Basic Information

Type: gene

Biological Identity

Species

malus_domestica

Chromosome

Chr10

Orthogroup ID

OG0012571

Physical Location & Seq

Genomic Coordinates Forward (+)

234418 .. 243095

Gene Structure 8678 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

MD10G1001000.v1.1.491

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1122 bp

ATGGAGGGATTGTCATCCTCTTCCGCTATTTTCTACGACTTTCTCGATCGAATGCGAAACCCTGCTTCCCTCGATCTCGTCCGATCTATCAAAAGTTTTATCGTTTCCTTCTCGTTTTACGCGGCCAACCCTGAAAGTGATGGCAAAAAGGTTCAAGAGTTCTACGCAACCATGGAAGATAATATTAGGGATCATCCTTTGTGGGCAGGTGCCACTGATCAGGAAGTCGATTGTGCAATGGAGGGTTTGGAGAAATATGTCATGACAAAGTTGTTTTCCCGGACCTTTGCTTCTTCACCCGAGGATGCAAAGATTGACCTTGAAACCTCGCACAAAATACACTTGCTGGAGACCTTCTTGAAGCCTGAGCATCTGGATATTCCAGTAGTTCTGCGCAATGAAGCTTCATGGCTGCTTGCAGAAAAAGAATTGCAGAAAATCAATGCGTTCAAAGCCCCTCGTGAAAAGCTTCTCTGTATTATGAATTGTTGCAAGGTCATTAACAATCTGTTACTGAATGCATCAATGTCAGAAAATCATGTATTAGCAGGAGCTGATGACTTCCTTCCTGTCCTTATATATGCCAATCCTCCACAGTTGCATTCCAACCTCAGATTTATTCAGTTATATCGAAGGCAGACAAAACTTGTGTCGGAAGCGGCTTATTACTTCACCAATCTTGTCTCAGCCAAAACATTTATTCTTGAGTTAAATGCTAAATCTCTTTCTATTGATGAAATCGAATTTGAAGAGAGTATGCATGCCGCAAGATTGACCAATAAAGCTACAGAAAAGGACGCCACACAAGCTTTGGAAGAAATGACAACCTCACAAGGCCAGACAGATCCTGGTTCATCAGCGGTGTTGCATTATAAAGAGAGAAGCGGTTCACCAAATTATCCTTATATGGACAAAGAGGCTGGAGATTTGACAGTTGGAGATGTCGAAAGACTGCTGAGTGCGTACAAGGAAGTGGTTACCATGTATACCAGTCTGTGTACGGCTGTTAGAAACCTTTCTTTTTCAAGGGCTGAACCCCATGCCACTAATTTAGAAGCTAAAATTGTAGTGTCGACACAGGCGGAGAAAACTGGTAAGAATTCCGATCAAGGAGGAGGATGA

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

374

Amino Acids

41.75

Weight (kDa)

5.26

Isoelectric Point (pI)

45.16

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
DUF5601	PF18151	28 - 92	1.3e-16	Domain of unknown function (DUF5601)
VPS9	PF02204	139 - 237	4.4e-26	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

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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)
AanI	TTATAA	1 cut(s)	873
AarI	CACCTGC	1 cut(s)	197
Acc16I	TGCGCA	1 cut(s)	395
Acc36I	ACCTGC	1 cut(s)	197
AccB1I	GGYRCC	1 cut(s)	209
AccI	GTMKAC	2 cut(s)	986, 1073
AccII	CGCG	1 cut(s)	122
AciI	CCGC	7 cut(s)	24, 122, 659, 765, 860, 885, 1082
AclWI	GGATC	2 cut(s)	198, 839
AcoI	YGGCCR	1 cut(s)	123
AcsI	RAATTY	2 cut(s)	743, 1099
AcyI	GRCGYC	1 cut(s)	798
AfaI	GTAC	2 cut(s)	965, 1000
AgsI	TTSAA	6 cut(s)	155, 323, 361, 451, 749, 1026
AjnI	CCWGG	1 cut(s)	847
AluBI	AGCT	6 cut(s)	404, 469, 554, 785, 809, 1058
AluI	AGCT	6 cut(s)	404, 469, 554, 785, 809, 1058
Alw26I	GTCTC	2 cut(s)	344, 688
AlwI	GGATC	2 cut(s)	198, 839
AlwNI	CAGNNNCTG	2 cut(s)	554, 848
Ama87I	CYCGRG	1 cut(s)	299
AoxI	GGCC	2 cut(s)	123, 835
ApeKI	GCWGC	1 cut(s)	412
ApoI	RAATTY	2 cut(s)	743, 1099
ArsI	GACNNNNNNTTYG	2 cut(s)	635, 667
Asp700I	GAANNNNTTC	3 cut(s)	468, 886, 1015
AspLEI	GCGC	1 cut(s)	396
AspS9I	GGNCC	1 cut(s)	282
AsuC2I	CCSGG	1 cut(s)	280
AsuHPI	GGTGA	3 cut(s)	288, 664, 882
AvaI	CYCGRG	1 cut(s)	299
AvaII	GGWCC	1 cut(s)	282
BanI	GGYRCC	1 cut(s)	209
BauI	CACGAG	1 cut(s)	459
BbvI	GCAGC	1 cut(s)	399
BccI	CCATC	1 cut(s)	134
BceAI	ACGGC	1 cut(s)	1017
BciT130I	CCWGG	1 cut(s)	849
BclI	TGATCA	1 cut(s)	217
BcnI	CCSGG	1 cut(s)	280
BcoDI	GTCTC	2 cut(s)	344, 688
BfmI	CTRYAG	1 cut(s)	786
BfuAI	ACCTGC	1 cut(s)	197
BisI	GCNGC	4 cut(s)	123, 413, 660, 765
BlsI	GCNGC	4 cut(s)	124, 414, 661, 766
Bme1390I	CCNGG	2 cut(s)	280, 849
Bme18I	GGWCC	1 cut(s)	282
BmeT110I	CYCGRG	1 cut(s)	299
BmgT120I	GGNCC	1 cut(s)	282
BmiI	GGNNCC	1 cut(s)	211
BmrFI	CCNGG	2 cut(s)	280, 849
BmsI	GCATC	3 cut(s)	295, 379, 530
BpmI	CTGGAG	2 cut(s)	368, 942
Bpu10I	CCTNAGC	1 cut(s)	366
BpuEI	CTTGAG	1 cut(s)	725
BpuMI	CCSGG	1 cut(s)	280
BsaBI	GATNNNNATC	1 cut(s)	13
BsaHI	GRCGYC	1 cut(s)	798
BsaI	GGTCTC	1 cut(s)	344
BsaJI	CCNNGG	2 cut(s)	171, 300
BsaXI	ACNNNNNCTCC	1 cut(s)	26
Bse1I	ACTGG	3 cut(s)	383, 990, 1096
Bse3DI	GCAATG	2 cut(s)	243, 403
Bse8I	GATNNNNATC	1 cut(s)	13
BseBI	CCWGG	1 cut(s)	849
BseDI	CCNNGG	2 cut(s)	171, 300
BseGI	GGATG	3 cut(s)	14, 193, 310
BseJI	GATNNNNATC	1 cut(s)	13
BseMI	GCAATG	2 cut(s)	243, 403
BseMII	CTCAG	4 cut(s)	357, 625, 699, 947
BseNI	ACTGG	3 cut(s)	383, 990, 1096
BseXI	GCAGC	1 cut(s)	399
Bsh1236I	CGCG	1 cut(s)	122
Bsh1285I	CGRYCG	1 cut(s)	49
BshFI	GGCC	2 cut(s)	125, 837
BshNI	GGYRCC	1 cut(s)	209
BsiEI	CGRYCG	1 cut(s)	49
BsiHKCI	CYCGRG	1 cut(s)	299
BsiSI	CCGG	1 cut(s)	280
BsmAI	GTCTC	2 cut(s)	344, 688
BsmI	GAATGC	3 cut(s)	57, 523, 601
BsnI	GGCC	2 cut(s)	125, 837
Bso31I	GGTCTC	1 cut(s)	344
BsoBI	CYCGRG	1 cut(s)	299
Bsp143I	GATC	7 cut(s)	46, 73, 83, 190, 217, 844, 1105
Bsp19I	CCATGG	1 cut(s)	171
BspACI	CCGC	7 cut(s)	24, 122, 659, 765, 860, 885, 1082
BspANI	GGCC	2 cut(s)	125, 837
BspCNI	CTCAG	4 cut(s)	358, 624, 698, 948
BspFNI	CGCG	1 cut(s)	122
BspHI	TCATGA	1 cut(s)	261
BspLI	GGNNCC	1 cut(s)	211
BspMI	ACCTGC	1 cut(s)	197
BspPI	GGATC	2 cut(s)	198, 839
BspT107I	GGYRCC	1 cut(s)	209
BspTNI	GGTCTC	1 cut(s)	344
BsrDI	GCAATG	2 cut(s)	243, 403
BsrI	ACTGG	3 cut(s)	383, 990, 1096
BssECI	CCNNGG	2 cut(s)	171, 300
BssMI	GATC	7 cut(s)	46, 73, 83, 190, 217, 844, 1105
BssNAI	GTATAC	1 cut(s)	987
BssNI	GRCGYC	1 cut(s)	798
BssSI	CACGAG	1 cut(s)	459
BssT1I	CCWWGG	1 cut(s)	171
Bst1107I	GTATAC	1 cut(s)	987
Bst2BI	CACGAG	1 cut(s)	459
Bst2UI	CCWGG	1 cut(s)	849
Bst4CI	ACNGT	2 cut(s)	597, 934
Bst6I	CTCTTC	2 cut(s)	25, 744
BstACI	GRCGYC	1 cut(s)	798
BstC8I	GCNNGC	2 cut(s)	417, 762
BstDEI	CTNAG	4 cut(s)	366, 611, 685, 956
BstDSI	CCRYGG	1 cut(s)	171
BstEII	GGTNACC	1 cut(s)	976
BstF5I	GGATG	3 cut(s)	14, 193, 310
BstFNI	CGCG	1 cut(s)	122
BstHHI	GCGC	1 cut(s)	396
BstKTI	GATC	7 cut(s)	49, 76, 86, 193, 220, 847, 1108
BstMAI	GTCTC	2 cut(s)	344, 688
BstMBI	GATC	7 cut(s)	46, 73, 83, 190, 217, 844, 1105
BstMCI	CGRYCG	1 cut(s)	49
BstMWI	GCNNNNNNNGC	2 cut(s)	452, 806
BstNI	CCWGG	1 cut(s)	849
BstNSI	RCATGY	1 cut(s)	764
BstPI	GGTNACC	1 cut(s)	976
BstSCI	CCNGG	2 cut(s)	278, 847
BstSFI	CTRYAG	1 cut(s)	786
BstUI	CGCG	1 cut(s)	122
BstV1I	GCAGC	1 cut(s)	399
BstX2I	RGATCY	1 cut(s)	844
BstYI	RGATCY	1 cut(s)	844
BstZ17I	GTATAC	1 cut(s)	987
BsuRI	GGCC	2 cut(s)	125, 837
BtgI	CCRYGG	1 cut(s)	171
BtsCI	GGATG	3 cut(s)	14, 193, 310
BtsIMutI	CAGTG	1 cut(s)	213
BveI	ACCTGC	1 cut(s)	197
Cac8I	GCNNGC	2 cut(s)	417, 762
CaiI	CAGNNNCTG	2 cut(s)	554, 848
CciI	TCATGA	1 cut(s)	261
CfoI	GCGC	1 cut(s)	396
Cfr13I	GGNCC	1 cut(s)	282
CseI	GACGC	1 cut(s)	806
Csp6I	GTAC	2 cut(s)	964, 999
CviAII	CATG	7 cut(s)	172, 262, 408, 539, 761, 982, 1040
CviQI	GTAC	2 cut(s)	964, 999
DdeI	CTNAG	4 cut(s)	366, 611, 685, 956
DpnI	GATC	7 cut(s)	48, 75, 85, 192, 219, 846, 1107
DpnII	GATC	7 cut(s)	46, 73, 83, 190, 217, 844, 1105
EaeI	YGGCCR	1 cut(s)	123
Eam1104I	CTCTTC	2 cut(s)	25, 744
EarI	CTCTTC	2 cut(s)	25, 744
EciI	GGCGGA	1 cut(s)	1097
Eco130I	CCWWGG	1 cut(s)	171
Eco31I	GGTCTC	1 cut(s)	344
Eco47I	GGWCC	1 cut(s)	282
Eco88I	CYCGRG	1 cut(s)	299
Eco91I	GGTNACC	1 cut(s)	976
EcoO65I	GGTNACC	1 cut(s)	976
EcoRI	GAATTC	1 cut(s)	1099
EcoRII	CCWGG	1 cut(s)	847
EcoT14I	CCWWGG	1 cut(s)	171
EcoT22I	ATGCAT	2 cut(s)	523, 762
ErhI	CCWWGG	1 cut(s)	171
FaeI	CATG	7 cut(s)	175, 265, 411, 542, 764, 985, 1043
FatI	CATG	7 cut(s)	171, 261, 407, 538, 760, 981, 1039
FbaI	TGATCA	1 cut(s)	217
FblI	GTMKAC	2 cut(s)	986, 1073
Fnu4HI	GCNGC	4 cut(s)	123, 413, 660, 765
FokI	GGATG	2 cut(s)	180, 317
Fsp4HI	GCNGC	4 cut(s)	123, 413, 660, 765
FspI	TGCGCA	1 cut(s)	395
GlaI	GCGC	1 cut(s)	395
GluI	GCNGC	4 cut(s)	123, 413, 660, 765
GsuI	CTGGAG	2 cut(s)	368, 942
HaeIII	GGCC	2 cut(s)	125, 837
HapII	CCGG	1 cut(s)	280
HgaI	GACGC	1 cut(s)	806
HhaI	GCGC	1 cut(s)	396
Hin1I	GRCGYC	1 cut(s)	798
Hin1II	CATG	7 cut(s)	175, 265, 411, 542, 764, 985, 1043
Hin6I	GCGC	1 cut(s)	394
HinP1I	GCGC	1 cut(s)	394
HincII	GTYRAC	1 cut(s)	1074
HindII	GTYRAC	1 cut(s)	1074
HindIII	AAGCTT	3 cut(s)	402, 467, 807
HpaII	CCGG	1 cut(s)	280
HphI	GGTGA	3 cut(s)	288, 664, 882
Hpy166II	GTNNAC	4 cut(s)	890, 987, 999, 1074
Hpy188I	TCNGA	5 cut(s)	83, 532, 614, 655, 1105
Hpy188III	TCNNGA	8 cut(s)	44, 155, 221, 262, 358, 374, 461, 704
Hpy8I	GTNNAC	4 cut(s)	890, 987, 999, 1074
HpyAV	CCTTC	4 cut(s)	118, 364, 575, 627
HpyCH4III	ACNGT	2 cut(s)	597, 934
HpyCH4V	TGCA	9 cut(s)	236, 308, 419, 433, 492, 521, 601, 760, 868
HpyF10VI	GCNNNNNNNGC	2 cut(s)	452, 806
HpyF3I	CTNAG	4 cut(s)	366, 611, 685, 956
Hsp92I	GRCGYC	1 cut(s)	798
Hsp92II	CATG	7 cut(s)	175, 265, 411, 542, 764, 985, 1043
HspAI	GCGC	1 cut(s)	394
Ksp22I	TGATCA	1 cut(s)	217
Kzo9I	GATC	7 cut(s)	46, 73, 83, 190, 217, 844, 1105
LmnI	GCTCC	1 cut(s)	551
Lsp1109I	GCAGC	1 cut(s)	399
LweI	GCATC	3 cut(s)	295, 379, 530
MaeIII	GTNAC	2 cut(s)	510, 976
MalI	GATC	7 cut(s)	48, 75, 85, 192, 219, 846, 1107
MboI	GATC	7 cut(s)	46, 73, 83, 190, 217, 844, 1105
MboII	GAAGA	5 cut(s)	12, 188, 285, 761, 827
MflI	RGATCY	1 cut(s)	844
MluCI	AATT	7 cut(s)	428, 484, 743, 895, 1048, 1062, 1099
MmeI	TCCRAC	3 cut(s)	630, 633, 916
Mph1103I	ATGCAT	2 cut(s)	523, 762
MroXI	GAANNNNTTC	3 cut(s)	468, 886, 1015
MseI	TTAA	2 cut(s)	501, 710
MspA1I	CMGCKG	1 cut(s)	860
MspI	CCGG	1 cut(s)	280
MspR9I	CCNGG	2 cut(s)	280, 849
Mva1269I	GAATGC	3 cut(s)	57, 523, 601
MvaI	CCWGG	1 cut(s)	849
MvnI	CGCG	1 cut(s)	122
MwoI	GCNNNNNNNGC	2 cut(s)	452, 806
NciI	CCSGG	1 cut(s)	280
NcoI	CCATGG	1 cut(s)	171
NdeII	GATC	7 cut(s)	46, 73, 83, 190, 217, 844, 1105
NlaIII	CATG	7 cut(s)	175, 265, 411, 542, 764, 985, 1043
NlaIV	GGNNCC	1 cut(s)	211
NsbI	TGCGCA	1 cut(s)	395
NsiI	ATGCAT	2 cut(s)	523, 762
NspI	RCATGY	1 cut(s)	764
PaeI	GCATGC	1 cut(s)	764
PagI	TCATGA	1 cut(s)	261
PaqCI	CACCTGC	1 cut(s)	197
PcsI	WCGNNNNNNNCGW	1 cut(s)	42
PctI	GAATGC	3 cut(s)	57, 523, 601
PdmI	GAANNNNTTC	3 cut(s)	468, 886, 1015
PfoI	TCCNGGA	1 cut(s)	278
PkrI	GCNGC	4 cut(s)	124, 414, 661, 766
Ple19I	CGATCG	1 cut(s)	49
PsiI	TTATAA	1 cut(s)	873
Psp6I	CCWGG	1 cut(s)	847
PspEI	GGTNACC	1 cut(s)	976
PspGI	CCWGG	1 cut(s)	847
PspN4I	GGNNCC	1 cut(s)	211
PspPI	GGNCC	1 cut(s)	282
PstNI	CAGNNNCTG	2 cut(s)	554, 848
PsuI	RGATCY	1 cut(s)	844
PvuI	CGATCG	1 cut(s)	49
RsaI	GTAC	2 cut(s)	965, 1000
RsaNI	GTAC	2 cut(s)	964, 999
SalI	GTCGAC	1 cut(s)	1072
SaqAI	TTAA	2 cut(s)	501, 710
SatI	GCNGC	4 cut(s)	123, 413, 660, 765
Sau3AI	GATC	7 cut(s)	46, 73, 83, 190, 217, 844, 1105
Sau96I	GGNCC	1 cut(s)	282
ScrFI	CCNGG	2 cut(s)	280, 849
SfaNI	GCATC	3 cut(s)	295, 379, 530
SfcI	CTRYAG	1 cut(s)	786
SinI	GGWCC	1 cut(s)	282
SmlI	CTYRAG	1 cut(s)	704
SmoI	CTYRAG	1 cut(s)	704
SphI	GCATGC	1 cut(s)	764
Sse9I	AATT	7 cut(s)	428, 484, 743, 895, 1048, 1062, 1099
SsiI	CCGC	7 cut(s)	24, 122, 659, 765, 860, 885, 1082
SspI	AATATT	1 cut(s)	184
StyD4I	CCNGG	2 cut(s)	278, 847
StyI	CCWWGG	1 cut(s)	171
TaaI	ACNGT	2 cut(s)	597, 934
TaqI	TCGA	8 cut(s)	45, 49, 72, 228, 631, 741, 945, 1073
TasI	AATT	7 cut(s)	428, 484, 743, 895, 1048, 1062, 1099
TauI	GCSGC	3 cut(s)	125, 662, 767
Tru1I	TTAA	2 cut(s)	501, 710
Tru9I	TTAA	2 cut(s)	501, 710
TscAI	CASTG	1 cut(s)	220
TseI	GCWGC	1 cut(s)	412
TspDTI	ATGAA	5 cut(s)	396, 414, 497, 750, 843
TspRI	CASTG	1 cut(s)	220
VpaK11BI	GGWCC	1 cut(s)	282
XapI	RAATTY	2 cut(s)	743, 1099
XceI	RCATGY	1 cut(s)	764
XcmI	CCANNNNNNNNNTGG	2 cut(s)	808, 845
XmiI	GTMKAC	2 cut(s)	986, 1073
XmnI	GAANNNNTTC	3 cut(s)	468, 886, 1015
Zsp2I	ATGCAT	2 cut(s)	523, 762

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