI	CACGTC	1 cut(s)	115
AjnI	CCWGG	1 cut(s)	482
AluBI	AGCT	7 cut(s)	13, 91, 176, 236, 379, 490, 533
AluI	AGCT	7 cut(s)	13, 91, 176, 236, 379, 490, 533
Alw21I	GWGCWC	3 cut(s)	222, 278, 342
Alw44I	GTGCAC	2 cut(s)	274, 338
Aor51HI	AGCGCT	1 cut(s)	140
AoxI	GGCC	3 cut(s)	78, 255, 480
ApaLI	GTGCAC	2 cut(s)	274, 338
ApeKI	GCWGC	8 cut(s)	173, 227, 230, 233, 260, 455, 487, 530
ApoI	RAATTY	2 cut(s)	49, 283
AspLEI	GCGC	2 cut(s)	141, 455
AspS9I	GGNCC	1 cut(s)	355
AsuHPI	GGTGA	1 cut(s)	424
AvaII	GGWCC	1 cut(s)	355
BaeGI	GKGCMC	2 cut(s)	278, 342
Bbv12I	GWGCWC	3 cut(s)	222, 278, 342
BbvI	GCAGC	8 cut(s)	185, 214, 217, 245, 247, 467, 499, 542
BccI	CCATC	2 cut(s)	154, 442
BceAI	ACGGC	1 cut(s)	309
BciT130I	CCWGG	1 cut(s)	484
BclI	TGATCA	1 cut(s)	331
BfmI	CTRYAG	2 cut(s)	210, 231
BfoI	RGCGCY	1 cut(s)	142
BisI	GCNGC	9 cut(s)	174, 228, 231, 234, 258, 261, 456, 488, 531
BlsI	GCNGC	9 cut(s)	175, 229, 232, 235, 259, 262, 457, 489, 532
Bme1390I	CCNGG	1 cut(s)	484
Bme18I	GGWCC	1 cut(s)	355
BmgBI	CACGTC	1 cut(s)	115
BmgT120I	GGNCC	1 cut(s)	355
BmiI	GGNNCC	1 cut(s)	204
BmrFI	CCNGG	1 cut(s)	484
BsaAI	YACGTR	1 cut(s)	153
BsaWI	WCCGGW	1 cut(s)	394
Bsc4I	CCNNNNNNNGG	2 cut(s)	352, 545
Bse3DI	GCAATG	1 cut(s)	303
BseBI	CCWGG	1 cut(s)	484
BseGI	GGATG	1 cut(s)	509
BseLI	CCNNNNNNNGG	2 cut(s)	352, 545
BseMI	GCAATG	1 cut(s)	303
BseMII	CTCAG	2 cut(s)	48, 75
BseSI	GKGCMC	2 cut(s)	278, 342
BseX3I	CGGCCG	1 cut(s)	255
BseXI	GCAGC	8 cut(s)	185, 214, 217, 245, 247, 467, 499, 542
BseYI	CCCAGC	1 cut(s)	169
Bsh1236I	CGCG	1 cut(s)	111
Bsh1285I	CGRYCG	1 cut(s)	258
BshFI	GGCC	3 cut(s)	80, 257, 482
BsiEI	CGRYCG	1 cut(s)	258
BsiHKAI	GWGCWC	3 cut(s)	222, 278, 342
BsiSI	CCGG	1 cut(s)	395
BslI	CCNNNNNNNGG	2 cut(s)	352, 545
BsnI	GGCC	3 cut(s)	80, 257, 482
Bsp1286I	GDGCHC	3 cut(s)	222, 278, 342
Bsp143I	GATC	3 cut(s)	117, 331, 499
Bsp68I	TCGCGA	1 cut(s)	111
BspACI	CCGC	2 cut(s)	184, 258
BspANI	GGCC	3 cut(s)	80, 257, 482
BspCNI	CTCAG	2 cut(s)	49, 76
BspFNI	CGCG	1 cut(s)	111
BspLI	GGNNCC	1 cut(s)	204
BspMAI	CTGCAG	1 cut(s)	235
BsrDI	GCAATG	1 cut(s)	303
BssMI	GATC	3 cut(s)	117, 331, 499
Bst2UI	CCWGG	1 cut(s)	484
Bst4CI	ACNGT	1 cut(s)	214
Bst6I	CTCTTC	1 cut(s)	127
BstBAI	YACGTR	1 cut(s)	153
BstC8I	GCNNGC	1 cut(s)	441
BstDEI	CTNAG	2 cut(s)	57, 84
BstF5I	GGATG	1 cut(s)	509
BstFNI	CGCG	1 cut(s)	111
BstH2I	RGCGCY	1 cut(s)	142
BstHHI	GCGC	2 cut(s)	141, 455
BstKTI	GATC	3 cut(s)	120, 334, 502
BstMBI	GATC	3 cut(s)	117, 331, 499
BstMCI	CGRYCG	1 cut(s)	258
BstMWI	GCNNNNNNNGC	3 cut(s)	233, 266, 440
BstNI	CCWGG	1 cut(s)	484
BstSCI	CCNGG	1 cut(s)	482
BstSFI	CTRYAG	2 cut(s)	210, 231
BstSLI	GKGCMC	2 cut(s)	278, 342
BstSNI	TACGTA	1 cut(s)	153
BstUI	CGCG	1 cut(s)	111
BstV1I	GCAGC	8 cut(s)	185, 214, 217, 245, 247, 467, 499, 542
BstZI	CGGCCG	1 cut(s)	255
BsuRI	GGCC	3 cut(s)	80, 257, 482
BtrI	CACGTC	1 cut(s)	115
BtsCI	GGATG	1 cut(s)	509
BtsIMutI	CAGTG	2 cut(s)	81, 219
BtuMI	TCGCGA	1 cut(s)	111
Cac8I	GCNNGC	1 cut(s)	441
CfoI	GCGC	2 cut(s)	141, 455
Cfr13I	GGNCC	1 cut(s)	355
CviAII	CATG	1 cut(s)	244
DdeI	CTNAG	2 cut(s)	57, 84
DpnI	GATC	3 cut(s)	119, 333, 501
DpnII	GATC	3 cut(s)	117, 331, 499
EaeI	YGGCCR	1 cut(s)	255
EagI	CGGCCG	1 cut(s)	255
Eam1104I	CTCTTC	1 cut(s)	127
EarI	CTCTTC	1 cut(s)	127
EclXI	CGGCCG	1 cut(s)	255
Eco105I	TACGTA	1 cut(s)	153
Eco47I	GGWCC	1 cut(s)	355
Eco47III	AGCGCT	1 cut(s)	140
Eco52I	CGGCCG	1 cut(s)	255
EcoRII	CCWGG	1 cut(s)	482
FaeI	CATG	1 cut(s)	247
FalI	AAGNNNNNCTT	2 cut(s)	368, 400
FatI	CATG	1 cut(s)	243
FbaI	TGATCA	1 cut(s)	331
Fnu4HI	GCNGC	9 cut(s)	174, 228, 231, 234, 258, 261, 456, 488, 531
FokI	GGATG	1 cut(s)	496
Fsp4HI	GCNGC	9 cut(s)	174, 228, 231, 234, 258, 261, 456, 488, 531
GlaI	GCGC	2 cut(s)	140, 454
GluI	GCNGC	9 cut(s)	174, 228, 231, 234, 258, 261, 456, 488, 531
GsaI	CCCAGC	1 cut(s)	173
HaeII	RGCGCY	1 cut(s)	142
HaeIII	GGCC	3 cut(s)	80, 257, 482
HapII	CCGG	1 cut(s)	395
HhaI	GCGC	2 cut(s)	141, 455
Hin1II	CATG	1 cut(s)	247
Hin6I	GCGC	2 cut(s)	139, 453
HinP1I	GCGC	2 cut(s)	139, 453
HincII	GTYRAC	1 cut(s)	468
HindII	GTYRAC	1 cut(s)	468
HindIII	AAGCTT	1 cut(s)	89
HinfI	GANTC	2 cut(s)	302, 506
HpaII	CCGG	1 cut(s)	395
HphI	GGTGA	1 cut(s)	424
Hpy166II	GTNNAC	3 cut(s)	276, 340, 468
Hpy188I	TCNGA	2 cut(s)	58, 355
Hpy188III	TCNNGA	2 cut(s)	110, 503
Hpy8I	GTNNAC	3 cut(s)	276, 340, 468
Hpy99I	CGWCG	1 cut(s)	116
HpyAV	CCTTC	2 cut(s)	403, 415
HpyCH4III	ACNGT	1 cut(s)	214
HpyCH4IV	ACGT	2 cut(s)	114, 152
HpyCH4V	TGCA	6 cut(s)	146, 233, 276, 326, 340, 434
HpyF10VI	GCNNNNNNNGC	3 cut(s)	233, 266, 440
HpyF3I	CTNAG	2 cut(s)	57, 84
HpySE526I	ACGT	2 cut(s)	114, 152
Hsp92II	CATG	1 cut(s)	247
HspAI	GCGC	2 cut(s)	139, 453
Ksp22I	TGATCA	1 cut(s)	331
Kzo9I	GATC	3 cut(s)	117, 331, 499
LmnI	GCTCC	1 cut(s)	217
Lsp1109I	GCAGC	8 cut(s)	185, 214, 217, 245, 247, 467, 499, 542
MaeII	ACGT	2 cut(s)	114, 152
MaeIII	GTNAC	1 cut(s)	190
MalI	GATC	3 cut(s)	119, 333, 501
MboI	GATC	3 cut(s)	117, 331, 499
MboII	GAAGA	2 cut(s)	114, 231
MhlI	GDGCHC	3 cut(s)	222, 278, 342
MluCI	AATT	3 cut(s)	49, 283, 550
MlyI	GAGTC	1 cut(s)	296
MnlI	CCTC	2 cut(s)	205, 368
MseI	TTAA	1 cut(s)	9
MspA1I	CMGCKG	1 cut(s)	260
MspI	CCGG	1 cut(s)	395
MspR9I	CCNGG	1 cut(s)	484
MvaI	CCWGG	1 cut(s)	484
MvnI	CGCG	1 cut(s)	111
MwoI	GCNNNNNNNGC	3 cut(s)	233, 266, 440
NdeII	GATC	3 cut(s)	117, 331, 499
NlaIII	CATG	1 cut(s)	247
NlaIV	GGNNCC	1 cut(s)	204
NmuCI	GTSAC	1 cut(s)	190
NruI	TCGCGA	1 cut(s)	111
PfeI	GAWTC	1 cut(s)	506
PkrI	GCNGC	9 cut(s)	175, 229, 232, 235, 259, 262, 457, 489, 532
PleI	GAGTC	1 cut(s)	296
PpsI	GAGTC	1 cut(s)	296
Ppu21I	YACGTR	1 cut(s)	153
PsiI	TTATAA	1 cut(s)	74
Psp6I	CCWGG	1 cut(s)	482
PspFI	CCCAGC	1 cut(s)	169
PspGI	CCWGG	1 cut(s)	482
PspN4I	GGNNCC	1 cut(s)	204
PspPI	GGNCC	1 cut(s)	355
PstI	CTGCAG	1 cut(s)	235
RruI	TCGCGA	1 cut(s)	111
SaqAI	TTAA	1 cut(s)	9
SatI	GCNGC	9 cut(s)	174, 228, 231, 234, 258, 261, 456, 488, 531
Sau3AI	GATC	3 cut(s)	117, 331, 499
Sau96I	GGNCC	1 cut(s)	355
SchI	GAGTC	1 cut(s)	296
ScrFI	CCNGG	1 cut(s)	484
SduI	GDGCHC	3 cut(s)	222, 278, 342
SfcI	CTRYAG	2 cut(s)	210, 231
SinI	GGWCC	1 cut(s)	355
SnaBI	TACGTA	1 cut(s)	153
Sse9I	AATT	3 cut(s)	49, 283, 550
SsiI	CCGC	2 cut(s)	184, 258
StyD4I	CCNGG	1 cut(s)	482
TaaI	ACNGT	1 cut(s)	214
TaiI	ACGT	2 cut(s)	117, 155
TaqI	TCGA	1 cut(s)	504
TasI	AATT	3 cut(s)	49, 283, 550
TauI	GCSGC	1 cut(s)	260
TfiI	GAWTC	1 cut(s)	506
Tru1I	TTAA	1 cut(s)	9
Tru9I	TTAA	1 cut(s)	9
TscAI	CASTG	2 cut(s)	88, 219
TseFI	GTSAC	1 cut(s)	190
TseI	GCWGC	8 cut(s)	173, 227, 230, 233, 260, 455, 487, 530
Tsp45I	GTSAC	1 cut(s)	190
TspDTI	ATGAA	4 cut(s)	60, 114, 240, 277
TspRI	CASTG	2 cut(s)	88, 219
VneI	GTGCAC	2 cut(s)	274, 338
VpaK11BI	GGWCC	1 cut(s)	355
XapI	RAATTY	2 cut(s)	49, 283

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