Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr3

Orthogroup ID

OG0012571

Physical Location & Seq

Genomic Coordinates Forward (+)

67975577 .. 67979590

Gene Structure 4014 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000015573

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1161 bp

ATGGAGGGATCCTCCTCCTCCTCGTCTTCCTATTCCTCGCCGTCTTCGGCCATCTTCTATGACTTTCTCGACCGAATGCGAAACCCTGCTTCCCTCGATCTCGTCCGGTCCATAAAAAGCTTTATTGTATCGTTTTCGTTTTACCCTGCCAACCCTGAAAATGATGGCAAAAGAGTTCAAGAGTTCTTCGCGACAATGGAAGATTCAATTAGGGATCATCCCTTGTGGGCAGGTGCCACTGATCAAGAAGTTGAAAGTGCAATGGAGGGTTTGGAGAAGTATGTCATGACAAAATTGTTCTCCCGCACCTTTTCTTCGTCTCCTGAGGATGCAAAGATTGACCTTGAAGTCTCACAGAAAATACAGTTGTTGCAGACTTTCTTGAAGCCTGAGCATCTAGATATTCCGCTAGTTCTACGCAATGAAGCTTCATGGCTGCTTGCAGAAAAAGAGTTGCAGAAAATCAATGCTTTCAAAGCCCCTCGTGAGAAGCATCTCTGTATCATGAATTGTTGCAAGGTCATTAACAATCTGTTGCTCAATGCATCAATGTCAGAAAAACATGTACTAGCTGGAGCTGATGACTTCCTTCCTGTCCTTATATATGTTACGATCAAGGCCAATCCTCCACAATTACATTCCAACCTCAAATTTATCCAGTTATATCGAAGGCAGGCAAAACTTGTGTCAGAAGCGGCCTATTACCTCACCAATCTTGTCTCAGCTAAAACATTTGTCTCTGAGTTAAATGCTAAATCTCTTTCGATTGATGAAATCGAATTTGAAGAGAATATGCAAGCAGCGAGACTGACCAATAAAGAGACACAAAAGGAGGCCACACTCACTCTGGAAGAAATGACAACCTCACAAGATCATGAAGATCCTGGCCCTTCATTGAGATCGCATGATAAAGAAACAAGGGGTGGGTCAAATTACCCCTATATGGACAAAGAAGCTGGGGATTTGACAGTTGGAGATGTGGAGAGGTTGCTGAGTGTGTACAAGGAAGTTGTTACCAAGTATACTAGCTTGTGCACCGCTTTTAGGCAGCTTTCATTATCTAGGATAGAAAACCATGTCACTAATTTAGAAGATAGAAACGTCTCATCCACACAATCGACGGAAACAGGTATGAATCCAGGTCAAAGAGATGGAGAGTGA

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

387

Amino Acids

43.54

Weight (kDa)

5.19

Isoelectric Point (pI)

45.25

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
DUF5601	PF18151	36 - 100	1.4e-16	Domain of unknown function (DUF5601)
VPS9	PF02204	147 - 249	1.2e-30	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)
AarI	CACCTGC	1 cut(s)	221
AasI	GACNNNNNNGTC	1 cut(s)	347
Acc36I	ACCTGC	1 cut(s)	221
AccB1I	GGYRCC	1 cut(s)	233
AccI	GTMKAC	1 cut(s)	1022
AccII	CGCG	1 cut(s)	191
AciI	CCGC	4 cut(s)	304, 407, 695, 1038
AclWI	GGATC	4 cut(s)	3, 16, 222, 875
AcoI	YGGCCR	1 cut(s)	48
AcsI	RAATTY	2 cut(s)	650, 779
AfaI	GTAC	2 cut(s)	567, 1001
AfiI	CCNNNNNNNGG	2 cut(s)	943, 1044
AflIII	ACRYGT	1 cut(s)	562
AgsI	TTSAA	7 cut(s)	179, 207, 254, 347, 385, 475, 785
AjnI	CCWGG	2 cut(s)	883, 1138
AluBI	AGCT	8 cut(s)	120, 428, 572, 578, 725, 956, 1029, 1051
AluI	AGCT	8 cut(s)	120, 428, 572, 578, 725, 956, 1029, 1051
Alw21I	GWGCWC	1 cut(s)	1037
Alw26I	GTCTC	7 cut(s)	324, 355, 724, 742, 799, 815, 1108
Alw44I	GTGCAC	1 cut(s)	1033
AlwI	GGATC	4 cut(s)	3, 16, 222, 875
AoxI	GGCC	5 cut(s)	48, 618, 696, 834, 886
ApaLI	GTGCAC	1 cut(s)	1033
ApeKI	GCWGC	3 cut(s)	436, 800, 1048
ApoI	RAATTY	2 cut(s)	650, 779
ArsI	GACNNNNNNTTYG	2 cut(s)	671, 703
AspS9I	GGNCC	2 cut(s)	108, 887
AsuHPI	GGTGA	1 cut(s)	700
AvaII	GGWCC	1 cut(s)	108
AxyI	CCTNAGG	1 cut(s)	324
BaeGI	GKGCMC	1 cut(s)	1037
BamHI	GGATCC	1 cut(s)	8
BanI	GGYRCC	1 cut(s)	233
BauI	CACGAG	1 cut(s)	483
BbsI	GAAGAC	2 cut(s)	18, 36
Bbv12I	GWGCWC	1 cut(s)	1037
BbvI	GCAGC	3 cut(s)	423, 812, 1060
BccI	CCATC	3 cut(s)	59, 158, 1145
BceAI	ACGGC	1 cut(s)	25
BciT130I	CCWGG	2 cut(s)	885, 1140
BclI	TGATCA	1 cut(s)	241
BcoDI	GTCTC	7 cut(s)	324, 355, 724, 742, 799, 815, 1108
BfaI	CTAG	5 cut(s)	398, 410, 569, 1026, 1062
BfuAI	ACCTGC	1 cut(s)	221
BisI	GCNGC	4 cut(s)	437, 696, 801, 1049
BlsI	GCNGC	4 cut(s)	438, 697, 802, 1050
Bme1390I	CCNGG	2 cut(s)	885, 1140
Bme18I	GGWCC	1 cut(s)	108
BmgT120I	GGNCC	2 cut(s)	108, 887
BmiI	GGNNCC	2 cut(s)	10, 235
BmrFI	CCNGG	2 cut(s)	885, 1140
BmsI	GCATC	4 cut(s)	319, 403, 502, 554
BpiI	GAAGAC	2 cut(s)	18, 36
BplI	GAGNNNNNCTC	1 cut(s)	28
BpmI	CTGGAG	1 cut(s)	594
Bpu10I	CCTNAGC	1 cut(s)	390
BsaWI	WCCGGW	1 cut(s)	105
Bsc4I	CCNNNNNNNGG	2 cut(s)	943, 1044
Bse1I	ACTGG	1 cut(s)	658
Bse21I	CCTNAGG	1 cut(s)	324
Bse3DI	GCAATG	2 cut(s)	267, 427
BseBI	CCWGG	2 cut(s)	885, 1140
BseGI	GGATG	3 cut(s)	217, 334, 1106
BseLI	CCNNNNNNNGG	2 cut(s)	943, 1044
BseMI	GCAATG	2 cut(s)	267, 427
BseMII	CTCAG	5 cut(s)	315, 381, 732, 735, 983
BseNI	ACTGG	1 cut(s)	658
BseRI	GAGGAG	3 cut(s)	4, 7, 10
BseSI	GKGCMC	1 cut(s)	1037
BseXI	GCAGC	3 cut(s)	423, 812, 1060
BseYI	CCCAGC	1 cut(s)	956
Bsh1236I	CGCG	1 cut(s)	191
Bsh1285I	CGRYCG	1 cut(s)	73
BshFI	GGCC	5 cut(s)	50, 620, 698, 836, 888
BshNI	GGYRCC	1 cut(s)	233
BsiEI	CGRYCG	1 cut(s)	73
BsiHKAI	GWGCWC	1 cut(s)	1037
BsiSI	CCGG	1 cut(s)	106
BslI	CCNNNNNNNGG	2 cut(s)	943, 1044
BsmAI	GTCTC	7 cut(s)	324, 355, 724, 742, 799, 815, 1108
BsmBI	CGTCTC	2 cut(s)	324, 1108
BsmI	GAATGC	1 cut(s)	81
BsnI	GGCC	5 cut(s)	50, 620, 698, 836, 888
Bsp1286I	GDGCHC	1 cut(s)	1037
Bsp1407I	TGTACA	1 cut(s)	999
Bsp143I	GATC	8 cut(s)	8, 97, 214, 241, 612, 871, 880, 899
Bsp68I	TCGCGA	1 cut(s)	191
BspACI	CCGC	4 cut(s)	304, 407, 695, 1038
BspANI	GGCC	5 cut(s)	50, 620, 698, 836, 888
BspCNI	CTCAG	5 cut(s)	316, 382, 733, 734, 984
BspFNI	CGCG	1 cut(s)	191
BspHI	TCATGA	3 cut(s)	285, 504, 874
BspLI	GGNNCC	2 cut(s)	10, 235
BspMI	ACCTGC	1 cut(s)	221
BspPI	GGATC	4 cut(s)	3, 16, 222, 875
BspT107I	GGYRCC	1 cut(s)	233
BsrDI	GCAATG	2 cut(s)	267, 427
BsrGI	TGTACA	1 cut(s)	999
BsrI	ACTGG	1 cut(s)	658
BssMI	GATC	8 cut(s)	8, 97, 214, 241, 612, 871, 880, 899
BssNAI	GTATAC	1 cut(s)	1023
BssSI	CACGAG	1 cut(s)	483
Bst1107I	GTATAC	1 cut(s)	1023
Bst2BI	CACGAG	1 cut(s)	483
Bst2UI	CCWGG	2 cut(s)	885, 1140
Bst4CI	ACNGT	2 cut(s)	366, 970
Bst6I	CTCTTC	1 cut(s)	780
BstAUI	TGTACA	1 cut(s)	999
BstC8I	GCNNGC	3 cut(s)	441, 675, 798
BstDEI	CTNAG	5 cut(s)	324, 390, 721, 741, 992
BstF5I	GGATG	3 cut(s)	217, 334, 1106
BstFNI	CGCG	1 cut(s)	191
BstKTI	GATC	8 cut(s)	11, 100, 217, 244, 615, 874, 883, 902
BstMAI	GTCTC	7 cut(s)	324, 355, 724, 742, 799, 815, 1108
BstMBI	GATC	8 cut(s)	8, 97, 214, 241, 612, 871, 880, 899
BstMCI	CGRYCG	1 cut(s)	73
BstMWI	GCNNNNNNNGC	1 cut(s)	476
BstNI	CCWGG	2 cut(s)	885, 1140
BstNSI	RCATGY	1 cut(s)	566
BstSCI	CCNGG	2 cut(s)	883, 1138
BstSLI	GKGCMC	1 cut(s)	1037
BstUI	CGCG	1 cut(s)	191
BstV1I	GCAGC	3 cut(s)	423, 812, 1060
BstV2I	GAAGAC	2 cut(s)	18, 36
BstX2I	RGATCY	2 cut(s)	8, 880
BstYI	RGATCY	2 cut(s)	8, 880
BstZ17I	GTATAC	1 cut(s)	1023
Bsu36I	CCTNAGG	1 cut(s)	324
BsuRI	GGCC	5 cut(s)	50, 620, 698, 836, 888
BtsCI	GGATG	3 cut(s)	217, 334, 1106
BtsIMutI	CAGTG	1 cut(s)	237
BtuMI	TCGCGA	1 cut(s)	191
BveI	ACCTGC	1 cut(s)	221
Cac8I	GCNNGC	3 cut(s)	441, 675, 798
CciI	TCATGA	3 cut(s)	285, 504, 874
Cfr13I	GGNCC	2 cut(s)	108, 887
Csp6I	GTAC	2 cut(s)	566, 1000
CviAII	CATG	7 cut(s)	286, 432, 505, 563, 875, 905, 1076
CviQI	GTAC	2 cut(s)	566, 1000
DdeI	CTNAG	5 cut(s)	324, 390, 721, 741, 992
DpnI	GATC	8 cut(s)	10, 99, 216, 243, 614, 873, 882, 901
DpnII	GATC	8 cut(s)	8, 97, 214, 241, 612, 871, 880, 899
DrdI	GACNNNNNNGTC	1 cut(s)	347
DseDI	GACNNNNNNGTC	1 cut(s)	347
EaeI	YGGCCR	1 cut(s)	48
Eam1104I	CTCTTC	1 cut(s)	780
EarI	CTCTTC	1 cut(s)	780
Eco47I	GGWCC	1 cut(s)	108
Eco81I	CCTNAGG	1 cut(s)	324
EcoRII	CCWGG	2 cut(s)	883, 1138
EcoT22I	ATGCAT	1 cut(s)	547
Esp3I	CGTCTC	2 cut(s)	324, 1108
FaeI	CATG	7 cut(s)	289, 435, 508, 566, 878, 908, 1079
FatI	CATG	7 cut(s)	285, 431, 504, 562, 874, 904, 1075
FauI	CCCGC	1 cut(s)	311
FbaI	TGATCA	1 cut(s)	241
FblI	GTMKAC	1 cut(s)	1022
Fnu4HI	GCNGC	4 cut(s)	437, 696, 801, 1049
FokI	GGATG	3 cut(s)	204, 341, 1093
Fsp4HI	GCNGC	4 cut(s)	437, 696, 801, 1049
FspBI	CTAG	5 cut(s)	398, 410, 569, 1026, 1062
GluI	GCNGC	4 cut(s)	437, 696, 801, 1049
GsaI	CCCAGC	1 cut(s)	960
GsuI	CTGGAG	1 cut(s)	594
HaeIII	GGCC	5 cut(s)	50, 620, 698, 836, 888
HapII	CCGG	1 cut(s)	106
Hin1II	CATG	7 cut(s)	289, 435, 508, 566, 878, 908, 1079
HindIII	AAGCTT	2 cut(s)	118, 426
HinfI	GANTC	2 cut(s)	203, 1135
HpaII	CCGG	1 cut(s)	106
HphI	GGTGA	1 cut(s)	700
Hpy166II	GTNNAC	3 cut(s)	1000, 1023, 1035
Hpy188I	TCNGA	3 cut(s)	556, 691, 742
Hpy8I	GTNNAC	3 cut(s)	1000, 1023, 1035
Hpy99I	CGWCG	1 cut(s)	1123
HpyAV	CCTTC	3 cut(s)	599, 663, 900
HpyCH4III	ACNGT	2 cut(s)	366, 970
HpyCH4IV	ACGT	1 cut(s)	1101
HpyCH4V	TGCA	9 cut(s)	260, 332, 373, 443, 457, 516, 545, 796, 1035
HpyF10VI	GCNNNNNNNGC	1 cut(s)	476
HpyF3I	CTNAG	5 cut(s)	324, 390, 721, 741, 992
HpySE526I	ACGT	1 cut(s)	1101
Hsp92II	CATG	7 cut(s)	289, 435, 508, 566, 878, 908, 1079
Ksp22I	TGATCA	1 cut(s)	241
Kzo9I	GATC	8 cut(s)	8, 97, 214, 241, 612, 871, 880, 899
LmnI	GCTCC	1 cut(s)	575
Lsp1109I	GCAGC	3 cut(s)	423, 812, 1060
LweI	GCATC	4 cut(s)	319, 403, 502, 554
MaeI	CTAG	5 cut(s)	398, 410, 569, 1026, 1062
MaeII	ACGT	1 cut(s)	1101
MaeIII	GTNAC	3 cut(s)	607, 1012, 1078
MalI	GATC	8 cut(s)	10, 99, 216, 243, 614, 873, 882, 901
MboI	GATC	8 cut(s)	8, 97, 214, 241, 612, 871, 880, 899
MflI	RGATCY	2 cut(s)	8, 880
MhlI	GDGCHC	1 cut(s)	1037
MluCI	AATT	8 cut(s)	207, 293, 508, 632, 650, 779, 931, 1084
MmeI	TCCRAC	2 cut(s)	666, 952
Mph1103I	ATGCAT	1 cut(s)	547
MseI	TTAA	2 cut(s)	525, 746
MspI	CCGG	1 cut(s)	106
MspR9I	CCNGG	2 cut(s)	885, 1140
Mva1269I	GAATGC	1 cut(s)	81
MvaI	CCWGG	2 cut(s)	885, 1140
MvnI	CGCG	1 cut(s)	191
MwoI	GCNNNNNNNGC	1 cut(s)	476
NdeII	GATC	8 cut(s)	8, 97, 214, 241, 612, 871, 880, 899
NlaIII	CATG	7 cut(s)	289, 435, 508, 566, 878, 908, 1079
NlaIV	GGNNCC	2 cut(s)	10, 235
NmuCI	GTSAC	1 cut(s)	1078
NruI	TCGCGA	1 cut(s)	191
NsiI	ATGCAT	1 cut(s)	547
NspI	RCATGY	1 cut(s)	566
PagI	TCATGA	3 cut(s)	285, 504, 874
PaqCI	CACCTGC	1 cut(s)	221
PciI	ACATGT	1 cut(s)	562
PctI	GAATGC	1 cut(s)	81
PfeI	GAWTC	2 cut(s)	203, 1135
PkrI	GCNGC	4 cut(s)	438, 697, 802, 1050
PscI	ACATGT	1 cut(s)	562
Psp6I	CCWGG	2 cut(s)	883, 1138
PspFI	CCCAGC	1 cut(s)	956
PspGI	CCWGG	2 cut(s)	883, 1138
PspN4I	GGNNCC	2 cut(s)	10, 235
PspPI	GGNCC	2 cut(s)	108, 887
PsuI	RGATCY	2 cut(s)	8, 880
RruI	TCGCGA	1 cut(s)	191
RsaI	GTAC	2 cut(s)	567, 1001
RsaNI	GTAC	2 cut(s)	566, 1000
SaqAI	TTAA	2 cut(s)	525, 746
SatI	GCNGC	4 cut(s)	437, 696, 801, 1049
Sau3AI	GATC	8 cut(s)	8, 97, 214, 241, 612, 871, 880, 899
Sau96I	GGNCC	2 cut(s)	108, 887
ScrFI	CCNGG	2 cut(s)	885, 1140
SduI	GDGCHC	1 cut(s)	1037
SfaNI	GCATC	4 cut(s)	319, 403, 502, 554
SinI	GGWCC	1 cut(s)	108
Sse9I	AATT	8 cut(s)	207, 293, 508, 632, 650, 779, 931, 1084
SsiI	CCGC	4 cut(s)	304, 407, 695, 1038
SspMI	CTAG	5 cut(s)	398, 410, 569, 1026, 1062
StyD4I	CCNGG	2 cut(s)	883, 1138
TaaI	ACNGT	2 cut(s)	366, 970
TaiI	ACGT	1 cut(s)	1104
TaqI	TCGA	6 cut(s)	69, 96, 667, 764, 777, 1118
TaqII	GACCGA	1 cut(s)	87
TasI	AATT	8 cut(s)	207, 293, 508, 632, 650, 779, 931, 1084
TatI	WGTACW	2 cut(s)	565, 999
TauI	GCSGC	1 cut(s)	698
TfiI	GAWTC	2 cut(s)	203, 1135
Tru1I	TTAA	2 cut(s)	525, 746
Tru9I	TTAA	2 cut(s)	525, 746
TscAI	CASTG	1 cut(s)	244
TseFI	GTSAC	1 cut(s)	1078
TseI	GCWGC	3 cut(s)	436, 800, 1048
Tsp45I	GTSAC	1 cut(s)	1078
TspDTI	ATGAA	8 cut(s)	420, 438, 521, 786, 882, 891, 1044, 1148
TspGWI	ACGGA	1 cut(s)	1136
TspRI	CASTG	1 cut(s)	244
VneI	GTGCAC	1 cut(s)	1033
VpaK11BI	GGWCC	1 cut(s)	108
XapI	RAATTY	2 cut(s)	650, 779
XbaI	TCTAGA	1 cut(s)	397
XceI	RCATGY	1 cut(s)	566
XcmI	CCANNNNNNNNNTGG	1 cut(s)	844
XmiI	GTMKAC	1 cut(s)	1022
XspI	CTAG	5 cut(s)	398, 410, 569, 1026, 1062
Zsp2I	ATGCAT	1 cut(s)	547

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