Basic Information

Type: gene

Biological Identity

Species

malus_domestica

Chromosome

Chr05

Orthogroup ID

OG0006238

Physical Location & Seq

Genomic Coordinates Forward (+)

45119028 .. 45120936

Gene Structure 1909 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

MD05G1324500.v1.1.491

Sequence Viewer

CDS Protein Promoter (2k)

Length: 630 bp

ATGGAGGTCAAGCTGGCCAATGACAAGCGTGAAAGAGAAATGTATGATAGTTTTGCCGAACTATACGCCATTATCAAGACCACTGAGAAGCTTGAGAAGGCGTATATTCGGGATGTGATCACTTCTTCTGCGTATGAGGCGGAATGCCAAAAACTCATTGCCCACTTTAAGACATTGGCCTCCACGCTCAAGGACACCATCCCAAGCATTGAGCGGTTTGCAGATACATACAAGATGGACTGCCCGGCGGCTATAAACCGTCTTGTGACCTCAGGGGTGCCTGCCACAGTGGAGCACCGGGCTGCTGCAGCTTCCTCCATGACTTCCTCAGCCGCCGCTGTGGCAGAATGCACACAGAATTTCATCACTGCAATGGACTCCTTGAAGCTGAATATGGTGGCAGTCGATCAGGTGCACCCGCTGCTCTCGGACCTCTCAACGTCTCTTGGAAAGTTGACCTTTCTACCACCGGACTTTTTGGGGAAGGTAAAGCTGAAGGAGTGGATTGCAAGGCTATCGAAGATGGGAGCAGCCGATGAGTTGACGGAGCAGCAGTCCAGGCAGCTTCACTTTGATCTCGAATCATCATACAACTCGTTTATGGTGGCTTTGCCGAATTATGGTAGTTGA

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

210

Amino Acids

23.16

Weight (kDa)

5.62

Isoelectric Point (pI)

31.89

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
VPS28	PF03997	18 - 203	1e-71	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

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)
AccB1I	GGYRCC	1 cut(s)	277
AccBSI	CCGCTC	1 cut(s)	214
AciI	CCGC	6 cut(s)	140, 214, 248, 333, 336, 419
AcoI	YGGCCR	1 cut(s)	15
AcsI	RAATTY	1 cut(s)	358
AcuI	CTGAAG	1 cut(s)	515
AfiI	CCNNNNNNNGG	1 cut(s)	620
AgsI	TTSAA	1 cut(s)	385
AjnI	CCWGG	1 cut(s)	557
AluBI	AGCT	6 cut(s)	13, 91, 311, 388, 493, 565
AluI	AGCT	6 cut(s)	13, 91, 311, 388, 493, 565
Alw21I	GWGCWC	2 cut(s)	297, 417
Alw26I	GTCTC	1 cut(s)	447
Alw44I	GTGCAC	1 cut(s)	413
AoxI	GGCC	2 cut(s)	15, 177
ApaLI	GTGCAC	1 cut(s)	413
ApeKI	GCWGC	7 cut(s)	302, 305, 308, 421, 530, 550, 562
ApoI	RAATTY	1 cut(s)	358
AspS9I	GGNCC	1 cut(s)	430
AsuC2I	CCSGG	2 cut(s)	245, 299
AvaII	GGWCC	1 cut(s)	430
AxyI	CCTNAGG	1 cut(s)	271
BaeGI	GKGCMC	1 cut(s)	417
BalI	TGGCCA	1 cut(s)	17
BanI	GGYRCC	1 cut(s)	277
Bbv12I	GWGCWC	2 cut(s)	297, 417
BbvCI	CCTCAGC	1 cut(s)	328
BbvI	GCAGC	7 cut(s)	289, 292, 320, 408, 542, 562, 574
BccI	CCATC	3 cut(s)	206, 229, 517
BcgI	CGANNNNNNTGC	2 cut(s)	498, 532
BciT130I	CCWGG	1 cut(s)	559
BclI	TGATCA	1 cut(s)	117
BcnI	CCSGG	2 cut(s)	245, 299
BcoDI	GTCTC	1 cut(s)	447
BfmI	CTRYAG	1 cut(s)	306
BglI	GCCNNNNNGGC	1 cut(s)	341
Bme1390I	CCNGG	3 cut(s)	245, 299, 559
Bme18I	GGWCC	1 cut(s)	430
BmgT120I	GGNCC	1 cut(s)	430
BmiI	GGNNCC	1 cut(s)	279
BmrFI	CCNGG	3 cut(s)	245, 299, 559
Bpu10I	CCTNAGC	1 cut(s)	328
BpuEI	CTTGAG	2 cut(s)	113, 173
BpuMI	CCSGG	2 cut(s)	245, 299
BsaWI	WCCGGW	1 cut(s)	469
BsaXI	ACNNNNNCTCC	2 cut(s)	539, 569
Bsc4I	CCNNNNNNNGG	1 cut(s)	620
Bse21I	CCTNAGG	1 cut(s)	271
Bse3DI	GCAATG	2 cut(s)	156, 378
BseBI	CCWGG	1 cut(s)	559
BseGI	GGATG	2 cut(s)	118, 198
BseLI	CCNNNNNNNGG	1 cut(s)	620
BseMI	GCAATG	2 cut(s)	156, 378
BseMII	CTCAG	3 cut(s)	75, 285, 342
BseSI	GKGCMC	1 cut(s)	417
BseXI	GCAGC	7 cut(s)	289, 292, 320, 408, 542, 562, 574
BshFI	GGCC	2 cut(s)	17, 179
BshNI	GGYRCC	1 cut(s)	277
BsiHKAI	GWGCWC	2 cut(s)	297, 417
BsiSI	CCGG	3 cut(s)	245, 298, 470
BslI	CCNNNNNNNGG	1 cut(s)	620
BsmAI	GTCTC	1 cut(s)	447
BsmBI	CGTCTC	1 cut(s)	447
BsmI	GAATGC	2 cut(s)	149, 353
BsnI	GGCC	2 cut(s)	17, 179
Bsp1286I	GDGCHC	2 cut(s)	297, 417
Bsp143I	GATC	3 cut(s)	117, 406, 574
BspACI	CCGC	6 cut(s)	140, 214, 248, 333, 336, 419
BspANI	GGCC	2 cut(s)	17, 179
BspCNI	CTCAG	3 cut(s)	76, 284, 341
BspLI	GGNNCC	1 cut(s)	279
BspMAI	CTGCAG	1 cut(s)	310
BspT107I	GGYRCC	1 cut(s)	277
BsrBI	CCGCTC	1 cut(s)	214
BsrDI	GCAATG	2 cut(s)	156, 378
BssMI	GATC	3 cut(s)	117, 406, 574
Bst2UI	CCWGG	1 cut(s)	559
Bst4CI	ACNGT	2 cut(s)	260, 289
BstAPI	GCANNNNNTGC	1 cut(s)	421
BstC8I	GCNNGC	2 cut(s)	15, 282
BstDEI	CTNAG	3 cut(s)	84, 271, 328
BstF5I	GGATG	2 cut(s)	118, 198
BstKTI	GATC	3 cut(s)	120, 409, 577
BstMAI	GTCTC	1 cut(s)	447
BstMBI	GATC	3 cut(s)	117, 406, 574
BstMWI	GCNNNNNNNGC	5 cut(s)	137, 308, 341, 421, 559
BstNI	CCWGG	1 cut(s)	559
BstSCI	CCNGG	3 cut(s)	243, 297, 557
BstSFI	CTRYAG	1 cut(s)	306
BstSLI	GKGCMC	1 cut(s)	417
BstV1I	GCAGC	7 cut(s)	289, 292, 320, 408, 542, 562, 574
Bsu36I	CCTNAGG	1 cut(s)	271
BsuRI	GGCC	2 cut(s)	17, 179
BtsCI	GGATG	2 cut(s)	118, 198
BtsI	GCAGTG	1 cut(s)	366
BtsIMutI	CAGTG	3 cut(s)	81, 294, 366
Cac8I	GCNNGC	2 cut(s)	15, 282
Cfr13I	GGNCC	1 cut(s)	430
CviAII	CATG	1 cut(s)	319
DdeI	CTNAG	3 cut(s)	84, 271, 328
DpnI	GATC	3 cut(s)	119, 408, 576
DpnII	GATC	3 cut(s)	117, 406, 574
EaeI	YGGCCR	1 cut(s)	15
EciI	GGCGGA	1 cut(s)	155
Eco47I	GGWCC	1 cut(s)	430
Eco57I	CTGAAG	1 cut(s)	515
Eco81I	CCTNAGG	1 cut(s)	271
EcoRII	CCWGG	1 cut(s)	557
Esp3I	CGTCTC	1 cut(s)	447
FaeI	CATG	1 cut(s)	322
FalI	AAGNNNNNCTT	2 cut(s)	443, 475
FatI	CATG	1 cut(s)	318
FauI	CCCGC	1 cut(s)	426
FbaI	TGATCA	1 cut(s)	117
FokI	GGATG	2 cut(s)	125, 185
HaeIII	GGCC	2 cut(s)	17, 179
HapII	CCGG	3 cut(s)	245, 298, 470
Hin1II	CATG	1 cut(s)	322
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	3 cut(s)	245, 298, 470
Hpy166II	GTNNAC	3 cut(s)	415, 456, 543
Hpy188I	TCNGA	1 cut(s)	430
Hpy188III	TCNNGA	3 cut(s)	76, 110, 578
Hpy8I	GTNNAC	3 cut(s)	415, 456, 543
HpyAV	CCTTC	3 cut(s)	91, 478, 490
HpyCH4III	ACNGT	2 cut(s)	260, 289
HpyCH4IV	ACGT	1 cut(s)	440
HpyCH4V	TGCA	6 cut(s)	221, 308, 351, 371, 415, 509
HpyF10VI	GCNNNNNNNGC	5 cut(s)	137, 308, 341, 421, 559
HpyF3I	CTNAG	3 cut(s)	84, 271, 328
HpySE526I	ACGT	1 cut(s)	440
Hsp92II	CATG	1 cut(s)	322
Ksp22I	TGATCA	1 cut(s)	117
Kzo9I	GATC	3 cut(s)	117, 406, 574
LmnI	GCTCC	3 cut(s)	292, 527, 547
LpnPI	CCDG	8 cut(s)	258, 258, 294, 311, 395, 483, 544, 571
Lsp1109I	GCAGC	7 cut(s)	289, 292, 320, 408, 542, 562, 574
MaeII	ACGT	1 cut(s)	440
MaeIII	GTNAC	1 cut(s)	265
MalI	GATC	3 cut(s)	119, 408, 576
MbiI	CCGCTC	1 cut(s)	214
MboI	GATC	3 cut(s)	117, 406, 574
MboII	GAAGA	2 cut(s)	117, 532
MhlI	GDGCHC	2 cut(s)	297, 417
MlsI	TGGCCA	1 cut(s)	17
MluCI	AATT	2 cut(s)	358, 616
MluNI	TGGCCA	1 cut(s)	17
MlyI	GAGTC	1 cut(s)	371
MnlI	CCTC	6 cut(s)	130, 190, 280, 325, 337, 443
Mox20I	TGGCCA	1 cut(s)	17
MscI	TGGCCA	1 cut(s)	17
MseI	TTAA	1 cut(s)	168
MslI	CAYNNNNRTG	1 cut(s)	371
Msp20I	TGGCCA	1 cut(s)	17
MspA1I	CMGCKG	2 cut(s)	338, 421
MspI	CCGG	3 cut(s)	245, 298, 470
MspR9I	CCNGG	3 cut(s)	245, 299, 559
Mva1269I	GAATGC	2 cut(s)	149, 353
MvaI	CCWGG	1 cut(s)	559
MwoI	GCNNNNNNNGC	5 cut(s)	137, 308, 341, 421, 559
NciI	CCSGG	2 cut(s)	245, 299
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
PctI	GAATGC	2 cut(s)	149, 353
PfeI	GAWTC	1 cut(s)	581
PleI	GAGTC	1 cut(s)	371
PpsI	GAGTC	1 cut(s)	371
Psp6I	CCWGG	1 cut(s)	557
PspGI	CCWGG	1 cut(s)	557
PspN4I	GGNNCC	1 cut(s)	279
PspPI	GGNCC	1 cut(s)	430
PstI	CTGCAG	1 cut(s)	310
RseI	CAYNNNNRTG	1 cut(s)	371
SaqAI	TTAA	1 cut(s)	168
Sau3AI	GATC	3 cut(s)	117, 406, 574
Sau96I	GGNCC	1 cut(s)	430
SchI	GAGTC	1 cut(s)	371
ScrFI	CCNGG	3 cut(s)	245, 299, 559
SduI	GDGCHC	2 cut(s)	297, 417
SfcI	CTRYAG	1 cut(s)	306
SinI	GGWCC	1 cut(s)	430
SmiMI	CAYNNNNRTG	1 cut(s)	371
SmlI	CTYRAG	2 cut(s)	92, 188
SmoI	CTYRAG	2 cut(s)	92, 188
Sse9I	AATT	2 cut(s)	358, 616
SsiI	CCGC	6 cut(s)	140, 214, 248, 333, 336, 419
StyD4I	CCNGG	3 cut(s)	243, 297, 557
TaaI	ACNGT	2 cut(s)	260, 289
TaiI	ACGT	1 cut(s)	443
TaqI	TCGA	3 cut(s)	405, 518, 579
TasI	AATT	2 cut(s)	358, 616
TauI	GCSGC	3 cut(s)	251, 335, 338
TfiI	GAWTC	1 cut(s)	581
Tru1I	TTAA	1 cut(s)	168
Tru9I	TTAA	1 cut(s)	168
TscAI	CASTG	3 cut(s)	88, 294, 373
TseFI	GTSAC	1 cut(s)	265
TseI	GCWGC	7 cut(s)	302, 305, 308, 421, 530, 550, 562
Tsp45I	GTSAC	1 cut(s)	265
TspDTI	ATGAA	1 cut(s)	352
TspGWI	ACGGA	1 cut(s)	560
TspRI	CASTG	3 cut(s)	88, 294, 373
VneI	GTGCAC	1 cut(s)	413
VpaK11BI	GGWCC	1 cut(s)	430
XapI	RAATTY	1 cut(s)	358

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