Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr7D

Orthogroup ID

OG0008476

Physical Location & Seq

Genomic Coordinates Forward (+)

68404905 .. 68410880

Gene Structure 5976 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh7DG478700.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1182 bp

ATGGAAGTGGATTTTAGGGTTCATCCACTTTGGGCTGGTTGTTCTGAAGAGGAGCTCGATAGTGCTGGCGAGGGACTGGAGAAGTATGTCATGACAAAGTTATTTACTCGTGTATTTGCTTCACTTCCAGATGATGTAAAACTTGACAACATACTACATGAGAAGATGGCTTTGGTTCAACAATTCATTCGACCAGAAAATTTGGATATTCAGGCCCCCTTTCAAAATGAAACATCATGGCTGCTTGCACAGAAAGAACTGCAAAAGATCAATATGTACAAGGCACCAAGGGACAAGCTTGTGTGTATCCTCAATTGTTGCAAGGTTATCAATAACTTGCTGCTCAATGCTTCTATTGCTTCAAATGAGAATCCTCCTGGAGCTGATGAATTTCTTCCTGTCTTAATTTATGTTACTTTGAAGGCAAACCCTCCGCAACTGCACTCAAATTTGTTGTATATACAAAGATACAGGCGACAATCTCGATTAGTAGCAGAAGCAGCCTATTTCTTCACTAACATGCTCTCTGTCGAATCCTTCATTTCAAATATCGATGCGAAAGCCCTGTCAATGGATGAAACTGAGTTTGAAAAGAACATGGAATCTGCTCGAGCAATTCTATCAGGACTCTCAACTGATTTGAACAGCCAGCCTAATCAAAGCGGCCAACCTGTGAATATAAACAAGGAGCCAACAGCACCGCCCAAATCGTCAAAAGTTCCATCACTTTCAGATTTGGAGGATAAGGGTGCAGCACTCCTTGTAAACGATAAGCAGGCAAGCCAGGTTTTCCGGCAGTATCCATACTTGTTTGCGCATGTTGGTGATCTAACAGTCAATGATGTAGAAGACCTTCTTAATAATTACAAACAGCTTGTTTTCAAGTATGTTTGTCTCTCCAAAGGATTAGGTGATTCTGCTCCATCTCTGAACTCTTCTCTTCCTCTAAAGAGTTCAGAAACACAGGATCACCAGCATGCTGAAACTGCAAAGCAACAGGACCATACTAGAGCTGCAGAGCCTAATGATGAGCCATCAAAGGATACTGATAGAAAGGATGATGGTTCAAATACAGATTCTCTTTTTGAAGTGGAAAGTTTAGAATCTAAATTGTCAGAGGATCAAACAGTAGCACCACAAGACAGTAAACATGAAGAGTCCTCTCAATCACAGCTCTCCTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0000278 GO:0000281 GO:0000910 GO:0000911 GO:0000919 GO:0003006 GO:0003674 GO:0005085 GO:0005088 GO:0005089 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005737 GO:0005829 GO:0007049 GO:0007275 GO:0008150 GO:0009790 GO:0009791 GO:0009793 GO:0009987 GO:0010154 GO:0016020 GO:0016043 GO:0017016 GO:0017048 GO:0019899 GO:0022402 GO:0022414 GO:0022607 GO:0022622 GO:0031267 GO:0032501 GO:0032502 GO:0032506 GO:0042546 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044085 GO:0044424 GO:0044444 GO:0044464 GO:0048316 GO:0048364 GO:0048528 GO:0048608 GO:0048731 GO:0048856 GO:0051020 GO:0051301 GO:0061458 GO:0061640 GO:0065007 GO:0065009 GO:0071554 GO:0071840 GO:0090696 GO:0098772 GO:0099402 GO:1902410 GO:1903047

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

VPS9

Protein Analysis

393

Amino Acids

43.98

Weight (kDa)

4.81

Isoelectric Point (pI)

48.05

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
DUF5601	PF18151	4 - 35	8.4e-06	Domain of unknown function (DUF5601)
VPS9	PF02204	81 - 185	4.6e-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

Style Settings

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0008476)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G19770 AT3G19770 AT5G09320
fragaria_vesca	FvH4_5g38820 FvH4_5g38820
malus_domestica	MD00G1104300.v1.1 MD15G1358700.v1.1
prunus_persica	Prupe.1G506400_v2.0.a1 Prupe.1G506400_v2.0.a1
pyrus_communis	pycom08g14820 pycom15g32120
rosa_chinensis	RchiOBHm_Chr7g0240821
rosa_laevigata	RLG00000000622
rosa_multiflora	Rmu_sc0004821.1_g000014 Rmu_sc0010888.1_g000004
rosa_roxburghii	Rroxscaffold_3G00219600
rosa_rugosa	Rorug07G0339300 Rorug07G0339300
rosa_samantha	Rh7AG493500 Rh7BG465500 Rh7CG512000 Rh7DG478700
rosa_wichuraiana	Rw7G041760

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc16I	TGCGCA	1 cut(s)	816
AccB1I	GGYRCC	1 cut(s)	283
AciI	CCGC	3 cut(s)	434, 663, 701
AclWI	GGATC	2 cut(s)	975, 1128
AcoI	YGGCCR	1 cut(s)	664
AcsI	RAATTY	3 cut(s)	199, 389, 448
AcuI	CTGAAG	1 cut(s)	66
AfaI	GTAC	1 cut(s)	278
AfiI	CCNNNNNNNGG	1 cut(s)	571
AjnI	CCWGG	2 cut(s)	376, 783
AjuI	GAANNNNNNNTTGG	2 cut(s)	155, 187
AluBI	AGCT	6 cut(s)	55, 298, 383, 874, 1013, 1174
AluI	AGCT	6 cut(s)	55, 298, 383, 874, 1013, 1174
Alw21I	GWGCWC	1 cut(s)	57
Alw26I	GTCTC	1 cut(s)	899
AlwI	GGATC	2 cut(s)	975, 1128
Ama87I	CYCGRG	1 cut(s)	609
AoxI	GGCC	2 cut(s)	213, 664
ApeKI	GCWGC	5 cut(s)	241, 340, 500, 752, 1013
ApoI	RAATTY	3 cut(s)	199, 389, 448
ArsI	GACNNNNNNTTYG	2 cut(s)	551, 583
Asp700I	GAANNNNTTC	2 cut(s)	393, 852
AspLEI	GCGC	1 cut(s)	817
AspS9I	GGNCC	2 cut(s)	214, 1000
AsuHPI	GGTGA	3 cut(s)	836, 923, 962
AvaI	CYCGRG	1 cut(s)	609
AvaII	GGWCC	1 cut(s)	1000
BanI	GGYRCC	1 cut(s)	283
BanII	GRGCYC	1 cut(s)	57
BarI	GAAGNNNNNNTAC	2 cut(s)	837, 869
BauI	CACGAG	1 cut(s)	108
BbsI	GAAGAC	1 cut(s)	855
Bbv12I	GWGCWC	1 cut(s)	57
BbvI	GCAGC	5 cut(s)	228, 327, 512, 764, 1000
BccI	CCATC	5 cut(s)	160, 730, 931, 1042, 1055
BciT130I	CCWGG	2 cut(s)	378, 785
BciVI	GTATCC	3 cut(s)	317, 810, 1036
BcoDI	GTCTC	1 cut(s)	899
BfaI	CTAG	2 cut(s)	1008, 1180
BfmI	CTRYAG	1 cut(s)	1014
BfuI	GTATCC	3 cut(s)	317, 810, 1036
BisI	GCNGC	6 cut(s)	242, 341, 501, 664, 753, 1014
BlsI	GCNGC	6 cut(s)	243, 342, 502, 665, 754, 1015
Bme1390I	CCNGG	2 cut(s)	378, 785
Bme18I	GGWCC	1 cut(s)	1000
BmeT110I	CYCGRG	1 cut(s)	609
BmgT120I	GGNCC	2 cut(s)	214, 1000
BmiI	GGNNCC	3 cut(s)	216, 285, 690
BmrFI	CCNGG	2 cut(s)	378, 785
BmsI	GCATC	1 cut(s)	544
BpiI	GAAGAC	1 cut(s)	855
BpmI	CTGGAG	2 cut(s)	98, 399
Bsa29I	ATCGAT	1 cut(s)	552
BsaJI	CCNNGG	1 cut(s)	287
Bsc4I	CCNNNNNNNGG	1 cut(s)	571
Bse1I	ACTGG	1 cut(s)	81
BseBI	CCWGG	2 cut(s)	378, 785
BseCI	ATCGAT	1 cut(s)	552
BseDI	CCNNGG	1 cut(s)	287
BseGI	GGATG	3 cut(s)	22, 580, 1063
BseLI	CCNNNNNNNGG	1 cut(s)	571
BseMII	CTCAG	1 cut(s)	573
BseNI	ACTGG	1 cut(s)	81
BseRI	GAGGAG	1 cut(s)	65
BseXI	GCAGC	5 cut(s)	228, 327, 512, 764, 1000
BsgI	GTGCAG	2 cut(s)	425, 771
BshFI	GGCC	2 cut(s)	215, 666
BshNI	GGYRCC	1 cut(s)	283
BshVI	ATCGAT	1 cut(s)	552
BsiHKAI	GWGCWC	1 cut(s)	57
BsiHKCI	CYCGRG	1 cut(s)	609
BsiSI	CCGG	1 cut(s)	793
BslFI	GGGAC	2 cut(s)	87, 305
BslI	CCNNNNNNNGG	1 cut(s)	571
BsmAI	GTCTC	1 cut(s)	899
BsmFI	GGGAC	2 cut(s)	87, 305
BsnI	GGCC	2 cut(s)	215, 666
BsoBI	CYCGRG	1 cut(s)	609
Bsp1286I	GDGCHC	1 cut(s)	57
Bsp1407I	TGTACA	1 cut(s)	276
Bsp143I	GATC	4 cut(s)	267, 826, 967, 1120
BspACI	CCGC	3 cut(s)	434, 663, 701
BspANI	GGCC	2 cut(s)	215, 666
BspCNI	CTCAG	1 cut(s)	574
BspDI	ATCGAT	1 cut(s)	552
BspHI	TCATGA	1 cut(s)	90
BspLI	GGNNCC	3 cut(s)	216, 285, 690
BspMAI	CTGCAG	1 cut(s)	1018
BspPI	GGATC	2 cut(s)	975, 1128
BspT107I	GGYRCC	1 cut(s)	283
BsrGI	TGTACA	1 cut(s)	276
BsrI	ACTGG	1 cut(s)	81
BssECI	CCNNGG	1 cut(s)	287
BssMI	GATC	4 cut(s)	267, 826, 967, 1120
BssSI	CACGAG	1 cut(s)	108
BssT1I	CCWWGG	1 cut(s)	287
Bst2BI	CACGAG	1 cut(s)	108
Bst2UI	CCWGG	2 cut(s)	378, 785
Bst4CI	ACNGT	3 cut(s)	835, 1129, 1145
Bst6I	CTCTTC	4 cut(s)	42, 940, 945, 1149
BstAUI	TGTACA	1 cut(s)	276
BstC8I	GCNNGC	6 cut(s)	67, 246, 650, 777, 781, 978
BstDEI	CTNAG	1 cut(s)	582
BstF5I	GGATG	3 cut(s)	22, 580, 1063
BstHHI	GCGC	1 cut(s)	817
BstKTI	GATC	4 cut(s)	270, 829, 970, 1123
BstMAI	GTCTC	1 cut(s)	899
BstMBI	GATC	4 cut(s)	267, 826, 967, 1120
BstMWI	GCNNNNNNNGC	3 cut(s)	356, 500, 986
BstNI	CCWGG	2 cut(s)	378, 785
BstNSI	RCATGY	3 cut(s)	523, 821, 980
BstSCI	CCNGG	2 cut(s)	376, 783
BstSFI	CTRYAG	1 cut(s)	1014
BstV1I	GCAGC	5 cut(s)	228, 327, 512, 764, 1000
BstV2I	GAAGAC	1 cut(s)	855
Bsu15I	ATCGAT	1 cut(s)	552
BsuI	GTATCC	3 cut(s)	317, 810, 1036
BsuRI	GGCC	2 cut(s)	215, 666
BsuTUI	ATCGAT	1 cut(s)	552
BtsCI	GGATG	3 cut(s)	22, 580, 1063
Cac8I	GCNNGC	6 cut(s)	67, 246, 650, 777, 781, 978
CciI	TCATGA	1 cut(s)	90
CfoI	GCGC	1 cut(s)	817
Cfr13I	GGNCC	2 cut(s)	214, 1000
ClaI	ATCGAT	1 cut(s)	552
Csp6I	GTAC	1 cut(s)	277
CviAII	CATG	8 cut(s)	91, 158, 237, 520, 598, 818, 977, 1151
CviQI	GTAC	1 cut(s)	277
DdeI	CTNAG	1 cut(s)	582
DpnI	GATC	4 cut(s)	269, 828, 969, 1122
DpnII	GATC	4 cut(s)	267, 826, 967, 1120
EaeI	YGGCCR	1 cut(s)	664
Eam1104I	CTCTTC	4 cut(s)	42, 940, 945, 1149
EarI	CTCTTC	4 cut(s)	42, 940, 945, 1149
Ecl136II	GAGCTC	1 cut(s)	55
Eco130I	CCWWGG	1 cut(s)	287
Eco24I	GRGCYC	1 cut(s)	57
Eco47I	GGWCC	1 cut(s)	1000
Eco53kI	GAGCTC	1 cut(s)	55
Eco57I	CTGAAG	1 cut(s)	66
Eco88I	CYCGRG	1 cut(s)	609
EcoICRI	GAGCTC	1 cut(s)	55
EcoO109I	RGGNCCY	1 cut(s)	214
EcoRII	CCWGG	2 cut(s)	376, 783
EcoT14I	CCWWGG	1 cut(s)	287
EcoT38I	GRGCYC	1 cut(s)	57
ErhI	CCWWGG	1 cut(s)	287
FaeI	CATG	8 cut(s)	94, 161, 240, 523, 601, 821, 980, 1154
FalI	AAGNNNNNCTT	2 cut(s)	840, 872
FaqI	GGGAC	2 cut(s)	87, 305
FatI	CATG	8 cut(s)	90, 157, 236, 519, 597, 817, 976, 1150
Fnu4HI	GCNGC	6 cut(s)	242, 341, 501, 664, 753, 1014
FokI	GGATG	3 cut(s)	9, 587, 1070
FriOI	GRGCYC	1 cut(s)	57
Fsp4HI	GCNGC	6 cut(s)	242, 341, 501, 664, 753, 1014
FspBI	CTAG	2 cut(s)	1008, 1180
FspI	TGCGCA	1 cut(s)	816
GlaI	GCGC	1 cut(s)	816
GluI	GCNGC	6 cut(s)	242, 341, 501, 664, 753, 1014
GsuI	CTGGAG	2 cut(s)	98, 399
HaeIII	GGCC	2 cut(s)	215, 666
HapII	CCGG	1 cut(s)	793
HhaI	GCGC	1 cut(s)	817
Hin1II	CATG	8 cut(s)	94, 161, 240, 523, 601, 821, 980, 1154
Hin6I	GCGC	1 cut(s)	815
HinP1I	GCGC	1 cut(s)	815
HindIII	AAGCTT	1 cut(s)	296
HinfI	GANTC	8 cut(s)	370, 533, 602, 627, 914, 1076, 1103, 1157
HpaII	CCGG	1 cut(s)	793
HphI	GGTGA	3 cut(s)	836, 923, 962
Hpy166II	GTNNAC	2 cut(s)	766, 1148
Hpy188I	TCNGA	5 cut(s)	46, 733, 930, 958, 1117
Hpy188III	TCNNGA	4 cut(s)	91, 128, 483, 624
Hpy8I	GTNNAC	2 cut(s)	766, 1148
HpyAV	CCTTC	3 cut(s)	415, 547, 863
HpyCH4III	ACNGT	3 cut(s)	835, 1129, 1145
HpyCH4V	TGCA	7 cut(s)	248, 262, 321, 442, 752, 989, 1016
HpyF10VI	GCNNNNNNNGC	3 cut(s)	356, 500, 986
HpyF3I	CTNAG	1 cut(s)	582
Hsp92II	CATG	8 cut(s)	94, 161, 240, 523, 601, 821, 980, 1154
HspAI	GCGC	1 cut(s)	815
Kzo9I	GATC	4 cut(s)	267, 826, 967, 1120
LmnI	GCTCC	4 cut(s)	52, 380, 688, 925
Lsp1109I	GCAGC	5 cut(s)	228, 327, 512, 764, 1000
LweI	GCATC	1 cut(s)	544
MaeI	CTAG	2 cut(s)	1008, 1180
MaeIII	GTNAC	1 cut(s)	412
MalI	GATC	4 cut(s)	269, 828, 969, 1122
MboI	GATC	4 cut(s)	267, 826, 967, 1120
MboII	GAAGA	8 cut(s)	59, 175, 386, 502, 860, 927, 932, 1166
MfeI	CAATTG	1 cut(s)	313
MhlI	GDGCHC	1 cut(s)	57
MluCI	AATT	9 cut(s)	182, 199, 313, 389, 405, 448, 615, 862, 1109
MlyI	GAGTC	2 cut(s)	621, 1166
MnlI	CCTC	9 cut(s)	43, 64, 320, 384, 441, 733, 954, 1111, 1171
MroXI	GAANNNNTTC	2 cut(s)	393, 852
MseI	TTAA	2 cut(s)	404, 858
MslI	CAYNNNNRTG	3 cut(s)	518, 822, 975
MspI	CCGG	1 cut(s)	793
MspR9I	CCNGG	2 cut(s)	378, 785
MunI	CAATTG	1 cut(s)	313
MvaI	CCWGG	2 cut(s)	378, 785
MwoI	GCNNNNNNNGC	3 cut(s)	356, 500, 986
NdeII	GATC	4 cut(s)	267, 826, 967, 1120
NlaIII	CATG	8 cut(s)	94, 161, 240, 523, 601, 821, 980, 1154
NlaIV	GGNNCC	3 cut(s)	216, 285, 690
NsbI	TGCGCA	1 cut(s)	816
NspI	RCATGY	3 cut(s)	523, 821, 980
PaeI	GCATGC	1 cut(s)	980
PaeR7I	CTCGAG	1 cut(s)	609
PagI	TCATGA	1 cut(s)	90
PdmI	GAANNNNTTC	2 cut(s)	393, 852
PfeI	GAWTC	6 cut(s)	370, 533, 602, 914, 1076, 1103
PfoI	TCCNGGA	1 cut(s)	376
PkrI	GCNGC	6 cut(s)	243, 342, 502, 665, 754, 1015
PleI	GAGTC	2 cut(s)	621, 1165
PpsI	GAGTC	2 cut(s)	621, 1165
Psp124BI	GAGCTC	1 cut(s)	57
Psp6I	CCWGG	2 cut(s)	376, 783
PspGI	CCWGG	2 cut(s)	376, 783
PspN4I	GGNNCC	3 cut(s)	216, 285, 690
PspPI	GGNCC	2 cut(s)	214, 1000
PspXI	VCTCGAGB	1 cut(s)	609
PstI	CTGCAG	1 cut(s)	1018
RsaI	GTAC	1 cut(s)	278
RsaNI	GTAC	1 cut(s)	277
RseI	CAYNNNNRTG	3 cut(s)	518, 822, 975
SacI	GAGCTC	1 cut(s)	57
SaqAI	TTAA	2 cut(s)	404, 858
SatI	GCNGC	6 cut(s)	242, 341, 501, 664, 753, 1014
Sau3AI	GATC	4 cut(s)	267, 826, 967, 1120
Sau96I	GGNCC	2 cut(s)	214, 1000
SchI	GAGTC	2 cut(s)	621, 1166
ScrFI	CCNGG	2 cut(s)	378, 785
SduI	GDGCHC	1 cut(s)	57
SfaNI	GCATC	1 cut(s)	544
SfcI	CTRYAG	1 cut(s)	1014
Sfr274I	CTCGAG	1 cut(s)	609
SinI	GGWCC	1 cut(s)	1000
SlaI	CTCGAG	1 cut(s)	609
SmiMI	CAYNNNNRTG	3 cut(s)	518, 822, 975
SmlI	CTYRAG	1 cut(s)	609
SmoI	CTYRAG	1 cut(s)	609
SphI	GCATGC	1 cut(s)	980
Sse9I	AATT	9 cut(s)	182, 199, 313, 389, 405, 448, 615, 862, 1109
SsiI	CCGC	3 cut(s)	434, 663, 701
SspMI	CTAG	2 cut(s)	1008, 1180
SstI	GAGCTC	1 cut(s)	57
StyD4I	CCNGG	2 cut(s)	376, 783
StyI	CCWWGG	1 cut(s)	287
TaaI	ACNGT	3 cut(s)	835, 1129, 1145
TaqI	TCGA	6 cut(s)	57, 190, 484, 531, 552, 610
TasI	AATT	9 cut(s)	182, 199, 313, 389, 405, 448, 615, 862, 1109
TatI	WGTACW	1 cut(s)	276
TauI	GCSGC	1 cut(s)	666
TfiI	GAWTC	6 cut(s)	370, 533, 602, 914, 1076, 1103
Tru1I	TTAA	2 cut(s)	404, 858
Tru9I	TTAA	2 cut(s)	404, 858
TseI	GCWGC	5 cut(s)	241, 340, 500, 752, 1013
TspDTI	ATGAA	7 cut(s)	11, 175, 243, 402, 529, 591, 1167
VpaK11BI	GGWCC	1 cut(s)	1000
XapI	RAATTY	3 cut(s)	199, 389, 448
XceI	RCATGY	3 cut(s)	523, 821, 980
XhoI	CTCGAG	1 cut(s)	609
XmnI	GAANNNNTTC	2 cut(s)	393, 852
XspI	CTAG	2 cut(s)	1008, 1180

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