Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr3

Orthogroup ID

OG0005405

Physical Location & Seq

Genomic Coordinates Reverse (-)

54626837 .. 54629614

Gene Structure 2778 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000014554

Sequence Viewer

CDS Protein Promoter (2k)

Length: 684 bp

ATGCTTCCACTTCTTCTTCATGCTCCAGAGAGAGCAGAGCCGTGGATTTCCGATCTTGGCACCGCTCTTCAGGCCTCGAAGCGACTTGTATTGGTGGCCCGTAGCTTCAATTCCAATTGTGACGCTCCTATGCTCGCCGTTATTGCTATTCTAGAACGGGAATTAAGAAAAGTTAGTTCGAGAGCCAGGCGGGCTGTGGTGGAGAGAGTTGGAATCGGGCCAAGTCGACCGACCCATGTTGAGGACGAGTTTGGGTTATCTTGGACTGTGGATTCTCGGGAAGAGGCAGAAAGCTTAATTTTGGCCAGTGGTGTAATGATAATTGACTCGTTTACAGATAGTGTAATCTCTGTTTGTTTAACAAAGACTGAGATAATTGGTGGAAGTGTTGATGGTACTGTTCGAACATTTGACATTCGTATGGGAAGAGAGCTATCCGATGACTTGGGACAACCTGTGAACTGTATCTCAATGTCAAATGATGGTAACTGCATATTAGCAAGCTGCTTAGATTCGACTATACGACTCCTCGACAGGTCTTCCGCTGAATTACTTCAAGAATATAAAGGCCATACTTGTAAGGTTAGTATCTTATCTGGCTTCTGCCACTCTCTCATGGTTTCTTTGCCATTATCTAACTCGGATGCTCATTCCTCTTTTGTTTCTTTTGATATGTTGATATGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0044424 GO:0044464

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

WD40

Protein Analysis

228

Amino Acids

24.71

Weight (kDa)

5.13

Isoelectric Point (pI)

50.14

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Beta-prop_WDR5	PF25175	107 - 202	2.5e-12	WDR5 beta-propeller domain
Beta-prop_THOC3	PF25174	110 - 189	7.9e-06	THOC3 beta-propeller 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

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0005405)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G64730
fragaria_vesca	FvH4_1g23870 FvH4_6g20551
malus_domestica	MD15G1340800.v1.1
prunus_persica	Prupe.6G161500_v2.0.a1
pyrus_communis	pycom01g03350
rosa_chinensis	RchiOBHm_Chr2g0119791 RchiOBHm_Chr2g0119831 RchiOBHm_Chr6g0259141
rosa_laevigata	RLG00000014554 RLG00000014555 RLG00000018493
rosa_roxburghii	Rroxscaffold_2G00124070
rosa_rugosa	Rorug02G0223700 Rorug02G0223800
rosa_samantha	Rh1BG282400 Rh1DG313800 Rh2AG281500 Rh2BG293100 Rh2DG287900 Rh2DG307200 Rh6AG102100 Rh6AG102200 Rh6BG094400 Rh6CG091500 Rh6CG091600 Rh6DG085500 Rh6DG085600
rosa_wichuraiana	Rw2G022500

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	1 cut(s)	59
AccBSI	CCGCTC	1 cut(s)	65
AccI	GTMKAC	1 cut(s)	226
AciI	CCGC	3 cut(s)	63, 190, 543
AcoI	YGGCCR	1 cut(s)	303
AcuI	CTGAAG	1 cut(s)	53
AfaI	GTAC	1 cut(s)	397
AfiI	CCNNNNNNNGG	1 cut(s)	241
AgsI	TTSAA	2 cut(s)	109, 557
AjnI	CCWGG	1 cut(s)	185
AluBI	AGCT	4 cut(s)	105, 294, 433, 504
AluI	AGCT	4 cut(s)	105, 294, 433, 504
Ama87I	CYCGRG	1 cut(s)	276
AoxI	GGCC	5 cut(s)	72, 96, 218, 303, 568
ApeKI	GCWGC	1 cut(s)	504
Asp700I	GAANNNNTTC	1 cut(s)	552
AspS9I	GGNCC	2 cut(s)	97, 218
AsuII	TTCGAA	1 cut(s)	403
AvaI	CYCGRG	1 cut(s)	276
BalI	TGGCCA	1 cut(s)	305
BanI	GGYRCC	1 cut(s)	59
BbsI	GAAGAC	1 cut(s)	531
BbvI	GCAGC	1 cut(s)	491
BccI	CCATC	2 cut(s)	386, 476
BceAI	ACGGC	2 cut(s)	25, 122
BciT130I	CCWGG	1 cut(s)	187
BfaI	CTAG	1 cut(s)	152
BglI	GCCNNNNNGGC	1 cut(s)	191
BisI	GCNGC	1 cut(s)	505
BlsI	GCNGC	1 cut(s)	506
Bme1390I	CCNGG	1 cut(s)	187
BmeT110I	CYCGRG	1 cut(s)	276
BmgT120I	GGNCC	2 cut(s)	97, 218
BmiI	GGNNCC	1 cut(s)	61
BmrFI	CCNGG	1 cut(s)	187
BmsI	GCATC	1 cut(s)	634
BpiI	GAAGAC	1 cut(s)	531
BpmI	CTGGAG	1 cut(s)	9
Bpu14I	TTCGAA	1 cut(s)	403
BsaJI	CCNNGG	1 cut(s)	41
Bsc4I	CCNNNNNNNGG	1 cut(s)	241
Bse1I	ACTGG	1 cut(s)	306
BseBI	CCWGG	1 cut(s)	187
BseDI	CCNNGG	1 cut(s)	41
BseGI	GGATG	1 cut(s)	649
BseLI	CCNNNNNNNGG	1 cut(s)	241
BseMII	CTCAG	1 cut(s)	360
BseNI	ACTGG	1 cut(s)	306
BseRI	GAGGAG	1 cut(s)	518
BseXI	GCAGC	1 cut(s)	491
Bsh1285I	CGRYCG	1 cut(s)	230
BshFI	GGCC	5 cut(s)	74, 98, 220, 305, 570
BshNI	GGYRCC	1 cut(s)	59
BsiEI	CGRYCG	1 cut(s)	230
BsiHKCI	CYCGRG	1 cut(s)	276
BslFI	GGGAC	1 cut(s)	462
BslI	CCNNNNNNNGG	1 cut(s)	241
BsmFI	GGGAC	1 cut(s)	462
BsnI	GGCC	5 cut(s)	74, 98, 220, 305, 570
BsoBI	CYCGRG	1 cut(s)	276
Bsp119I	TTCGAA	1 cut(s)	403
Bsp143I	GATC	1 cut(s)	52
BspACI	CCGC	3 cut(s)	63, 190, 543
BspANI	GGCC	5 cut(s)	74, 98, 220, 305, 570
BspCNI	CTCAG	1 cut(s)	361
BspLI	GGNNCC	1 cut(s)	61
BspQI	GCTCTTC	1 cut(s)	72
BspT104I	TTCGAA	1 cut(s)	403
BspT107I	GGYRCC	1 cut(s)	59
BsrBI	CCGCTC	1 cut(s)	65
BsrI	ACTGG	1 cut(s)	306
BssECI	CCNNGG	1 cut(s)	41
BssMI	GATC	1 cut(s)	52
Bst2UI	CCWGG	1 cut(s)	187
Bst4CI	ACNGT	3 cut(s)	268, 400, 464
Bst6I	CTCTTC	3 cut(s)	72, 276, 421
BstBI	TTCGAA	1 cut(s)	403
BstC8I	GCNNGC	3 cut(s)	135, 192, 502
BstDEI	CTNAG	2 cut(s)	369, 508
BstDSI	CCRYGG	1 cut(s)	41
BstF5I	GGATG	1 cut(s)	649
BstKTI	GATC	1 cut(s)	55
BstMBI	GATC	1 cut(s)	52
BstMCI	CGRYCG	1 cut(s)	230
BstMWI	GCNNNNNNNGC	3 cut(s)	71, 143, 191
BstNI	CCWGG	1 cut(s)	187
BstSCI	CCNGG	1 cut(s)	185
BstV1I	GCAGC	1 cut(s)	491
BstV2I	GAAGAC	1 cut(s)	531
BsuRI	GGCC	5 cut(s)	74, 98, 220, 305, 570
BtgI	CCRYGG	1 cut(s)	41
BtsCI	GGATG	1 cut(s)	649
BtsIMutI	CAGTG	1 cut(s)	313
Cac8I	GCNNGC	3 cut(s)	135, 192, 502
Cfr13I	GGNCC	2 cut(s)	97, 218
CseI	GACGC	1 cut(s)	131
Csp6I	GTAC	1 cut(s)	396
CviAII	CATG	3 cut(s)	20, 236, 616
CviQI	GTAC	1 cut(s)	396
DdeI	CTNAG	2 cut(s)	369, 508
DpnI	GATC	1 cut(s)	54
DpnII	GATC	1 cut(s)	52
EaeI	YGGCCR	1 cut(s)	303
Eam1104I	CTCTTC	3 cut(s)	72, 276, 421
EarI	CTCTTC	3 cut(s)	72, 276, 421
Eco147I	AGGCCT	1 cut(s)	74
Eco57I	CTGAAG	1 cut(s)	53
Eco88I	CYCGRG	1 cut(s)	276
EcoRII	CCWGG	1 cut(s)	185
FaeI	CATG	3 cut(s)	23, 239, 619
FaqI	GGGAC	1 cut(s)	462
FatI	CATG	3 cut(s)	19, 235, 615
FauI	CCCGC	1 cut(s)	183
FblI	GTMKAC	1 cut(s)	226
Fnu4HI	GCNGC	1 cut(s)	505
FokI	GGATG	1 cut(s)	656
Fsp4HI	GCNGC	1 cut(s)	505
FspBI	CTAG	1 cut(s)	152
GluI	GCNGC	1 cut(s)	505
GsuI	CTGGAG	1 cut(s)	9
HaeIII	GGCC	5 cut(s)	74, 98, 220, 305, 570
HgaI	GACGC	1 cut(s)	131
Hin1II	CATG	3 cut(s)	23, 239, 619
HincII	GTYRAC	1 cut(s)	227
HindII	GTYRAC	1 cut(s)	227
HindIII	AAGCTT	1 cut(s)	292
HinfI	GANTC	5 cut(s)	213, 272, 326, 512, 525
Hpy166II	GTNNAC	3 cut(s)	227, 333, 460
Hpy188I	TCNGA	3 cut(s)	52, 439, 643
Hpy188III	TCNNGA	5 cut(s)	26, 152, 180, 278, 557
Hpy8I	GTNNAC	3 cut(s)	227, 333, 460
HpyCH4III	ACNGT	3 cut(s)	268, 400, 464
HpyCH4V	TGCA	1 cut(s)	492
HpyF10VI	GCNNNNNNNGC	3 cut(s)	71, 143, 191
HpyF3I	CTNAG	2 cut(s)	369, 508
Hsp92II	CATG	3 cut(s)	23, 239, 619
Kzo9I	GATC	1 cut(s)	52
LguI	GCTCTTC	1 cut(s)	72
LmnI	GCTCC	2 cut(s)	28, 130
LpnPI	CCDG	8 cut(s)	39, 56, 172, 199, 319, 468, 520, 582
Lsp1109I	GCAGC	1 cut(s)	491
LweI	GCATC	1 cut(s)	634
MaeI	CTAG	1 cut(s)	152
MaeIII	GTNAC	2 cut(s)	119, 485
MalI	GATC	1 cut(s)	54
MbiI	CCGCTC	1 cut(s)	65
MboI	GATC	1 cut(s)	52
MboII	GAAGA	6 cut(s)	5, 8, 59, 293, 438, 531
MfeI	CAATTG	1 cut(s)	115
MlsI	TGGCCA	1 cut(s)	305
MluCI	AATT	7 cut(s)	109, 115, 161, 297, 321, 375, 548
MluNI	TGGCCA	1 cut(s)	305
MlyI	GAGTC	2 cut(s)	320, 519
MmeI	TCCRAC	1 cut(s)	190
MnlI	CCTC	5 cut(s)	85, 235, 277, 539, 664
Mox20I	TGGCCA	1 cut(s)	305
MroXI	GAANNNNTTC	1 cut(s)	552
MscI	TGGCCA	1 cut(s)	305
MseI	TTAA	3 cut(s)	164, 296, 359
MslI	CAYNNNNRTG	1 cut(s)	419
Msp20I	TGGCCA	1 cut(s)	305
MspA1I	CMGCKG	1 cut(s)	545
MspR9I	CCNGG	1 cut(s)	187
MunI	CAATTG	1 cut(s)	115
MvaI	CCWGG	1 cut(s)	187
MwoI	GCNNNNNNNGC	3 cut(s)	71, 143, 191
NdeII	GATC	1 cut(s)	52
NlaIII	CATG	3 cut(s)	23, 239, 619
NlaIV	GGNNCC	1 cut(s)	61
NmuCI	GTSAC	1 cut(s)	119
NspV	TTCGAA	1 cut(s)	403
PceI	AGGCCT	1 cut(s)	74
PciSI	GCTCTTC	1 cut(s)	72
PdmI	GAANNNNTTC	1 cut(s)	552
PfeI	GAWTC	3 cut(s)	213, 272, 512
PkrI	GCNGC	1 cut(s)	506
PleI	GAGTC	2 cut(s)	320, 519
PpsI	GAGTC	2 cut(s)	320, 519
Psp6I	CCWGG	1 cut(s)	185
PspGI	CCWGG	1 cut(s)	185
PspN4I	GGNNCC	1 cut(s)	61
PspPI	GGNCC	2 cut(s)	97, 218
RsaI	GTAC	1 cut(s)	397
RsaNI	GTAC	1 cut(s)	396
RseI	CAYNNNNRTG	1 cut(s)	419
SalI	GTCGAC	1 cut(s)	225
SapI	GCTCTTC	1 cut(s)	72
SaqAI	TTAA	3 cut(s)	164, 296, 359
SatI	GCNGC	1 cut(s)	505
Sau3AI	GATC	1 cut(s)	52
Sau96I	GGNCC	2 cut(s)	97, 218
SchI	GAGTC	2 cut(s)	320, 519
ScrFI	CCNGG	1 cut(s)	187
SetI	ASST	7 cut(s)	107, 296, 435, 457, 506, 539, 585
SfaNI	GCATC	1 cut(s)	634
SfuI	TTCGAA	1 cut(s)	403
SmiMI	CAYNNNNRTG	1 cut(s)	419
Sse9I	AATT	7 cut(s)	109, 115, 161, 297, 321, 375, 548
SseBI	AGGCCT	1 cut(s)	74
SsiI	CCGC	3 cut(s)	63, 190, 543
SspMI	CTAG	1 cut(s)	152
StuI	AGGCCT	1 cut(s)	74
StyD4I	CCNGG	1 cut(s)	185
TaaI	ACNGT	3 cut(s)	268, 400, 464
TaqI	TCGA	6 cut(s)	77, 179, 226, 403, 515, 531
TaqII	GACCGA	1 cut(s)	244
TasI	AATT	7 cut(s)	109, 115, 161, 297, 321, 375, 548
TfiI	GAWTC	3 cut(s)	213, 272, 512
Tru1I	TTAA	3 cut(s)	164, 296, 359
Tru9I	TTAA	3 cut(s)	164, 296, 359
TscAI	CASTG	1 cut(s)	313
TseFI	GTSAC	1 cut(s)	119
TseI	GCWGC	1 cut(s)	504
Tsp45I	GTSAC	1 cut(s)	119
TspDTI	ATGAA	1 cut(s)	8
TspRI	CASTG	1 cut(s)	313
XbaI	TCTAGA	1 cut(s)	151
XcmI	CCANNNNNNNNNTGG	1 cut(s)	193
XmiI	GTMKAC	1 cut(s)	226
XmnI	GAANNNNTTC	1 cut(s)	552
XspI	CTAG	1 cut(s)	152

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