Basic Information

Type: gene

Biological Identity

Species

pyrus_communis

Chromosome

Chr5

Orthogroup ID

OG0012571

Physical Location & Seq

Genomic Coordinates Reverse (-)

99131 .. 101187

Gene Structure 2057 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

pycom05g00040.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 717 bp

ATGCGATACCCTGCTTCCCTCGATCTCGTCCGATCTATCAAAAGTTTTATCGTTTCCTTGTCGTTTTACGCGGCCAACCCTGAAAGTGATGGCAAAAAGGTTCAGGAATTCTACGCAAAGATGGAAGATATTATTAGGGATCATCCTTTGTGGGCAGGTGCCACTGATGAGGAAGTCAATTGTGGTTTGGAGAAATATGTCATGACAAAGTTGTTTTCCCGGACCTTTGCTTCTTCACCCGAGGATGCAAAGATTGACCTTGAAACCTCGCACAAAATACACTTGCTGCAGACCTTCTTGAAGCCTGAGCATCTGGATATTCCAGTAGTTCTGCGCAACGAAGCTTCAGGGCTGCTTGCAGAAAAAGAATTGCGGAAAATCAATGCCTTCAAAGCCCATTGTTGCAAAGTCATTAACAATCTGTTGCTGAATGCATCAATGTCAGAGAATCATGTATTAGCAGGAGCTGATGACTTCCTTCCTGTCCTTATATATGTCATCGATCAAGGCAAGCTTCCCTTGGTAATAAGCCATTCTGTCAATCGTGCCAGTTTTAATTTTTCAGATTTTAACAGTGTGAGGTCACATCGTACATGCCTAAAGATATTTGGTTTTATTACCTCATTTGTTTGGTTCTGGAGTGTGTTAAATGTTAATTTTTTTTCCTTACTATTGATTGCCTTGTCAGCATCATCAGAGTGTTTTAGTTGGTCATAA

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

VPS9

Protein Analysis

239

Amino Acids

26.93

Weight (kDa)

6.44

Isoelectric Point (pI)

37.11

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
DUF5601	PF18151	11 - 72	5.9e-11	Domain of unknown function (DUF5601)
VPS9	PF02204	133 - 179	3.7e-06	Vacuolar sorting protein 9 (VPS9) domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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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: OG0012571)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_2g00230 FvH4_2g00230
malus_domestica	MD10G1001000.v1.1
prunus_persica	Prupe.8G002200_v2.0.a1 Prupe.8G002200_v2.0.a1 Prupe.8G002200_v2.0.a1 Prupe.8G002200_v2.0.a1
pyrus_communis	pycom05g00040 pycom10g00130
rosa_chinensis	RchiOBHm_Chr6g0249521
rosa_laevigata	RLG00000015573
rosa_roxburghii	Rroxscaffold_7G00217600
rosa_rugosa	Rorug05G0493100 Rorug05G0493200.1
rosa_samantha	Rh6AG002900 Rh6BG007200 Rh6CG001900 Rh6DG001900
rosa_wichuraiana	Rw6G000330

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	1 cut(s)	146
Acc16I	TGCGCA	1 cut(s)	335
Acc36I	ACCTGC	1 cut(s)	146
AccB1I	GGYRCC	1 cut(s)	158
AccII	CGCG	1 cut(s)	71
AciI	CCGC	2 cut(s)	71, 373
AclWI	GGATC	1 cut(s)	147
AcoI	YGGCCR	1 cut(s)	72
AcsI	RAATTY	1 cut(s)	107
AcuI	CTGAAG	1 cut(s)	330
AfaI	GTAC	1 cut(s)	592
AgsI	TTSAA	3 cut(s)	263, 301, 391
AluBI	AGCT	3 cut(s)	344, 467, 514
AluI	AGCT	3 cut(s)	344, 467, 514
AlwI	GGATC	1 cut(s)	147
AlwNI	CAGNNNCTG	1 cut(s)	467
Ama87I	CYCGRG	1 cut(s)	239
AoxI	GGCC	1 cut(s)	72
ApeKI	GCWGC	2 cut(s)	286, 352
ApoI	RAATTY	1 cut(s)	107
AspLEI	GCGC	1 cut(s)	336
AspS9I	GGNCC	1 cut(s)	222
AsuC2I	CCSGG	1 cut(s)	220
AsuHPI	GGTGA	1 cut(s)	228
AvaI	CYCGRG	1 cut(s)	239
AvaII	GGWCC	1 cut(s)	222
BanI	GGYRCC	1 cut(s)	158
BbvI	GCAGC	2 cut(s)	273, 339
BccI	CCATC	2 cut(s)	83, 115
BcnI	CCSGG	1 cut(s)	220
BfmI	CTRYAG	1 cut(s)	287
BfuAI	ACCTGC	1 cut(s)	146
BisI	GCNGC	3 cut(s)	72, 287, 353
BlsI	GCNGC	3 cut(s)	73, 288, 354
Bme1390I	CCNGG	1 cut(s)	220
Bme18I	GGWCC	1 cut(s)	222
BmeT110I	CYCGRG	1 cut(s)	239
BmgT120I	GGNCC	1 cut(s)	222
BmiI	GGNNCC	1 cut(s)	160
BmrFI	CCNGG	1 cut(s)	220
BmsI	GCATC	4 cut(s)	235, 319, 443, 698
BpmI	CTGGAG	1 cut(s)	658
Bpu10I	CCTNAGC	1 cut(s)	306
BpuMI	CCSGG	1 cut(s)	220
Bsa29I	ATCGAT	1 cut(s)	501
BsaJI	CCNNGG	2 cut(s)	240, 519
Bse1I	ACTGG	2 cut(s)	323, 549
BseCI	ATCGAT	1 cut(s)	501
BseDI	CCNNGG	2 cut(s)	240, 519
BseGI	GGATG	2 cut(s)	142, 250
BseMII	CTCAG	1 cut(s)	297
BseNI	ACTGG	2 cut(s)	323, 549
BseXI	GCAGC	2 cut(s)	273, 339
Bsh1236I	CGCG	1 cut(s)	71
BshFI	GGCC	1 cut(s)	74
BshNI	GGYRCC	1 cut(s)	158
BshVI	ATCGAT	1 cut(s)	501
BsiHKCI	CYCGRG	1 cut(s)	239
BsiSI	CCGG	1 cut(s)	220
BsmI	GAATGC	1 cut(s)	436
BsnI	GGCC	1 cut(s)	74
BsoBI	CYCGRG	1 cut(s)	239
Bsp143I	GATC	4 cut(s)	22, 32, 139, 502
BspACI	CCGC	2 cut(s)	71, 373
BspANI	GGCC	1 cut(s)	74
BspCNI	CTCAG	1 cut(s)	298
BspDI	ATCGAT	1 cut(s)	501
BspFNI	CGCG	1 cut(s)	71
BspHI	TCATGA	1 cut(s)	201
BspLI	GGNNCC	1 cut(s)	160
BspMAI	CTGCAG	1 cut(s)	291
BspMI	ACCTGC	1 cut(s)	146
BspPI	GGATC	1 cut(s)	147
BspT107I	GGYRCC	1 cut(s)	158
BsrI	ACTGG	2 cut(s)	323, 549
BssECI	CCNNGG	2 cut(s)	240, 519
BssMI	GATC	4 cut(s)	22, 32, 139, 502
BssT1I	CCWWGG	1 cut(s)	519
Bst4CI	ACNGT	1 cut(s)	575
BstC8I	GCNNGC	2 cut(s)	357, 512
BstDEI	CTNAG	1 cut(s)	306
BstF5I	GGATG	2 cut(s)	142, 250
BstFNI	CGCG	1 cut(s)	71
BstHHI	GCGC	1 cut(s)	336
BstKTI	GATC	4 cut(s)	25, 35, 142, 505
BstMBI	GATC	4 cut(s)	22, 32, 139, 502
BstMWI	GCNNNNNNNGC	2 cut(s)	392, 686
BstNSI	RCATGY	1 cut(s)	597
BstSCI	CCNGG	1 cut(s)	218
BstSFI	CTRYAG	1 cut(s)	287
BstUI	CGCG	1 cut(s)	71
BstV1I	GCAGC	2 cut(s)	273, 339
Bsu15I	ATCGAT	1 cut(s)	501
BsuRI	GGCC	1 cut(s)	74
BsuTUI	ATCGAT	1 cut(s)	501
BtsCI	GGATG	2 cut(s)	142, 250
BtsIMutI	CAGTG	2 cut(s)	162, 580
BveI	ACCTGC	1 cut(s)	146
Cac8I	GCNNGC	2 cut(s)	357, 512
CaiI	CAGNNNCTG	1 cut(s)	467
CciI	TCATGA	1 cut(s)	201
CfoI	GCGC	1 cut(s)	336
Cfr13I	GGNCC	1 cut(s)	222
ClaI	ATCGAT	1 cut(s)	501
Csp6I	GTAC	1 cut(s)	591
CviAII	CATG	3 cut(s)	202, 452, 594
CviJI	RGCY	8 cut(s)	74, 304, 344, 352, 395, 467, 514, 531
CviKI_1	RGCY	8 cut(s)	74, 304, 344, 352, 395, 467, 514, 531
CviQI	GTAC	1 cut(s)	591
DdeI	CTNAG	1 cut(s)	306
DpnI	GATC	4 cut(s)	24, 34, 141, 504
DpnII	GATC	4 cut(s)	22, 32, 139, 502
EaeI	YGGCCR	1 cut(s)	72
Eco130I	CCWWGG	1 cut(s)	519
Eco47I	GGWCC	1 cut(s)	222
Eco57I	CTGAAG	1 cut(s)	330
Eco88I	CYCGRG	1 cut(s)	239
EcoRI	GAATTC	1 cut(s)	107
EcoT14I	CCWWGG	1 cut(s)	519
EcoT22I	ATGCAT	1 cut(s)	436
ErhI	CCWWGG	1 cut(s)	519
FaeI	CATG	3 cut(s)	205, 455, 597
FaiI	YATR	8 cut(s)	198, 203, 453, 491, 493, 495, 595, 715
FalI	AAGNNNNNCTT	4 cut(s)	498, 530, 503, 535
FatI	CATG	3 cut(s)	201, 451, 593
Fnu4HI	GCNGC	3 cut(s)	72, 287, 353
FokI	GGATG	2 cut(s)	129, 257
Fsp4HI	GCNGC	3 cut(s)	72, 287, 353
FspI	TGCGCA	1 cut(s)	335
GlaI	GCGC	1 cut(s)	335
GluI	GCNGC	3 cut(s)	72, 287, 353
GsuI	CTGGAG	1 cut(s)	658
HaeIII	GGCC	1 cut(s)	74
HapII	CCGG	1 cut(s)	220
HhaI	GCGC	1 cut(s)	336
Hin1II	CATG	3 cut(s)	205, 455, 597
Hin6I	GCGC	1 cut(s)	334
HinP1I	GCGC	1 cut(s)	334
HindIII	AAGCTT	2 cut(s)	342, 512
HinfI	GANTC	1 cut(s)	448
HpaII	CCGG	1 cut(s)	220
HphI	GGTGA	1 cut(s)	228
Hpy188I	TCNGA	4 cut(s)	32, 445, 565, 697
Hpy188III	TCNNGA	5 cut(s)	104, 202, 298, 314, 637
HpyAV	CCTTC	3 cut(s)	304, 397, 488
HpyCH4III	ACNGT	1 cut(s)	575
HpyCH4V	TGCA	5 cut(s)	248, 289, 359, 405, 434
HpyF10VI	GCNNNNNNNGC	2 cut(s)	392, 686
HpyF3I	CTNAG	1 cut(s)	306
Hsp92II	CATG	3 cut(s)	205, 455, 597
HspAI	GCGC	1 cut(s)	334
Kzo9I	GATC	4 cut(s)	22, 32, 139, 502
LmnI	GCTCC	1 cut(s)	464
Lsp1109I	GCAGC	2 cut(s)	273, 339
LweI	GCATC	4 cut(s)	235, 319, 443, 698
MaeIII	GTNAC	1 cut(s)	582
MalI	GATC	4 cut(s)	24, 34, 141, 504
MboI	GATC	4 cut(s)	22, 32, 139, 502
MboII	GAAGA	2 cut(s)	137, 225
MfeI	CAATTG	1 cut(s)	178
MluCI	AATT	5 cut(s)	107, 178, 368, 556, 655
MnlI	CCTC	6 cut(s)	29, 163, 235, 277, 573, 631
Mph1103I	ATGCAT	1 cut(s)	436
MseI	TTAA	5 cut(s)	414, 555, 570, 647, 654
MslI	CAYNNNNRTG	1 cut(s)	697
MspI	CCGG	1 cut(s)	220
MspR9I	CCNGG	1 cut(s)	220
MunI	CAATTG	1 cut(s)	178
Mva1269I	GAATGC	1 cut(s)	436
MvnI	CGCG	1 cut(s)	71
MwoI	GCNNNNNNNGC	2 cut(s)	392, 686
NciI	CCSGG	1 cut(s)	220
NdeII	GATC	4 cut(s)	22, 32, 139, 502
NlaIII	CATG	3 cut(s)	205, 455, 597
NlaIV	GGNNCC	1 cut(s)	160
NmuCI	GTSAC	1 cut(s)	582
NsbI	TGCGCA	1 cut(s)	335
NsiI	ATGCAT	1 cut(s)	436
NspI	RCATGY	1 cut(s)	597
PagI	TCATGA	1 cut(s)	201
PaqCI	CACCTGC	1 cut(s)	146
PctI	GAATGC	1 cut(s)	436
PfeI	GAWTC	1 cut(s)	448
PfoI	TCCNGGA	1 cut(s)	218
PkrI	GCNGC	3 cut(s)	73, 288, 354
PspN4I	GGNNCC	1 cut(s)	160
PspPI	GGNCC	1 cut(s)	222
PstI	CTGCAG	1 cut(s)	291
PstNI	CAGNNNCTG	1 cut(s)	467
RsaI	GTAC	1 cut(s)	592
RsaNI	GTAC	1 cut(s)	591
RseI	CAYNNNNRTG	1 cut(s)	697
SaqAI	TTAA	5 cut(s)	414, 555, 570, 647, 654
SatI	GCNGC	3 cut(s)	72, 287, 353
Sau3AI	GATC	4 cut(s)	22, 32, 139, 502
Sau96I	GGNCC	1 cut(s)	222
ScrFI	CCNGG	1 cut(s)	220
SfaNI	GCATC	4 cut(s)	235, 319, 443, 698
SfcI	CTRYAG	1 cut(s)	287
SinI	GGWCC	1 cut(s)	222
SmiMI	CAYNNNNRTG	1 cut(s)	697
Sse9I	AATT	5 cut(s)	107, 178, 368, 556, 655
SsiI	CCGC	2 cut(s)	71, 373
StyD4I	CCNGG	1 cut(s)	218
StyI	CCWWGG	1 cut(s)	519
TaaI	ACNGT	1 cut(s)	575
TaqI	TCGA	2 cut(s)	21, 501
TasI	AATT	5 cut(s)	107, 178, 368, 556, 655
TauI	GCSGC	1 cut(s)	74
TfiI	GAWTC	1 cut(s)	448
Tru1I	TTAA	5 cut(s)	414, 555, 570, 647, 654
Tru9I	TTAA	5 cut(s)	414, 555, 570, 647, 654
TscAI	CASTG	2 cut(s)	169, 580
TseFI	GTSAC	1 cut(s)	582
TseI	GCWGC	2 cut(s)	286, 352
Tsp45I	GTSAC	1 cut(s)	582
TspRI	CASTG	2 cut(s)	169, 580
VpaK11BI	GGWCC	1 cut(s)	222
XapI	RAATTY	1 cut(s)	107
XceI	RCATGY	1 cut(s)	597
Zsp2I	ATGCAT	1 cut(s)	436

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