Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5A

Orthogroup ID

OG0002427

Physical Location & Seq

Genomic Coordinates Reverse (-)

41195471 .. 41197735

Gene Structure 2265 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5AG295900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 795 bp

ATGGCAATTATTTTGTCCTTTTCCTGGAAATTCTGGGTTCTAATCTGTAACATTCTTTTATCTTCGGCTAGTATTTCCTCTTCAGACCTGGTTTCAAAGTGGATGGGTGAGAGTGAGAAGCTAGTTTCAAACCTTTTCCAAATGGCTCGAGATAGTGCCCCATCCATCATCTTCGTTGATGAAATAGATTCCTTATGTGGGACGCGTGGAGAAGGCAATGAGAGTGAAGCTTCTAGACGAATCAAGACAGAACTTCTTGTGCAGATGCAGGGTGTGGGAACCAATGACCAAAAAGTTCTTGTTCTTGCAGCGACAAATACTCCCTATGCATTAGACCAGGCCATTCGAAGACGTTTTGACAAGCGTATTTACATTCCCCTTCCAGATGTAAAGGCTCGACAGCATATGTTCAAAGTCCACTTGGGAGATACTCCTCACAACTTGACAGAAAGTGATTTTGAAAGCTTAGCTTTCAAAACTGAGGGATTTTCGGGTTCAGATATTTCTGTTTGTGTCAAGGATGTTCTTTTTGAACCTGTACGCAAAACACAAGATGCCATGTTCTTTTTCAAGAATTCTGATAATATGTTCATACCTTGTGGACCAAAGCAACCGGGTGCTGTCCAAATCACCATGCAGGAGTTGGCAGCTCAAGGGCTAGCTTCACAGATCCTTCCACCTCCCATCACAAAAACAGATTTTGATAAGGTACTTGCTAGACAGAGGCCTACTGTGAGCAAAGGGGACCTTGAAGTTCATGAAAGGTTCACGAAAGAATTTGGAGAGGAAGGGTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000166 GO:0000902 GO:0000904 GO:0003674 GO:0003824 GO:0005488 GO:0005515 GO:0005524 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005737 GO:0005768 GO:0005770 GO:0005771 GO:0005911 GO:0006629 GO:0006810 GO:0006900 GO:0006914 GO:0006996 GO:0007032 GO:0007033 GO:0007034 GO:0008104 GO:0008144 GO:0008150 GO:0008152 GO:0008202 GO:0009056 GO:0009506 GO:0009653 GO:0009888 GO:0009987 GO:0010008 GO:0010026 GO:0010090 GO:0010091 GO:0010256 GO:0012505 GO:0016020 GO:0016043 GO:0016050 GO:0016125 GO:0016192 GO:0016197 GO:0016236 GO:0016462 GO:0016787 GO:0016817 GO:0016818 GO:0016887 GO:0017076 GO:0017111 GO:0022607 GO:0030054 GO:0030154 GO:0030554 GO:0031090 GO:0031410 GO:0031982 GO:0032502 GO:0032507 GO:0032509 GO:0032511 GO:0032553 GO:0032555 GO:0032559 GO:0032989 GO:0032991 GO:0033036 GO:0033365 GO:0034067 GO:0034613 GO:0035639 GO:0036094 GO:0036452 GO:0042592 GO:0042802 GO:0042803 GO:0043167 GO:0043168 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043933 GO:0044085 GO:0044237 GO:0044238 GO:0044248 GO:0044422 GO:0044424 GO:0044425 GO:0044433 GO:0044440 GO:0044444 GO:0044446 GO:0044464 GO:0045053 GO:0045185 GO:0045324 GO:0046907 GO:0046983 GO:0048468 GO:0048856 GO:0048869 GO:0048878 GO:0050801 GO:0051179 GO:0051234 GO:0051235 GO:0051259 GO:0051260 GO:0051641 GO:0051649 GO:0051651 GO:0055044 GO:0055065 GO:0055067 GO:0055075 GO:0055078 GO:0055080 GO:0061024 GO:0061919 GO:0065003 GO:0065007 GO:0065008 GO:0070676 GO:0070727 GO:0071704 GO:0071840 GO:0071985 GO:0090558 GO:0090626 GO:0097159 GO:0097367 GO:0097708 GO:0098588 GO:0098771 GO:0098796 GO:0098805 GO:1901265 GO:1901360 GO:1901363 GO:1901615 GO:1902494 GO:1904949 GO:1990621

KEGG Pathways

Metabolic & Signaling

ko04144 ko04217 map04144 map04217

Pfam Domains

Protein Families

AAA MIT Vps4_C

Protein Analysis

264

Amino Acids

29.5

Weight (kDa)

5.67

Isoelectric Point (pI)

38.16

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
AAA	PF00004	23 - 127	6.6e-29	ATPase family associated with various cellular activities (AAA)
AAA_lid_3	PF17862	152 - 185	2.5e-06	AAA+ lid domain
Vps4_C	PF09336	198 - 261	3e-22	Vps4 C terminal oligomerisation 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: OG0002427)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G08270 AT1G08270 AT2G27600
fragaria_vesca	FvH4_3g24610 FvH4_3g24610 FvH4_3g24610 FvH4_3g24610
malus_domestica	MD03G1141900.v1.1 MD11G1161300.v1.1
prunus_persica	Prupe.6G127200_v2.0.a1
pyrus_communis	pycom03g09670 pycom11g13390
rosa_chinensis	RchiOBHm_Chr2g0101721 RchiOBHm_Chr5g0044161 RchiOBHm_Chr6g0255971 RchiOBHm_Chr6g0260081 RchiOBHm_Chr7g0184771
rosa_laevigata	RLG00000009143 RLG00000014364 RLG00000021343 RLG00000035169 RLG00000036978
rosa_multiflora	Rmu_sc0000363.1_g000012 Rmu_sc0001648.1_g000029 Rmu_sc0001857.1_g000012 Rmu_sc0004300.1_g000002 Rmu_sc0009830.1_g000003
rosa_roxburghii	Rroxscaffold_2G00091250 Rroxscaffold_3G00264580 Rroxscaffold_7G00197410
rosa_rugosa	Rorug03G0333400
rosa_samantha	Rh2BG234400 Rh2CG154700 Rh5AG295900 Rh5BG309400 Rh5CG292800 Rh5CG330700 Rh6AG305600 Rh7BG180900
rosa_wichuraiana	Rw5G027360 Rw5G027430

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccII	CGCG	1 cut(s)	205
AclWI	GGATC	1 cut(s)	664
AcsI	RAATTY	3 cut(s)	29, 574, 776
AcuI	CTGAAG	1 cut(s)	66
AfaI	GTAC	2 cut(s)	540, 711
AfiI	CCNNNNNNNGG	2 cut(s)	24, 198
AflIII	ACRYGT	1 cut(s)	203
AgsI	TTSAA	8 cut(s)	96, 129, 412, 461, 475, 533, 571, 752
AjnI	CCWGG	3 cut(s)	23, 87, 336
AluBI	AGCT	6 cut(s)	121, 230, 465, 470, 650, 662
AluI	AGCT	6 cut(s)	121, 230, 465, 470, 650, 662
AlwI	GGATC	1 cut(s)	664
Ama87I	CYCGRG	1 cut(s)	147
AoxI	GGCC	2 cut(s)	339, 725
ApeKI	GCWGC	2 cut(s)	308, 647
ApoI	RAATTY	3 cut(s)	29, 574, 776
AspS9I	GGNCC	2 cut(s)	602, 745
AsuC2I	CCSGG	1 cut(s)	615
AsuHPI	GGTGA	2 cut(s)	119, 622
AsuII	TTCGAA	1 cut(s)	346
AsuNHI	GCTAGC	1 cut(s)	658
AvaI	CYCGRG	1 cut(s)	147
AvaII	GGWCC	2 cut(s)	602, 745
BaeGI	GKGCMC	1 cut(s)	160
BarI	GAAGNNNNNNTAC	2 cut(s)	64, 96
BbsI	GAAGAC	1 cut(s)	355
BbvI	GCAGC	2 cut(s)	320, 659
BccI	CCATC	4 cut(s)	97, 169, 173, 692
BciT130I	CCWGG	3 cut(s)	25, 89, 338
BcnI	CCSGG	1 cut(s)	615
BfaI	CTAG	5 cut(s)	69, 122, 234, 659, 717
BisI	GCNGC	2 cut(s)	309, 648
BlpI	GCTNAGC	1 cut(s)	466
BlsI	GCNGC	2 cut(s)	310, 649
Bme1390I	CCNGG	4 cut(s)	25, 89, 338, 615
Bme18I	GGWCC	2 cut(s)	602, 745
BmeT110I	CYCGRG	1 cut(s)	147
BmgT120I	GGNCC	2 cut(s)	602, 745
BmiI	GGNNCC	2 cut(s)	280, 746
BmrFI	CCNGG	4 cut(s)	25, 89, 338, 615
BmsI	GCATC	2 cut(s)	255, 544
BmtI	GCTAGC	1 cut(s)	662
BpiI	GAAGAC	1 cut(s)	355
Bpu1102I	GCTNAGC	1 cut(s)	466
Bpu14I	TTCGAA	1 cut(s)	346
BpuEI	CTTGAG	1 cut(s)	636
BpuMI	CCSGG	1 cut(s)	615
BsaXI	ACNNNNNCTCC	2 cut(s)	304, 334
Bsc4I	CCNNNNNNNGG	2 cut(s)	24, 198
Bse3DI	GCAATG	1 cut(s)	223
BseBI	CCWGG	3 cut(s)	25, 89, 338
BseGI	GGATG	3 cut(s)	108, 161, 526
BseLI	CCNNNNNNNGG	2 cut(s)	24, 198
BseMI	GCAATG	1 cut(s)	223
BseMII	CTCAG	1 cut(s)	471
BseRI	GAGGAG	1 cut(s)	423
BseSI	GKGCMC	1 cut(s)	160
BseXI	GCAGC	2 cut(s)	320, 659
BsgI	GTGCAG	1 cut(s)	281
Bsh1236I	CGCG	1 cut(s)	205
BshFI	GGCC	2 cut(s)	341, 727
BsiHKCI	CYCGRG	1 cut(s)	147
BsiSI	CCGG	1 cut(s)	614
BslFI	GGGAC	2 cut(s)	214, 758
BslI	CCNNNNNNNGG	2 cut(s)	24, 198
BsmFI	GGGAC	2 cut(s)	214, 758
BsnI	GGCC	2 cut(s)	341, 727
BsoBI	CYCGRG	1 cut(s)	147
Bsp119I	TTCGAA	1 cut(s)	346
Bsp1286I	GDGCHC	1 cut(s)	160
Bsp143I	GATC	1 cut(s)	669
Bsp1720I	GCTNAGC	1 cut(s)	466
BspANI	GGCC	2 cut(s)	341, 727
BspCNI	CTCAG	1 cut(s)	472
BspFNI	CGCG	1 cut(s)	205
BspHI	TCATGA	1 cut(s)	757
BspLI	GGNNCC	2 cut(s)	280, 746
BspOI	GCTAGC	1 cut(s)	662
BspPI	GGATC	1 cut(s)	664
BspT104I	TTCGAA	1 cut(s)	346
BsrDI	GCAATG	1 cut(s)	223
BssMI	GATC	1 cut(s)	669
Bst2UI	CCWGG	3 cut(s)	25, 89, 338
Bst4CI	ACNGT	1 cut(s)	733
Bst6I	CTCTTC	1 cut(s)	85
BstBI	TTCGAA	1 cut(s)	346
BstC8I	GCNNGC	1 cut(s)	660
BstDEI	CTNAG	2 cut(s)	466, 480
BstF5I	GGATG	3 cut(s)	108, 161, 526
BstFNI	CGCG	1 cut(s)	205
BstKTI	GATC	1 cut(s)	672
BstMBI	GATC	1 cut(s)	669
BstNI	CCWGG	3 cut(s)	25, 89, 338
BstSCI	CCNGG	4 cut(s)	23, 87, 336, 613
BstSLI	GKGCMC	1 cut(s)	160
BstUI	CGCG	1 cut(s)	205
BstV1I	GCAGC	2 cut(s)	320, 659
BstV2I	GAAGAC	1 cut(s)	355
BstX2I	RGATCY	1 cut(s)	669
BstYI	RGATCY	1 cut(s)	669
BsuRI	GGCC	2 cut(s)	341, 727
BtsCI	GGATG	3 cut(s)	108, 161, 526
Cac8I	GCNNGC	1 cut(s)	660
CciI	TCATGA	1 cut(s)	757
Cfr13I	GGNCC	2 cut(s)	602, 745
CseI	GACGC	1 cut(s)	211
CsiI	ACCWGGT	1 cut(s)	87
Csp6I	GTAC	2 cut(s)	539, 710
CviAII	CATG	3 cut(s)	559, 634, 758
CviQI	GTAC	2 cut(s)	539, 710
DdeI	CTNAG	2 cut(s)	466, 480
DpnI	GATC	1 cut(s)	671
DpnII	GATC	1 cut(s)	669
Eam1104I	CTCTTC	1 cut(s)	85
EarI	CTCTTC	1 cut(s)	85
Eco147I	AGGCCT	1 cut(s)	727
Eco47I	GGWCC	2 cut(s)	602, 745
Eco57I	CTGAAG	1 cut(s)	66
Eco88I	CYCGRG	1 cut(s)	147
EcoO109I	RGGNCCY	1 cut(s)	745
EcoRI	GAATTC	1 cut(s)	574
EcoRII	CCWGG	3 cut(s)	23, 87, 336
EcoT22I	ATGCAT	1 cut(s)	331
FaeI	CATG	3 cut(s)	562, 637, 761
FaiI	YATR	9 cut(s)	196, 327, 405, 407, 560, 587, 593, 635, 759
FalI	AAGNNNNNCTT	4 cut(s)	454, 486, 732, 764
FaqI	GGGAC	2 cut(s)	214, 758
FatI	CATG	3 cut(s)	558, 633, 757
FauNDI	CATATG	1 cut(s)	405
Fnu4HI	GCNGC	2 cut(s)	309, 648
FokI	GGATG	3 cut(s)	115, 148, 533
Fsp4HI	GCNGC	2 cut(s)	309, 648
FspBI	CTAG	5 cut(s)	69, 122, 234, 659, 717
GluI	GCNGC	2 cut(s)	309, 648
HaeIII	GGCC	2 cut(s)	341, 727
HapII	CCGG	1 cut(s)	614
HgaI	GACGC	1 cut(s)	211
Hin1II	CATG	3 cut(s)	562, 637, 761
HindIII	AAGCTT	2 cut(s)	228, 463
HinfI	GANTC	2 cut(s)	188, 240
HpaII	CCGG	1 cut(s)	614
HphI	GGTGA	2 cut(s)	119, 622
Hpy166II	GTNNAC	3 cut(s)	418, 602, 768
Hpy188I	TCNGA	3 cut(s)	85, 499, 580
Hpy188III	TCNNGA	7 cut(s)	149, 234, 244, 383, 571, 758, 769
Hpy8I	GTNNAC	3 cut(s)	418, 602, 768
HpyAV	CCTTC	4 cut(s)	206, 389, 683, 782
HpyCH4III	ACNGT	1 cut(s)	733
HpyCH4IV	ACGT	1 cut(s)	352
HpyCH4V	TGCA	5 cut(s)	262, 268, 308, 329, 637
HpyF3I	CTNAG	2 cut(s)	466, 480
HpySE526I	ACGT	1 cut(s)	352
Hsp92II	CATG	3 cut(s)	562, 637, 761
Kzo9I	GATC	1 cut(s)	669
Lsp1109I	GCAGC	2 cut(s)	320, 659
LweI	GCATC	2 cut(s)	255, 544
MabI	ACCWGGT	1 cut(s)	87
MaeI	CTAG	5 cut(s)	69, 122, 234, 659, 717
MaeII	ACGT	1 cut(s)	352
MaeIII	GTNAC	1 cut(s)	47
MalI	GATC	1 cut(s)	671
MboI	GATC	1 cut(s)	669
MboII	GAAGA	4 cut(s)	54, 72, 163, 360
MflI	RGATCY	1 cut(s)	669
MhlI	GDGCHC	1 cut(s)	160
MluCI	AATT	4 cut(s)	6, 29, 574, 776
MluI	ACGCGT	1 cut(s)	203
MnlI	CCTC	6 cut(s)	88, 444, 475, 690, 717, 778
Mph1103I	ATGCAT	1 cut(s)	331
MspI	CCGG	1 cut(s)	614
MspR9I	CCNGG	4 cut(s)	25, 89, 338, 615
MvaI	CCWGG	3 cut(s)	25, 89, 338
MvnI	CGCG	1 cut(s)	205
NciI	CCSGG	1 cut(s)	615
NdeI	CATATG	1 cut(s)	405
NdeII	GATC	1 cut(s)	669
NheI	GCTAGC	1 cut(s)	658
NlaIII	CATG	3 cut(s)	562, 637, 761
NlaIV	GGNNCC	2 cut(s)	280, 746
NsiI	ATGCAT	1 cut(s)	331
NspV	TTCGAA	1 cut(s)	346
PaeR7I	CTCGAG	1 cut(s)	147
PagI	TCATGA	1 cut(s)	757
PceI	AGGCCT	1 cut(s)	727
PfeI	GAWTC	2 cut(s)	188, 240
PfoI	TCCNGGA	1 cut(s)	23
PkrI	GCNGC	2 cut(s)	310, 649
PpuMI	RGGWCCY	1 cut(s)	745
Psp5II	RGGWCCY	1 cut(s)	745
Psp6I	CCWGG	3 cut(s)	23, 87, 336
PspGI	CCWGG	3 cut(s)	23, 87, 336
PspN4I	GGNNCC	2 cut(s)	280, 746
PspPI	GGNCC	2 cut(s)	602, 745
PspPPI	RGGWCCY	1 cut(s)	745
PsuI	RGATCY	1 cut(s)	669
RsaI	GTAC	2 cut(s)	540, 711
RsaNI	GTAC	2 cut(s)	539, 710
SatI	GCNGC	2 cut(s)	309, 648
Sau3AI	GATC	1 cut(s)	669
Sau96I	GGNCC	2 cut(s)	602, 745
ScrFI	CCNGG	4 cut(s)	25, 89, 338, 615
SduI	GDGCHC	1 cut(s)	160
SexAI	ACCWGGT	1 cut(s)	87
SfaNI	GCATC	2 cut(s)	255, 544
Sfr274I	CTCGAG	1 cut(s)	147
SfuI	TTCGAA	1 cut(s)	346
SinI	GGWCC	2 cut(s)	602, 745
SlaI	CTCGAG	1 cut(s)	147
SmlI	CTYRAG	2 cut(s)	147, 651
SmoI	CTYRAG	2 cut(s)	147, 651
Sse9I	AATT	4 cut(s)	6, 29, 574, 776
SseBI	AGGCCT	1 cut(s)	727
SspMI	CTAG	5 cut(s)	69, 122, 234, 659, 717
StuI	AGGCCT	1 cut(s)	727
StyD4I	CCNGG	4 cut(s)	23, 87, 336, 613
TaaI	ACNGT	1 cut(s)	733
TaiI	ACGT	1 cut(s)	355
TaqI	TCGA	3 cut(s)	148, 346, 397
TasI	AATT	4 cut(s)	6, 29, 574, 776
TfiI	GAWTC	2 cut(s)	188, 240
TseI	GCWGC	2 cut(s)	308, 647
TspDTI	ATGAA	4 cut(s)	195, 580, 746, 774
VpaK11BI	GGWCC	2 cut(s)	602, 745
XapI	RAATTY	3 cut(s)	29, 574, 776
XbaI	TCTAGA	1 cut(s)	233
XcmI	CCANNNNNNNNNTGG	1 cut(s)	640
XhoI	CTCGAG	1 cut(s)	147
XspI	CTAG	5 cut(s)	69, 122, 234, 659, 717
Zsp2I	ATGCAT	1 cut(s)	331

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