Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr1

Orthogroup ID

OG0008476

Physical Location & Seq

Genomic Coordinates Reverse (-)

2699052 .. 2702028

Gene Structure 2977 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000000622

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1167 bp

ATGGAGAACGCCGACGTCTTCACCGGGCTGCACGAATTTCTCGAACGCATGCGTCAACCGTCGGCCAGCGACTTCGTCAAGTCTATCAAAAGTTTCATTGTGTCGTTTTCGAACAATTCTCCTGATCCAGAGAGGGACAGTGCTGCGGTGCAGAACTTCTTTGCGCAAATGGAAGTGGATTTTAGGGTTCATCCACTTTGGGCTGGTTGTTCTGAAGAGGAGCTCGATAGTGCTGGCGAGCTTGCACAGAAAGAACTGCAAAAGATCAATATGTACAAGGCGCCAAGGGACAAGCTTGTGTGTATCCTCAATTGTTGCAAGGTTATCAATAACTTGCTGCTCAATGCTTCTATTGCTTCAAATGAGAATCCTCCCGGAGCTGATGAATTTCTTCCTGTCTTAATTTATGTTACTTTGAAGGCAAACCCTCCGCAACTGCACTCAAATTTGTTGTATATACAAAGATACAGGCGACAATCTCGATTAGTAGCAGAAGCAGCCTATTTCTTCACAAATATGCTCTCTGTCGAATCCTTCATTTCAAATATCGATGCGAAAGCCCTGTCAATGGATGAAACTGAGTTTGAAAAGAACATGGAATCTGCTCAAGCAATTCTATCAGGACTCTCAACTGATTTGAACAGCCAGCCTAATCAAAGCGGTCAACCTGTGAATATAAACAAGGAGCCAACAGCACCGCTCAAATCGTCAAAAGTTCCATCACTTTCAGATTTGGAGGATAAGGGTGCAGCACTCCTTGTAAACGATAAGCAGGCAAGCCAGGTTTTCCGGCAGTATCCATACTTGTTTGCGCATGTTGGTGATCTAACAGTCAATGATGTAGAAGACCTTCTTAATAATTACAAACAGCTTGTTTTCAAGTATGTTTGTCTCTCCAAAGGATTAGGTGATTCTGCTCCATCTCTTCCTCTAAAGAGTTCAGAAACACAGGATCACCAGCATGCTGAAACTGCGATGCAACAGGACCATACTAGAGCTTCAGAGCCTAATGATGAGCCATCAAAGGATACTGATAGAAAAGATGATGGTTCAAATACAGAGTCTCTTTTTGAAGTGGAAAGTTTAGAATCTAAATTGTCAGAGGATCAAACAGTAGCACCACAAGACAGTAAACATGAAGAGTCCTCTCAATCACAGCTCTCCTAG

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

389

Amino Acids

43.25

Weight (kDa)

4.7

Isoelectric Point (pI)

44.1

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
DUF5601	PF18151	27 - 78	2e-07	Domain of unknown function (DUF5601)
VPS9	PF02204	81 - 184	6.2e-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

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)
AatII	GACGTC	1 cut(s)	18
Acc16I	TGCGCA	2 cut(s)	165, 813
AccB1I	GGYRCC	1 cut(s)	280
AccBSI	CCGCTC	1 cut(s)	700
AciI	CCGC	4 cut(s)	146, 431, 660, 698
AclWI	GGATC	3 cut(s)	119, 960, 1113
AcoI	YGGCCR	1 cut(s)	63
AcsI	RAATTY	3 cut(s)	35, 386, 445
AcuI	CTGAAG	2 cut(s)	234, 984
AcyI	GRCGYC	2 cut(s)	15, 281
AfaI	GTAC	1 cut(s)	275
AfiI	CCNNNNNNNGG	1 cut(s)	568
AgsI	TTSAA	8 cut(s)	360, 418, 543, 587, 640, 880, 1053, 1073
AjnI	CCWGG	1 cut(s)	780
AluBI	AGCT	7 cut(s)	223, 241, 295, 380, 871, 998, 1159
AluI	AGCT	7 cut(s)	223, 241, 295, 380, 871, 998, 1159
Alw21I	GWGCWC	1 cut(s)	225
Alw26I	GTCTC	2 cut(s)	896, 1068
AlwI	GGATC	3 cut(s)	119, 960, 1113
AoxI	GGCC	1 cut(s)	63
ApeKI	GCWGC	5 cut(s)	28, 143, 337, 497, 749
ApoI	RAATTY	3 cut(s)	35, 386, 445
ArsI	GACNNNNNNTTYG	4 cut(s)	548, 580, 1046, 1078
Asp700I	GAANNNNTTC	2 cut(s)	390, 849
AspLEI	GCGC	3 cut(s)	166, 283, 814
AspS9I	GGNCC	1 cut(s)	985
AsuC2I	CCSGG	2 cut(s)	25, 375
AsuHPI	GGTGA	4 cut(s)	13, 833, 920, 947
AsuII	TTCGAA	1 cut(s)	110
AvaII	GGWCC	1 cut(s)	985
BanI	GGYRCC	1 cut(s)	280
BanII	GRGCYC	1 cut(s)	225
BarI	GAAGNNNNNNTAC	2 cut(s)	834, 866
BbsI	GAAGAC	2 cut(s)	10, 852
Bbv12I	GWGCWC	1 cut(s)	225
BbvI	GCAGC	5 cut(s)	15, 130, 324, 509, 761
BccI	CCATC	4 cut(s)	727, 928, 1027, 1040
BciT130I	CCWGG	1 cut(s)	782
BciVI	GTATCC	3 cut(s)	314, 807, 1021
BcnI	CCSGG	2 cut(s)	25, 375
BcoDI	GTCTC	2 cut(s)	896, 1068
BfaI	CTAG	2 cut(s)	993, 1165
BfoI	RGCGCY	1 cut(s)	284
BfuI	GTATCC	3 cut(s)	314, 807, 1021
BisI	GCNGC	5 cut(s)	29, 144, 338, 498, 750
BlsI	GCNGC	5 cut(s)	30, 145, 339, 499, 751
Bme1390I	CCNGG	3 cut(s)	25, 375, 782
Bme18I	GGWCC	1 cut(s)	985
BmgT120I	GGNCC	1 cut(s)	985
BmiI	GGNNCC	2 cut(s)	282, 687
BmrFI	CCNGG	3 cut(s)	25, 375, 782
BmsI	GCATC	2 cut(s)	541, 966
BpiI	GAAGAC	2 cut(s)	10, 852
Bpu14I	TTCGAA	1 cut(s)	110
BpuEI	CTTGAG	1 cut(s)	591
BpuMI	CCSGG	2 cut(s)	25, 375
Bsa29I	ATCGAT	1 cut(s)	549
BsaHI	GRCGYC	2 cut(s)	15, 281
BsaJI	CCNNGG	1 cut(s)	284
Bsc4I	CCNNNNNNNGG	1 cut(s)	568
BseBI	CCWGG	1 cut(s)	782
BseCI	ATCGAT	1 cut(s)	549
BseDI	CCNNGG	1 cut(s)	284
BseGI	GGATG	2 cut(s)	190, 577
BseLI	CCNNNNNNNGG	1 cut(s)	568
BseMII	CTCAG	1 cut(s)	570
BseRI	GAGGAG	1 cut(s)	233
BseXI	GCAGC	5 cut(s)	15, 130, 324, 509, 761
BsgI	GTGCAG	4 cut(s)	14, 170, 422, 768
BshFI	GGCC	1 cut(s)	65
BshNI	GGYRCC	1 cut(s)	280
BshVI	ATCGAT	1 cut(s)	549
BsiHKAI	GWGCWC	1 cut(s)	225
BsiSI	CCGG	3 cut(s)	24, 375, 790
BslFI	GGGAC	2 cut(s)	149, 302
BslI	CCNNNNNNNGG	1 cut(s)	568
BsmAI	GTCTC	2 cut(s)	896, 1068
BsmFI	GGGAC	2 cut(s)	149, 302
BsnI	GGCC	1 cut(s)	65
Bsp119I	TTCGAA	1 cut(s)	110
Bsp1286I	GDGCHC	1 cut(s)	225
Bsp1407I	TGTACA	1 cut(s)	273
Bsp143I	GATC	5 cut(s)	124, 264, 823, 952, 1105
BspACI	CCGC	4 cut(s)	146, 431, 660, 698
BspANI	GGCC	1 cut(s)	65
BspCNI	CTCAG	1 cut(s)	571
BspDI	ATCGAT	1 cut(s)	549
BspLI	GGNNCC	2 cut(s)	282, 687
BspPI	GGATC	3 cut(s)	119, 960, 1113
BspT104I	TTCGAA	1 cut(s)	110
BspT107I	GGYRCC	1 cut(s)	280
BsrBI	CCGCTC	1 cut(s)	700
BsrGI	TGTACA	1 cut(s)	273
BssECI	CCNNGG	1 cut(s)	284
BssMI	GATC	5 cut(s)	124, 264, 823, 952, 1105
BssNI	GRCGYC	2 cut(s)	15, 281
BssT1I	CCWWGG	1 cut(s)	284
Bst2UI	CCWGG	1 cut(s)	782
Bst4CI	ACNGT	5 cut(s)	60, 140, 832, 1114, 1130
Bst6I	CTCTTC	3 cut(s)	210, 930, 1134
BstACI	GRCGYC	2 cut(s)	15, 281
BstAUI	TGTACA	1 cut(s)	273
BstBI	TTCGAA	1 cut(s)	110
BstC8I	GCNNGC	9 cut(s)	50, 67, 235, 239, 243, 647, 774, 778, 963
BstDEI	CTNAG	1 cut(s)	579
BstF5I	GGATG	2 cut(s)	190, 577
BstH2I	RGCGCY	1 cut(s)	284
BstHHI	GCGC	3 cut(s)	166, 283, 814
BstKTI	GATC	5 cut(s)	127, 267, 826, 955, 1108
BstMAI	GTCTC	2 cut(s)	896, 1068
BstMBI	GATC	5 cut(s)	124, 264, 823, 952, 1105
BstMWI	GCNNNNNNNGC	3 cut(s)	353, 497, 971
BstNI	CCWGG	1 cut(s)	782
BstNSI	RCATGY	3 cut(s)	52, 818, 965
BstSCI	CCNGG	3 cut(s)	23, 373, 780
BstV1I	GCAGC	5 cut(s)	15, 130, 324, 509, 761
BstV2I	GAAGAC	2 cut(s)	10, 852
Bsu15I	ATCGAT	1 cut(s)	549
BsuI	GTATCC	3 cut(s)	314, 807, 1021
BsuRI	GGCC	1 cut(s)	65
BsuTUI	ATCGAT	1 cut(s)	549
BtgZI	GCGATG	1 cut(s)	989
BtsCI	GGATG	2 cut(s)	190, 577
BtsIMutI	CAGTG	1 cut(s)	145
Cac8I	GCNNGC	9 cut(s)	50, 67, 235, 239, 243, 647, 774, 778, 963
CfoI	GCGC	3 cut(s)	166, 283, 814
Cfr13I	GGNCC	1 cut(s)	985
ClaI	ATCGAT	1 cut(s)	549
CseI	GACGC	1 cut(s)	41
Csp6I	GTAC	1 cut(s)	274
CviAII	CATG	5 cut(s)	49, 595, 815, 962, 1136
CviQI	GTAC	1 cut(s)	274
DdeI	CTNAG	1 cut(s)	579
DinI	GGCGCC	1 cut(s)	282
DpnI	GATC	5 cut(s)	126, 266, 825, 954, 1107
DpnII	GATC	5 cut(s)	124, 264, 823, 952, 1105
EaeI	YGGCCR	1 cut(s)	63
Eam1104I	CTCTTC	3 cut(s)	210, 930, 1134
EarI	CTCTTC	3 cut(s)	210, 930, 1134
Ecl136II	GAGCTC	1 cut(s)	223
Eco130I	CCWWGG	1 cut(s)	284
Eco24I	GRGCYC	1 cut(s)	225
Eco47I	GGWCC	1 cut(s)	985
Eco53kI	GAGCTC	1 cut(s)	223
Eco57I	CTGAAG	2 cut(s)	234, 984
EcoICRI	GAGCTC	1 cut(s)	223
EcoRII	CCWGG	1 cut(s)	780
EcoT14I	CCWWGG	1 cut(s)	284
EcoT38I	GRGCYC	1 cut(s)	225
EgeI	GGCGCC	1 cut(s)	282
EheI	GGCGCC	1 cut(s)	282
ErhI	CCWWGG	1 cut(s)	284
FaeI	CATG	5 cut(s)	52, 598, 818, 965, 1139
FalI	AAGNNNNNCTT	2 cut(s)	837, 869
FaqI	GGGAC	2 cut(s)	149, 302
FatI	CATG	5 cut(s)	48, 594, 814, 961, 1135
Fnu4HI	GCNGC	5 cut(s)	29, 144, 338, 498, 750
FokI	GGATG	2 cut(s)	177, 584
FriOI	GRGCYC	1 cut(s)	225
Fsp4HI	GCNGC	5 cut(s)	29, 144, 338, 498, 750
FspBI	CTAG	2 cut(s)	993, 1165
FspI	TGCGCA	2 cut(s)	165, 813
GlaI	GCGC	3 cut(s)	165, 282, 813
GluI	GCNGC	5 cut(s)	29, 144, 338, 498, 750
HaeII	RGCGCY	1 cut(s)	284
HaeIII	GGCC	1 cut(s)	65
HapII	CCGG	3 cut(s)	24, 375, 790
HgaI	GACGC	1 cut(s)	41
HhaI	GCGC	3 cut(s)	166, 283, 814
Hin1I	GRCGYC	2 cut(s)	15, 281
Hin1II	CATG	5 cut(s)	52, 598, 818, 965, 1139
Hin6I	GCGC	3 cut(s)	164, 281, 812
HinP1I	GCGC	3 cut(s)	164, 281, 812
HincII	GTYRAC	2 cut(s)	56, 665
HindII	GTYRAC	2 cut(s)	56, 665
HindIII	AAGCTT	1 cut(s)	293
HinfI	GANTC	8 cut(s)	367, 530, 599, 624, 911, 1061, 1088, 1142
HpaII	CCGG	3 cut(s)	24, 375, 790
HphI	GGTGA	4 cut(s)	13, 833, 920, 947
Hpy166II	GTNNAC	4 cut(s)	56, 665, 763, 1133
Hpy188I	TCNGA	5 cut(s)	214, 730, 943, 1003, 1102
Hpy188III	TCNNGA	5 cut(s)	41, 122, 128, 480, 621
Hpy8I	GTNNAC	4 cut(s)	56, 665, 763, 1133
Hpy99I	CGWCG	2 cut(s)	17, 64
HpyAV	CCTTC	3 cut(s)	412, 544, 860
HpyCH4III	ACNGT	5 cut(s)	60, 140, 832, 1114, 1130
HpyCH4IV	ACGT	1 cut(s)	15
HpyCH4V	TGCA	8 cut(s)	31, 151, 245, 259, 318, 439, 749, 979
HpyF10VI	GCNNNNNNNGC	3 cut(s)	353, 497, 971
HpyF3I	CTNAG	1 cut(s)	579
HpySE526I	ACGT	1 cut(s)	15
Hsp92I	GRCGYC	2 cut(s)	15, 281
Hsp92II	CATG	5 cut(s)	52, 598, 818, 965, 1139
HspAI	GCGC	3 cut(s)	164, 281, 812
KasI	GGCGCC	1 cut(s)	280
Kzo9I	GATC	5 cut(s)	124, 264, 823, 952, 1105
LmnI	GCTCC	4 cut(s)	220, 377, 685, 922
Lsp1109I	GCAGC	5 cut(s)	15, 130, 324, 509, 761
LweI	GCATC	2 cut(s)	541, 966
MaeI	CTAG	2 cut(s)	993, 1165
MaeII	ACGT	1 cut(s)	15
MaeIII	GTNAC	1 cut(s)	409
MalI	GATC	5 cut(s)	126, 266, 825, 954, 1107
MbiI	CCGCTC	1 cut(s)	700
MboI	GATC	5 cut(s)	124, 264, 823, 952, 1105
MboII	GAAGA	7 cut(s)	10, 227, 383, 499, 857, 917, 1151
MfeI	CAATTG	1 cut(s)	310
MhlI	GDGCHC	1 cut(s)	225
MluCI	AATT	9 cut(s)	35, 115, 310, 386, 402, 445, 612, 859, 1094
Mly113I	GGCGCC	1 cut(s)	281
MlyI	GAGTC	3 cut(s)	618, 1070, 1151
MnlI	CCTC	9 cut(s)	126, 211, 317, 381, 438, 730, 939, 1096, 1156
MroXI	GAANNNNTTC	2 cut(s)	390, 849
MseI	TTAA	2 cut(s)	401, 855
MslI	CAYNNNNRTG	3 cut(s)	515, 819, 960
MspI	CCGG	3 cut(s)	24, 375, 790
MspR9I	CCNGG	3 cut(s)	25, 375, 782
MunI	CAATTG	1 cut(s)	310
MvaI	CCWGG	1 cut(s)	782
MwoI	GCNNNNNNNGC	3 cut(s)	353, 497, 971
NarI	GGCGCC	1 cut(s)	281
NciI	CCSGG	2 cut(s)	25, 375
NdeII	GATC	5 cut(s)	124, 264, 823, 952, 1105
NlaIII	CATG	5 cut(s)	52, 598, 818, 965, 1139
NlaIV	GGNNCC	2 cut(s)	282, 687
NsbI	TGCGCA	2 cut(s)	165, 813
NspI	RCATGY	3 cut(s)	52, 818, 965
NspV	TTCGAA	1 cut(s)	110
PaeI	GCATGC	2 cut(s)	52, 965
PcsI	WCGNNNNNNNCGW	1 cut(s)	39
PdmI	GAANNNNTTC	2 cut(s)	390, 849
PfeI	GAWTC	5 cut(s)	367, 530, 599, 911, 1088
PflFI	GACNNNGTC	1 cut(s)	74
PfoI	TCCNGGA	1 cut(s)	373
PkrI	GCNGC	5 cut(s)	30, 145, 339, 499, 751
PleI	GAGTC	3 cut(s)	618, 1069, 1150
PluTI	GGCGCC	1 cut(s)	284
PpsI	GAGTC	3 cut(s)	618, 1069, 1150
Psp124BI	GAGCTC	1 cut(s)	225
Psp6I	CCWGG	1 cut(s)	780
PspGI	CCWGG	1 cut(s)	780
PspN4I	GGNNCC	2 cut(s)	282, 687
PspPI	GGNCC	1 cut(s)	985
PsyI	GACNNNGTC	1 cut(s)	74
RsaI	GTAC	1 cut(s)	275
RsaNI	GTAC	1 cut(s)	274
RseI	CAYNNNNRTG	3 cut(s)	515, 819, 960
SacI	GAGCTC	1 cut(s)	225
SaqAI	TTAA	2 cut(s)	401, 855
SatI	GCNGC	5 cut(s)	29, 144, 338, 498, 750
Sau3AI	GATC	5 cut(s)	124, 264, 823, 952, 1105
Sau96I	GGNCC	1 cut(s)	985
SchI	GAGTC	3 cut(s)	618, 1070, 1151
ScrFI	CCNGG	3 cut(s)	25, 375, 782
SduI	GDGCHC	1 cut(s)	225
SfaNI	GCATC	2 cut(s)	541, 966
SfoI	GGCGCC	1 cut(s)	282
SfuI	TTCGAA	1 cut(s)	110
SinI	GGWCC	1 cut(s)	985
SmiMI	CAYNNNNRTG	3 cut(s)	515, 819, 960
SmlI	CTYRAG	1 cut(s)	606
SmoI	CTYRAG	1 cut(s)	606
SphI	GCATGC	2 cut(s)	52, 965
Sse9I	AATT	9 cut(s)	35, 115, 310, 386, 402, 445, 612, 859, 1094
SsiI	CCGC	4 cut(s)	146, 431, 660, 698
SspDI	GGCGCC	1 cut(s)	280
SspMI	CTAG	2 cut(s)	993, 1165
SstI	GAGCTC	1 cut(s)	225
StyD4I	CCNGG	3 cut(s)	23, 373, 780
StyI	CCWWGG	1 cut(s)	284
TaaI	ACNGT	5 cut(s)	60, 140, 832, 1114, 1130
TaiI	ACGT	1 cut(s)	18
TaqI	TCGA	6 cut(s)	42, 110, 225, 481, 528, 549
TasI	AATT	9 cut(s)	35, 115, 310, 386, 402, 445, 612, 859, 1094
TatI	WGTACW	1 cut(s)	273
TfiI	GAWTC	5 cut(s)	367, 530, 599, 911, 1088
Tru1I	TTAA	2 cut(s)	401, 855
Tru9I	TTAA	2 cut(s)	401, 855
TscAI	CASTG	1 cut(s)	145
TseI	GCWGC	5 cut(s)	28, 143, 337, 497, 749
TspDTI	ATGAA	6 cut(s)	85, 179, 399, 526, 588, 1152
TspRI	CASTG	1 cut(s)	145
Tth111I	GACNNNGTC	1 cut(s)	74
VpaK11BI	GGWCC	1 cut(s)	985
XapI	RAATTY	3 cut(s)	35, 386, 445
XceI	RCATGY	3 cut(s)	52, 818, 965
XmnI	GAANNNNTTC	2 cut(s)	390, 849
XspI	CTAG	2 cut(s)	993, 1165
ZraI	GACGTC	1 cut(s)	16

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