Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr6

Orthogroup ID

OG0006183

Physical Location & Seq

Genomic Coordinates Forward (+)

22905815 .. 22910619

Gene Structure 4805 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000028440

Sequence Viewer

CDS Protein Promoter (2k)

Length: 975 bp

ATGTGCAATGAGCGAGAAAAGGTGAAATCGTATCGTCAAAAGATATCAAAATGGCAGGGTCAAGTTTCTGACAGGTTACAAGTCTTAAGTAGACGTCCAGGTGGTACGTCCATAAGCAAGACCGTAGCTCCTGCACGAACTGCTGCAGCTACATCAACAACGTTGAATTCACGAAATCATGTGATACCCAAGACTCTGCATCCCAGTACAAGCATGCCATCAACGAGGAGTCAGACCAATAATATTGTAAGATCAAAACCTGTGCAAGATTCTGGTGCAGGTTATGATGAAAAATTGGTTGAAATGATAAATAGTGCCATAGTGGATAGAAGTCCTTCAGTTAAATGGGAAGATGTTGCTGGTCTTGAGAAGGTGAAGAAAACTTTGATGGAGATGGTTATTTTACCGACTAAGAGAAGAGATTTGTTCACTGGCCTACGAAGGCCTGCTCGAGGTAATATTGATAGTATCATGTCAACAAGGCAGGCAAACGAAAATGATGCAAGCAGAAGGTTGAAGTCAGAGTTTCTAATTCAGTTTGATGGAGTGACATCTAATCCTAATGATCTAGTAATTGTGATTGGTGCTACTAATAAGCCTCAAGAACTAGATGACGCAGTTCTTAGGAGATTGGTGAAGAGAGTATACATACCTTTACCAGATCTAACTGCTAGGAGACTGCTCCTAAGTCACAAACTCAAAGGCCAAGCATTTTCTTTACCAAGTGGAGATCTTGAACGACTTGCAAGAGACACTGAAGGTTATTCAGGAAGTGATCTACAAGCATTGTGTGAAGAAGCAGCAATGATGCCAATTAGGGAACTTGGTGAAAACATTCTCACCATCAATGCAAATCAGGTAAGACCACTAAGATTTGAAGATTTTCAGAAGGCAATGACTGTAATCAGGCCAAGTTTAAGCAAAAGCAAGTGGGAAGAGCTTGAACAATGGAACGAGGAATTTGGGTCTAACTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000226 GO:0000278 GO:0000280 GO:0000281 GO:0000910 GO:0001578 GO:0003674 GO:0003824 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005635 GO:0006810 GO:0006928 GO:0006996 GO:0006997 GO:0006998 GO:0007010 GO:0007017 GO:0007018 GO:0007049 GO:0007051 GO:0007052 GO:0008017 GO:0008088 GO:0008089 GO:0008092 GO:0008150 GO:0008568 GO:0009987 GO:0010256 GO:0010458 GO:0010970 GO:0012505 GO:0015631 GO:0016020 GO:0016043 GO:0016462 GO:0016787 GO:0016817 GO:0016818 GO:0016887 GO:0017111 GO:0019896 GO:0022402 GO:0022411 GO:0022607 GO:0030496 GO:0030705 GO:0031090 GO:0031468 GO:0031965 GO:0031967 GO:0031975 GO:0034214 GO:0034643 GO:0042623 GO:0043014 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043933 GO:0044085 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044464 GO:0044770 GO:0044772 GO:0046907 GO:0047497 GO:0048285 GO:0048487 GO:0051013 GO:0051179 GO:0051228 GO:0051230 GO:0051234 GO:0051259 GO:0051260 GO:0051301 GO:0051640 GO:0051641 GO:0051646 GO:0051649 GO:0051654 GO:0051656 GO:0061024 GO:0061640 GO:0065003 GO:0071840 GO:0072384 GO:0090148 GO:0098930 GO:0099111 GO:0140014 GO:0140096 GO:1902850 GO:1903008 GO:1903047

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

AAA Vps4_C

Protein Analysis

325

Amino Acids

36.4

Weight (kDa)

9.69

Isoelectric Point (pI)

55.36

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
AAA	PF00004	153 - 219	1.6e-10	ATPase family associated with various cellular activities (AAA)
AAA_lid_3	PF17862	244 - 278	5.1e-14	AAA+ lid 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: OG0006183)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G45500 AT2G45500 AT2G45500 AT2G45500 AT2G45500
fragaria_vesca	FvH4_7g12180 FvH4_7g12180
malus_domestica	MD02G1200800.v1.1
prunus_persica	Prupe.2G148300_v2.0.a1 Prupe.2G148300_v2.0.a1 Prupe.2G148300_v2.0.a1
pyrus_communis	pycom02g16400
rosa_chinensis	RchiOBHm_Chr1g0350931
rosa_laevigata	RLG00000028440
rosa_multiflora	Rmu_sc0002665.1_g000019 Rmu_sc0006458.1_g000018
rosa_roxburghii	Rroxscaffold_4G00304290
rosa_rugosa	Rorug01G0075600 Rorug01G0215400 Rorug01G0215400 Rorug06G0023300
rosa_samantha	Rh1AG230100 Rh1BG075200 Rh1BG200000 Rh1CG214500 Rh1DG227800
rosa_wichuraiana	Rw1G019950

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AatII	GACGTC	1 cut(s)	97
Acc36I	ACCTGC	1 cut(s)	269
AccI	GTMKAC	2 cut(s)	91, 645
AclI	AACGTT	1 cut(s)	161
AcsI	RAATTY	2 cut(s)	166, 959
AcuI	CTGAAG	2 cut(s)	321, 777
AcyI	GRCGYC	1 cut(s)	94
AfaI	GTAC	2 cut(s)	106, 208
AfiI	CCNNNNNNNGG	1 cut(s)	452
AflII	CTTAAG	1 cut(s)	85
AgsI	TTSAA	6 cut(s)	166, 302, 517, 737, 878, 944
AjnI	CCWGG	1 cut(s)	97
AluBI	AGCT	3 cut(s)	128, 149, 940
AluI	AGCT	3 cut(s)	128, 149, 940
Alw26I	GTCTC	2 cut(s)	670, 744
Ama87I	CYCGRG	1 cut(s)	450
AoxI	GGCC	4 cut(s)	433, 443, 703, 908
ApeKI	GCWGC	3 cut(s)	143, 146, 800
ApoI	RAATTY	2 cut(s)	166, 959
Asp700I	GAANNNNTTC	3 cut(s)	334, 834, 882
AsuHPI	GGTGA	5 cut(s)	34, 385, 646, 832, 839
AvaI	CYCGRG	1 cut(s)	450
BarI	GAAGNNNNNNTAC	2 cut(s)	629, 661
BbvI	GCAGC	3 cut(s)	130, 158, 812
BccI	CCATC	5 cut(s)	226, 382, 388, 536, 851
BcgI	CGANNNNNNTGC	2 cut(s)	482, 516
BciT130I	CCWGG	1 cut(s)	99
BcoDI	GTCTC	2 cut(s)	670, 744
BfaI	CTAG	3 cut(s)	569, 608, 672
BfmI	CTRYAG	1 cut(s)	144
BfrI	CTTAAG	1 cut(s)	85
BfuAI	ACCTGC	1 cut(s)	269
BglII	AGATCT	2 cut(s)	661, 730
BisI	GCNGC	3 cut(s)	144, 147, 801
BlsI	GCNGC	3 cut(s)	145, 148, 802
Bme1390I	CCNGG	1 cut(s)	99
BmeT110I	CYCGRG	1 cut(s)	450
BmrFI	CCNGG	1 cut(s)	99
BmrI	ACTGGG	1 cut(s)	198
BmsI	GCATC	3 cut(s)	208, 490, 798
BmuI	ACTGGG	1 cut(s)	198
BpuEI	CTTGAG	2 cut(s)	386, 585
BsaHI	GRCGYC	1 cut(s)	94
BsaXI	ACNNNNNCTCC	2 cut(s)	112, 142
Bsc4I	CCNNNNNNNGG	1 cut(s)	452
Bse1I	ACTGG	2 cut(s)	204, 436
Bse3DI	GCAATG	3 cut(s)	13, 810, 900
BseBI	CCWGG	1 cut(s)	99
BseGI	GGATG	1 cut(s)	199
BseLI	CCNNNNNNNGG	1 cut(s)	452
BseMI	GCAATG	3 cut(s)	13, 810, 900
BseNI	ACTGG	2 cut(s)	204, 436
BseRI	GAGGAG	1 cut(s)	241
BseXI	GCAGC	3 cut(s)	130, 158, 812
BsgI	GTGCAG	2 cut(s)	117, 297
BshFI	GGCC	4 cut(s)	435, 445, 705, 910
BsiHKCI	CYCGRG	1 cut(s)	450
BslI	CCNNNNNNNGG	1 cut(s)	452
BsmAI	GTCTC	2 cut(s)	670, 744
BsnI	GGCC	4 cut(s)	435, 445, 705, 910
BsoBI	CYCGRG	1 cut(s)	450
Bsp143I	GATC	5 cut(s)	251, 565, 661, 730, 775
BspANI	GGCC	4 cut(s)	435, 445, 705, 910
BspMAI	CTGCAG	1 cut(s)	148
BspMI	ACCTGC	1 cut(s)	269
BspQI	GCTCTTC	1 cut(s)	930
BspTI	CTTAAG	1 cut(s)	85
BsrDI	GCAATG	3 cut(s)	13, 810, 900
BsrI	ACTGG	2 cut(s)	204, 436
BssMI	GATC	5 cut(s)	251, 565, 661, 730, 775
BssNAI	GTATAC	1 cut(s)	646
BssNI	GRCGYC	1 cut(s)	94
Bst1107I	GTATAC	1 cut(s)	646
Bst2UI	CCWGG	1 cut(s)	99
Bst4CI	ACNGT	2 cut(s)	124, 901
Bst6I	CTCTTC	3 cut(s)	412, 632, 930
BstACI	GRCGYC	1 cut(s)	94
BstAFI	CTTAAG	1 cut(s)	85
BstAPI	GCANNNNNTGC	1 cut(s)	140
BstC8I	GCNNGC	4 cut(s)	215, 447, 486, 505
BstDEI	CTNAG	4 cut(s)	411, 623, 686, 869
BstENI	CCTNNNNNAGG	1 cut(s)	450
BstF5I	GGATG	1 cut(s)	199
BstKTI	GATC	5 cut(s)	254, 568, 664, 733, 778
BstMAI	GTCTC	2 cut(s)	670, 744
BstMBI	GATC	5 cut(s)	251, 565, 661, 730, 775
BstMWI	GCNNNNNNNGC	1 cut(s)	140
BstNI	CCWGG	1 cut(s)	99
BstNSI	RCATGY	1 cut(s)	217
BstSCI	CCNGG	1 cut(s)	97
BstSFI	CTRYAG	1 cut(s)	144
BstV1I	GCAGC	3 cut(s)	130, 158, 812
BstX2I	RGATCY	2 cut(s)	661, 730
BstYI	RGATCY	2 cut(s)	661, 730
BstZ17I	GTATAC	1 cut(s)	646
BsuRI	GGCC	4 cut(s)	435, 445, 705, 910
BtsCI	GGATG	1 cut(s)	199
BtsIMutI	CAGTG	2 cut(s)	429, 753
BveI	ACCTGC	1 cut(s)	269
Cac8I	GCNNGC	4 cut(s)	215, 447, 486, 505
CseI	GACGC	1 cut(s)	623
Csp6I	GTAC	2 cut(s)	105, 207
CviAII	CATG	3 cut(s)	179, 214, 472
CviJI	RGCY	8 cut(s)	128, 149, 435, 445, 598, 705, 910, 940
CviKI_1	RGCY	8 cut(s)	128, 149, 435, 445, 598, 705, 910, 940
CviQI	GTAC	2 cut(s)	105, 207
DdeI	CTNAG	4 cut(s)	411, 623, 686, 869
DpnI	GATC	5 cut(s)	253, 567, 663, 732, 777
DpnII	GATC	5 cut(s)	251, 565, 661, 730, 775
Eam1104I	CTCTTC	3 cut(s)	412, 632, 930
EarI	CTCTTC	3 cut(s)	412, 632, 930
Eco147I	AGGCCT	1 cut(s)	445
Eco32I	GATATC	1 cut(s)	45
Eco57I	CTGAAG	2 cut(s)	321, 777
Eco88I	CYCGRG	1 cut(s)	450
EcoNI	CCTNNNNNAGG	1 cut(s)	450
EcoRI	GAATTC	1 cut(s)	166
EcoRII	CCWGG	1 cut(s)	97
EcoRV	GATATC	1 cut(s)	45
FaeI	CATG	3 cut(s)	182, 217, 475
FaiI	YATR	8 cut(s)	113, 180, 215, 285, 320, 473, 646, 650
FatI	CATG	3 cut(s)	178, 213, 471
FblI	GTMKAC	2 cut(s)	91, 645
Fnu4HI	GCNGC	3 cut(s)	144, 147, 801
FokI	GGATG	1 cut(s)	186
Fsp4HI	GCNGC	3 cut(s)	144, 147, 801
FspBI	CTAG	3 cut(s)	569, 608, 672
GluI	GCNGC	3 cut(s)	144, 147, 801
HaeIII	GGCC	4 cut(s)	435, 445, 705, 910
HgaI	GACGC	1 cut(s)	623
Hin1I	GRCGYC	1 cut(s)	94
Hin1II	CATG	3 cut(s)	182, 217, 475
HincII	GTYRAC	1 cut(s)	477
HindII	GTYRAC	1 cut(s)	477
HinfI	GANTC	3 cut(s)	193, 229, 269
HphI	GGTGA	5 cut(s)	34, 385, 646, 832, 839
Hpy166II	GTNNAC	4 cut(s)	92, 429, 477, 646
Hpy188I	TCNGA	4 cut(s)	70, 234, 523, 888
Hpy188III	TCNNGA	5 cut(s)	171, 365, 602, 734, 768
Hpy8I	GTNNAC	4 cut(s)	92, 429, 477, 646
HpyAV	CCTTC	6 cut(s)	345, 364, 435, 504, 752, 883
HpyCH4III	ACNGT	2 cut(s)	124, 901
HpyCH4IV	ACGT	3 cut(s)	94, 107, 161
HpyCH4V	TGCA	9 cut(s)	6, 134, 146, 199, 265, 278, 503, 746, 851
HpyF10VI	GCNNNNNNNGC	1 cut(s)	140
HpyF3I	CTNAG	4 cut(s)	411, 623, 686, 869
HpySE526I	ACGT	3 cut(s)	94, 107, 161
Hsp92I	GRCGYC	1 cut(s)	94
Hsp92II	CATG	3 cut(s)	182, 217, 475
Kzo9I	GATC	5 cut(s)	251, 565, 661, 730, 775
LguI	GCTCTTC	1 cut(s)	930
LmnI	GCTCC	2 cut(s)	133, 687
Lsp1109I	GCAGC	3 cut(s)	130, 158, 812
LweI	GCATC	3 cut(s)	208, 490, 798
MaeI	CTAG	3 cut(s)	569, 608, 672
MaeII	ACGT	3 cut(s)	94, 107, 161
MaeIII	GTNAC	3 cut(s)	75, 547, 689
MalI	GATC	5 cut(s)	253, 567, 663, 732, 777
MboI	GATC	5 cut(s)	251, 565, 661, 730, 775
MboII	GAAGA	7 cut(s)	362, 388, 429, 649, 806, 890, 947
MflI	RGATCY	2 cut(s)	661, 730
MluCI	AATT	6 cut(s)	166, 293, 531, 573, 813, 959
MlyI	GAGTC	2 cut(s)	187, 238
MnlI	CCTC	4 cut(s)	219, 446, 609, 949
MroXI	GAANNNNTTC	3 cut(s)	334, 834, 882
MseI	TTAA	3 cut(s)	86, 342, 917
MspCI	CTTAAG	1 cut(s)	85
MspR9I	CCNGG	1 cut(s)	99
MvaI	CCWGG	1 cut(s)	99
MwoI	GCNNNNNNNGC	1 cut(s)	140
NdeII	GATC	5 cut(s)	251, 565, 661, 730, 775
NlaIII	CATG	3 cut(s)	182, 217, 475
NmuCI	GTSAC	2 cut(s)	547, 689
NspI	RCATGY	1 cut(s)	217
PaeI	GCATGC	1 cut(s)	217
PaeR7I	CTCGAG	1 cut(s)	450
PceI	AGGCCT	1 cut(s)	445
PciSI	GCTCTTC	1 cut(s)	930
PdmI	GAANNNNTTC	3 cut(s)	334, 834, 882
PfeI	GAWTC	1 cut(s)	269
PkrI	GCNGC	3 cut(s)	145, 148, 802
PleI	GAGTC	2 cut(s)	187, 237
PpsI	GAGTC	2 cut(s)	187, 237
Psp1406I	AACGTT	1 cut(s)	161
Psp6I	CCWGG	1 cut(s)	97
PspGI	CCWGG	1 cut(s)	97
PspXI	VCTCGAGB	1 cut(s)	450
PstI	CTGCAG	1 cut(s)	148
PsuI	RGATCY	2 cut(s)	661, 730
RsaI	GTAC	2 cut(s)	106, 208
RsaNI	GTAC	2 cut(s)	105, 207
SapI	GCTCTTC	1 cut(s)	930
SaqAI	TTAA	3 cut(s)	86, 342, 917
SatI	GCNGC	3 cut(s)	144, 147, 801
Sau3AI	GATC	5 cut(s)	251, 565, 661, 730, 775
SchI	GAGTC	2 cut(s)	187, 238
ScrFI	CCNGG	1 cut(s)	99
SfaNI	GCATC	3 cut(s)	208, 490, 798
SfcI	CTRYAG	1 cut(s)	144
Sfr274I	CTCGAG	1 cut(s)	450
SlaI	CTCGAG	1 cut(s)	450
SmlI	CTYRAG	4 cut(s)	85, 365, 450, 600
SmoI	CTYRAG	4 cut(s)	85, 365, 450, 600
SphI	GCATGC	1 cut(s)	217
Sse9I	AATT	6 cut(s)	166, 293, 531, 573, 813, 959
SseBI	AGGCCT	1 cut(s)	445
SspI	AATATT	2 cut(s)	244, 460
SspMI	CTAG	3 cut(s)	569, 608, 672
StuI	AGGCCT	1 cut(s)	445
StyD4I	CCNGG	1 cut(s)	97
TaaI	ACNGT	2 cut(s)	124, 901
TaiI	ACGT	3 cut(s)	97, 110, 164
TaqI	TCGA	1 cut(s)	451
TasI	AATT	6 cut(s)	166, 293, 531, 573, 813, 959
TatI	WGTACW	1 cut(s)	206
TfiI	GAWTC	1 cut(s)	269
Tru1I	TTAA	3 cut(s)	86, 342, 917
Tru9I	TTAA	3 cut(s)	86, 342, 917
TscAI	CASTG	2 cut(s)	436, 760
TseFI	GTSAC	2 cut(s)	547, 689
TseI	GCWGC	3 cut(s)	143, 146, 800
Tsp45I	GTSAC	2 cut(s)	547, 689
TspDTI	ATGAA	1 cut(s)	303
TspRI	CASTG	2 cut(s)	436, 760
Vha464I	CTTAAG	1 cut(s)	85
XagI	CCTNNNNNAGG	1 cut(s)	450
XapI	RAATTY	2 cut(s)	166, 959
XceI	RCATGY	1 cut(s)	217
XhoI	CTCGAG	1 cut(s)	450
XmiI	GTMKAC	2 cut(s)	91, 645
XmnI	GAANNNNTTC	3 cut(s)	334, 834, 882
XspI	CTAG	3 cut(s)	569, 608, 672
ZraI	GACGTC	1 cut(s)	95

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