Basic Information

Type: gene

Biological Identity

Species

arabidopsis_thaliana

Chromosome

Orthogroup ID

OG0006238

Physical Location & Seq

Genomic Coordinates Reverse (-)

11468666 .. 11470569

Gene Structure 1904 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

AT4G21560.2

Sequence Viewer

CDS Protein Promoter (2k)

Length: 630 bp

ATGGAGGTCAAGTTATGGAATGATAAGCGTGAGAGAGAAATGTATGAGAATTTCGCAGAGCTTTATGCTATCATCAAAGCTACTGAGAAGCTCGAGAAGGCTTATATTCGTGATCTAATCTCTCCATCTGAATACGAAACCGAGTGCCAGAAACTCATTGTTCACTTCAAGACATTATCTGCATCTCTCAAAGATATGGTCCCAAACATTGAGAGATTTGCAGAGACGTACAAGATGGATTGCTCAGCTGCAGTTTATCGCCTTGTGACTTCTGGTGTTCCAGCTACTGTGGAGCATAGAGCTGCTGCTTCGGCTTCTACATCAAGCTCTGCTTCTGTTGTTGCTGAGTGTGTTCAGAACTTCATCACTTCCATGGATTCTTTGAAACTCAACATGGTTGCTGTTGATCAGGTGTATCCGTTGTTGTCTGATCTCTCGGCTTCTCTTAACAAACTAAGTATATTGCCACCAGATTTCGAGGGGAAGATTAAGATGAAGGAATGGCTTTTGAGGCTGTCAAAGATGGGAGCTTCAGATGAACTCACTGAGCAGCAGGCTCGGCAACTTCACTTTGATCTTGAGTCATCCTATAACTCGTTCATGGCTGCTTTGCCTAATGCTGGTAATTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000813 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005768 GO:0005794 GO:0005802 GO:0006508 GO:0006511 GO:0006807 GO:0006810 GO:0006886 GO:0007034 GO:0008104 GO:0008150 GO:0008152 GO:0009056 GO:0009057 GO:0009987 GO:0010008 GO:0012505 GO:0015031 GO:0015833 GO:0016020 GO:0016192 GO:0016197 GO:0019538 GO:0019941 GO:0030163 GO:0031090 GO:0031410 GO:0031982 GO:0031984 GO:0032509 GO:0032511 GO:0032991 GO:0033036 GO:0033365 GO:0034613 GO:0036452 GO:0042886 GO:0043162 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043328 GO:0043632 GO:0044237 GO:0044238 GO:0044248 GO:0044257 GO:0044260 GO:0044265 GO:0044267 GO:0044422 GO:0044424 GO:0044425 GO:0044431 GO:0044433 GO:0044440 GO:0044444 GO:0044446 GO:0044464 GO:0045184 GO:0045324 GO:0046907 GO:0051179 GO:0051234 GO:0051603 GO:0051641 GO:0051649 GO:0070727 GO:0071702 GO:0071704 GO:0071705 GO:0071985 GO:0072594 GO:0072665 GO:0072666 GO:0097708 GO:0098588 GO:0098791 GO:0098796 GO:0098805 GO:1901564 GO:1901565 GO:1901575

KEGG Pathways

Metabolic & Signaling

ko04144 map04144

Pfam Domains

Protein Families

VPS28

Protein Analysis

209

Amino Acids

23.49

Weight (kDa)

5.21

Isoelectric Point (pI)

37.9

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
VPS28	PF03997	18 - 204	1.6e-72	VPS28 protein

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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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)
AcsI	RAATTY	1 cut(s)	49
AcuI	CTGAAG	1 cut(s)	516
AfaI	GTAC	1 cut(s)	230
AfiI	CCNNNNNNNGG	1 cut(s)	620
AgsI	TTSAA	2 cut(s)	169, 385
AluBI	AGCT	8 cut(s)	61, 80, 91, 248, 284, 302, 327, 530
AluI	AGCT	8 cut(s)	61, 80, 91, 248, 284, 302, 327, 530
Alw26I	GTCTC	1 cut(s)	218
AlwNI	CAGNNNCTG	1 cut(s)	287
Ama87I	CYCGRG	1 cut(s)	92
ApeKI	GCWGC	5 cut(s)	248, 302, 305, 550, 605
ApoI	RAATTY	1 cut(s)	49
ArsI	GACNNNNNNTTYG	2 cut(s)	183, 215
AspS9I	GGNCC	1 cut(s)	199
AvaI	CYCGRG	1 cut(s)	92
AvaII	GGWCC	1 cut(s)	199
BbvI	GCAGC	5 cut(s)	235, 289, 292, 562, 592
BccI	CCATC	3 cut(s)	133, 229, 517
BcgI	CGANNNNNNTGC	2 cut(s)	539, 573
BciVI	GTATCC	1 cut(s)	426
BclI	TGATCA	1 cut(s)	406
BcoDI	GTCTC	1 cut(s)	218
BfmI	CTRYAG	1 cut(s)	249
BfuI	GTATCC	1 cut(s)	426
BisI	GCNGC	5 cut(s)	249, 303, 306, 551, 606
BlpI	GCTNAGC	1 cut(s)	244
BlsI	GCNGC	5 cut(s)	250, 304, 307, 552, 607
Bme18I	GGWCC	1 cut(s)	199
BmeT110I	CYCGRG	1 cut(s)	92
BmgT120I	GGNCC	1 cut(s)	199
BmiI	GGNNCC	1 cut(s)	201
BmsI	GCATC	1 cut(s)	191
Bpu1102I	GCTNAGC	1 cut(s)	244
BpuEI	CTTGAG	1 cut(s)	599
BsaJI	CCNNGG	1 cut(s)	372
BsaXI	ACNNNNNCTCC	1 cut(s)	26
Bsc4I	CCNNNNNNNGG	1 cut(s)	620
BseDI	CCNNGG	1 cut(s)	372
BseGI	GGATG	1 cut(s)	584
BseLI	CCNNNNNNNGG	1 cut(s)	620
BseMII	CTCAG	4 cut(s)	75, 258, 336, 537
BseXI	GCAGC	5 cut(s)	235, 289, 292, 562, 592
BsiHKCI	CYCGRG	1 cut(s)	92
BslFI	GGGAC	1 cut(s)	185
BslI	CCNNNNNNNGG	1 cut(s)	620
BsmAI	GTCTC	1 cut(s)	218
BsmBI	CGTCTC	1 cut(s)	218
BsmFI	GGGAC	1 cut(s)	185
BsoBI	CYCGRG	1 cut(s)	92
Bsp143I	GATC	4 cut(s)	112, 406, 430, 574
Bsp1720I	GCTNAGC	1 cut(s)	244
Bsp19I	CCATGG	1 cut(s)	372
BspCNI	CTCAG	4 cut(s)	76, 257, 337, 538
BspLI	GGNNCC	1 cut(s)	201
BspMAI	CTGCAG	1 cut(s)	253
BssECI	CCNNGG	1 cut(s)	372
BssMI	GATC	4 cut(s)	112, 406, 430, 574
BssT1I	CCWWGG	1 cut(s)	372
Bst4CI	ACNGT	1 cut(s)	289
BstC8I	GCNNGC	1 cut(s)	555
BstDEI	CTNAG	5 cut(s)	84, 244, 345, 455, 546
BstDSI	CCRYGG	1 cut(s)	372
BstF5I	GGATG	1 cut(s)	584
BstKTI	GATC	4 cut(s)	115, 409, 433, 577
BstMAI	GTCTC	1 cut(s)	218
BstMBI	GATC	4 cut(s)	112, 406, 430, 574
BstMWI	GCNNNNNNNGC	3 cut(s)	311, 511, 559
BstSFI	CTRYAG	1 cut(s)	249
BstV1I	GCAGC	5 cut(s)	235, 289, 292, 562, 592
BsuI	GTATCC	1 cut(s)	426
BtgI	CCRYGG	1 cut(s)	372
BtsCI	GGATG	1 cut(s)	584
BtsIMutI	CAGTG	1 cut(s)	543
Cac8I	GCNNGC	1 cut(s)	555
CaiI	CAGNNNCTG	1 cut(s)	287
Cfr13I	GGNCC	1 cut(s)	199
Csp6I	GTAC	1 cut(s)	229
CviAII	CATG	3 cut(s)	373, 394, 601
CviQI	GTAC	1 cut(s)	229
DdeI	CTNAG	5 cut(s)	84, 244, 345, 455, 546
DpnI	GATC	4 cut(s)	114, 408, 432, 576
DpnII	GATC	4 cut(s)	112, 406, 430, 574
Eco130I	CCWWGG	1 cut(s)	372
Eco47I	GGWCC	1 cut(s)	199
Eco57I	CTGAAG	1 cut(s)	516
Eco88I	CYCGRG	1 cut(s)	92
EcoT14I	CCWWGG	1 cut(s)	372
ErhI	CCWWGG	1 cut(s)	372
Esp3I	CGTCTC	1 cut(s)	218
FaeI	CATG	3 cut(s)	376, 397, 604
FalI	AAGNNNNNCTT	2 cut(s)	316, 348
FaqI	GGGAC	1 cut(s)	185
FatI	CATG	3 cut(s)	372, 393, 600
FbaI	TGATCA	1 cut(s)	406
Fnu4HI	GCNGC	5 cut(s)	249, 303, 306, 551, 606
FokI	GGATG	1 cut(s)	571
Fsp4HI	GCNGC	5 cut(s)	249, 303, 306, 551, 606
GluI	GCNGC	5 cut(s)	249, 303, 306, 551, 606
Hin1II	CATG	3 cut(s)	376, 397, 604
HinfI	GANTC	2 cut(s)	377, 581
Hpy166II	GTNNAC	1 cut(s)	163
Hpy188I	TCNGA	4 cut(s)	130, 357, 430, 535
Hpy188III	TCNNGA	4 cut(s)	94, 110, 169, 578
Hpy8I	GTNNAC	1 cut(s)	163
HpyAV	CCTTC	2 cut(s)	91, 490
HpyCH4III	ACNGT	1 cut(s)	289
HpyCH4IV	ACGT	1 cut(s)	227
HpyCH4V	TGCA	3 cut(s)	182, 221, 251
HpyF10VI	GCNNNNNNNGC	3 cut(s)	311, 511, 559
HpyF3I	CTNAG	5 cut(s)	84, 244, 345, 455, 546
HpySE526I	ACGT	1 cut(s)	227
Hsp92II	CATG	3 cut(s)	376, 397, 604
Ksp22I	TGATCA	1 cut(s)	406
Kzo9I	GATC	4 cut(s)	112, 406, 430, 574
LmnI	GCTCC	2 cut(s)	292, 527
LpnPI	CCDG	7 cut(s)	161, 258, 294, 395, 483, 539, 606
Lsp1109I	GCAGC	5 cut(s)	235, 289, 292, 562, 592
LweI	GCATC	1 cut(s)	191
MaeII	ACGT	1 cut(s)	227
MaeIII	GTNAC	1 cut(s)	265
MalI	GATC	4 cut(s)	114, 408, 432, 576
MboI	GATC	4 cut(s)	112, 406, 430, 574
MboII	GAAGA	1 cut(s)	496
MluCI	AATT	2 cut(s)	49, 625
MlyI	GAGTC	1 cut(s)	590
MnlI	CCTC	2 cut(s)	472, 504
MseI	TTAA	3 cut(s)	447, 489, 628
MslI	CAYNNNNRTG	1 cut(s)	371
MspA1I	CMGCKG	1 cut(s)	248
MwoI	GCNNNNNNNGC	3 cut(s)	311, 511, 559
NcoI	CCATGG	1 cut(s)	372
NdeII	GATC	4 cut(s)	112, 406, 430, 574
NlaIII	CATG	3 cut(s)	376, 397, 604
NlaIV	GGNNCC	1 cut(s)	201
NmeAIII	GCCGAG	2 cut(s)	416, 538
NmuCI	GTSAC	1 cut(s)	265
PaeR7I	CTCGAG	1 cut(s)	92
PfeI	GAWTC	1 cut(s)	377
PkrI	GCNGC	5 cut(s)	250, 304, 307, 552, 607
PleI	GAGTC	1 cut(s)	589
PpsI	GAGTC	1 cut(s)	589
PspN4I	GGNNCC	1 cut(s)	201
PspPI	GGNCC	1 cut(s)	199
PstI	CTGCAG	1 cut(s)	253
PstNI	CAGNNNCTG	1 cut(s)	287
PvuII	CAGCTG	1 cut(s)	248
RsaI	GTAC	1 cut(s)	230
RsaNI	GTAC	1 cut(s)	229
RseI	CAYNNNNRTG	1 cut(s)	371
SaqAI	TTAA	3 cut(s)	447, 489, 628
SatI	GCNGC	5 cut(s)	249, 303, 306, 551, 606
Sau3AI	GATC	4 cut(s)	112, 406, 430, 574
Sau96I	GGNCC	1 cut(s)	199
SchI	GAGTC	1 cut(s)	590
SfaNI	GCATC	1 cut(s)	191
SfcI	CTRYAG	1 cut(s)	249
Sfr274I	CTCGAG	1 cut(s)	92
SinI	GGWCC	1 cut(s)	199
SlaI	CTCGAG	1 cut(s)	92
SmiMI	CAYNNNNRTG	1 cut(s)	371
SmlI	CTYRAG	2 cut(s)	92, 578
SmoI	CTYRAG	2 cut(s)	92, 578
Sse9I	AATT	2 cut(s)	49, 625
StyI	CCWWGG	1 cut(s)	372
TaaI	ACNGT	1 cut(s)	289
TaiI	ACGT	1 cut(s)	230
TaqI	TCGA	2 cut(s)	93, 477
TasI	AATT	2 cut(s)	49, 625
TfiI	GAWTC	1 cut(s)	377
Tru1I	TTAA	3 cut(s)	447, 489, 628
Tru9I	TTAA	3 cut(s)	447, 489, 628
TscAI	CASTG	1 cut(s)	550
TseFI	GTSAC	1 cut(s)	265
TseI	GCWGC	5 cut(s)	248, 302, 305, 550, 605
Tsp45I	GTSAC	1 cut(s)	265
TspDTI	ATGAA	4 cut(s)	352, 509, 552, 589
TspGWI	ACGGA	1 cut(s)	408
TspRI	CASTG	1 cut(s)	550
VpaK11BI	GGWCC	1 cut(s)	199
XapI	RAATTY	1 cut(s)	49
XhoI	CTCGAG	1 cut(s)	92

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