Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5D

Orthogroup ID

OG0004106

Physical Location & Seq

Genomic Coordinates Forward (+)

8604252 .. 8607254

Gene Structure 3003 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5DG093600.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 618 bp

ATGGCGGTGGAAGACGCTTCAGCTTCGGAAGATCAGAGCAGGACGGAGTCGAACCCTAAATCAATGCAAGACGAGAACGAGCTGGAAGAAGGAGAGATCGTCAGCGGCGGCGGCGACGAGGTGTCTTCGAAGATCGCAAAGCCGCTGCACCACCCTCTGGAGCACTCATGGACCTTCTGGTTCGATAGCCCCTCGGCCAAGAACTCAAAGCCCAAGCAAGAGGATTGGGGCAGCTCTATTCGCCCGATCTACACCTTCTCTACTGTTGAGGAATTCTGGGGTATATACAATAATATACGCCATCCAAGCAAGTTGTCTATGGGGACGGACCTCCATTGTTTCAAAAACAAAATTGAGCCTAAGTGGGAGGATCCTGTTTGTGCTAATGGAGGGAAATGGACTCTAACTTTTACTAAAGGGAAATCTGATCATCCCTGGCTGCATACGTTGCTAGCACTGATTGGGGAACAGTTTGATCATGGAGATGAAATATGTGGAGCAGTTGTCAATGTCAGAAGTAGGCAAGAAAAAATTGCTATTTGGACCAAGAATGCAGCAAATGAGGCTGCTCAGGTAATTGCTATGTCCTACTCAATTTATTTGTTGGGCTGCTCTTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0006950 GO:0008150 GO:0009628 GO:0034059 GO:0036293 GO:0050896 GO:0070482

KEGG Pathways

Metabolic & Signaling

ko01521 ko03013 ko04066 ko04150 ko04151 ko04211 ko04910 map01521 map03013 map04066 map04150 map04151 map04211 map04910

Pfam Domains

Protein Families

IF4E

Protein Analysis

205

Amino Acids

22.97

Weight (kDa)

5.25

Isoelectric Point (pI)

43.64

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
IF4E	PF01652	52 - 192	3.6e-54	Eukaryotic initiation factor 4E

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Align Labels (Cladogram)

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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: OG0004106)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G18040
fragaria_vesca	FvH4_3g06500 FvH4_6g40690 FvH4_6g40690
malus_domestica	MD05G1292800.v1.1 MD10G1268600.v1.1 MD10G1268700.v1.1
prunus_persica	Prupe.4G072600_v2.0.a1
pyrus_communis	pycom02g18730 pycom05g26930 pycom10g22520
rosa_chinensis	RchiOBHm_Chr1g0351341 RchiOBHm_Chr5g0012781
rosa_laevigata	RLG00000011566 RLG00000028411 RLG00000031930 RLG00000031941 RLG00000031944 RLG00000031954
rosa_multiflora	Rmu_sc0000089.1_g000002 Rmu_sc0006811.1_g000012 Rmu_sc0011161.1_g000001
rosa_roxburghii	Rroxscaffold_1G00063810 Rroxscaffold_4G00303860
rosa_rugosa	Rorug05G0004000 Rorug05G0004000
rosa_samantha	Rh1BG202600 Rh5AG097900 Rh5BG094900 Rh5CG106800 Rh5DG093600 Rh7DG406200
rosa_wichuraiana	Rw5G008560

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB7I	CCANNNNNTGG	1 cut(s)	157
AciI	CCGC	5 cut(s)	5, 105, 108, 111, 143
AclWI	GGATC	2 cut(s)	365, 378
AcoI	YGGCCR	1 cut(s)	195
AcsI	RAATTY	1 cut(s)	272
AfiI	CCNNNNNNNGG	1 cut(s)	157
AgsI	TTSAA	1 cut(s)	343
AhdI	GACNNNNNGTC	1 cut(s)	121
AjnI	CCWGG	1 cut(s)	434
AluBI	AGCT	3 cut(s)	23, 82, 234
AluI	AGCT	3 cut(s)	23, 82, 234
Alw21I	GWGCWC	1 cut(s)	165
AlwI	GGATC	2 cut(s)	365, 378
AoxI	GGCC	1 cut(s)	195
ApeKI	GCWGC	6 cut(s)	145, 231, 439, 554, 566, 609
ApoI	RAATTY	1 cut(s)	272
AspS9I	GGNCC	3 cut(s)	171, 328, 543
AsuII	TTCGAA	1 cut(s)	128
AsuNHI	GCTAGC	1 cut(s)	451
AvaII	GGWCC	3 cut(s)	171, 328, 543
BamHI	GGATCC	1 cut(s)	370
BbsI	GAAGAC	2 cut(s)	18, 117
Bbv12I	GWGCWC	1 cut(s)	165
BbvI	GCAGC	6 cut(s)	132, 243, 426, 553, 566, 596
BccI	CCATC	1 cut(s)	309
BciT130I	CCWGG	1 cut(s)	436
BclI	TGATCA	2 cut(s)	427, 475
BfaI	CTAG	1 cut(s)	452
Bme1390I	CCNGG	1 cut(s)	436
Bme18I	GGWCC	3 cut(s)	171, 328, 543
BmeRI	GACNNNNNGTC	1 cut(s)	121
BmgT120I	GGNCC	3 cut(s)	171, 328, 543
BmiI	GGNNCC	1 cut(s)	372
BmrFI	CCNGG	1 cut(s)	436
BmtI	GCTAGC	1 cut(s)	455
BpiI	GAAGAC	2 cut(s)	18, 117
BpmI	CTGGAG	1 cut(s)	179
Bpu10I	CCTNAGC	1 cut(s)	570
Bpu14I	TTCGAA	1 cut(s)	128
BsaJI	CCNNGG	2 cut(s)	192, 434
BsaXI	ACNNNNNCTCC	4 cut(s)	84, 114, 489, 519
Bsc4I	CCNNNNNNNGG	1 cut(s)	157
BseBI	CCWGG	1 cut(s)	436
BseDI	CCNNGG	2 cut(s)	192, 434
BseGI	GGATG	2 cut(s)	301, 430
BseLI	CCNNNNNNNGG	1 cut(s)	157
BseMII	CTCAG	1 cut(s)	584
BseXI	GCAGC	6 cut(s)	132, 243, 426, 553, 566, 596
BsgI	GTGCAG	1 cut(s)	131
BshFI	GGCC	1 cut(s)	197
BsiHKAI	GWGCWC	1 cut(s)	165
BslFI	GGGAC	1 cut(s)	337
BslI	CCNNNNNNNGG	1 cut(s)	157
BsmFI	GGGAC	1 cut(s)	337
BsmI	GAATGC	1 cut(s)	556
BsnI	GGCC	1 cut(s)	197
Bsp119I	TTCGAA	1 cut(s)	128
Bsp1286I	GDGCHC	1 cut(s)	165
Bsp143I	GATC	7 cut(s)	31, 96, 132, 246, 370, 427, 475
BspACI	CCGC	5 cut(s)	5, 105, 108, 111, 143
BspANI	GGCC	1 cut(s)	197
BspCNI	CTCAG	1 cut(s)	583
BspLI	GGNNCC	1 cut(s)	372
BspOI	GCTAGC	1 cut(s)	455
BspPI	GGATC	2 cut(s)	365, 378
BspT104I	TTCGAA	1 cut(s)	128
BssECI	CCNNGG	2 cut(s)	192, 434
BssMI	GATC	7 cut(s)	31, 96, 132, 246, 370, 427, 475
Bst2UI	CCWGG	1 cut(s)	436
Bst4CI	ACNGT	2 cut(s)	265, 471
BstAPI	GCANNNNNTGC	1 cut(s)	448
BstBI	TTCGAA	1 cut(s)	128
BstC8I	GCNNGC	1 cut(s)	453
BstDEI	CTNAG	2 cut(s)	360, 570
BstF5I	GGATG	2 cut(s)	301, 430
BstKTI	GATC	7 cut(s)	34, 99, 135, 249, 373, 430, 478
BstMBI	GATC	7 cut(s)	31, 96, 132, 246, 370, 427, 475
BstMWI	GCNNNNNNNGC	5 cut(s)	111, 240, 306, 448, 563
BstNI	CCWGG	1 cut(s)	436
BstSCI	CCNGG	1 cut(s)	434
BstV1I	GCAGC	6 cut(s)	132, 243, 426, 553, 566, 596
BstV2I	GAAGAC	2 cut(s)	18, 117
BstX2I	RGATCY	1 cut(s)	370
BstYI	RGATCY	1 cut(s)	370
BsuRI	GGCC	1 cut(s)	197
BtsCI	GGATG	2 cut(s)	301, 430
BtsIMutI	CAGTG	1 cut(s)	455
Cac8I	GCNNGC	1 cut(s)	453
Cfr13I	GGNCC	3 cut(s)	171, 328, 543
CseI	GACGC	1 cut(s)	23
CviAII	CATG	2 cut(s)	168, 479
DdeI	CTNAG	2 cut(s)	360, 570
DpnI	GATC	7 cut(s)	33, 98, 134, 248, 372, 429, 477
DpnII	GATC	7 cut(s)	31, 96, 132, 246, 370, 427, 475
DriI	GACNNNNNGTC	1 cut(s)	121
EaeI	YGGCCR	1 cut(s)	195
Eam1105I	GACNNNNNGTC	1 cut(s)	121
Eco47I	GGWCC	3 cut(s)	171, 328, 543
EcoRI	GAATTC	1 cut(s)	272
EcoRII	CCWGG	1 cut(s)	434
FaeI	CATG	2 cut(s)	171, 482
FaiI	YATR	9 cut(s)	169, 284, 286, 296, 320, 444, 480, 493, 584
FaqI	GGGAC	1 cut(s)	337
FatI	CATG	2 cut(s)	167, 478
FbaI	TGATCA	2 cut(s)	427, 475
FokI	GGATG	2 cut(s)	288, 417
FspBI	CTAG	1 cut(s)	452
GsuI	CTGGAG	1 cut(s)	179
HaeIII	GGCC	1 cut(s)	197
HgaI	GACGC	1 cut(s)	23
Hin1II	CATG	2 cut(s)	171, 482
HinfI	GANTC	2 cut(s)	47, 400
Hpy188I	TCNGA	4 cut(s)	28, 36, 427, 515
Hpy188III	TCNNGA	1 cut(s)	158
Hpy99I	CGWCG	1 cut(s)	119
HpyAV	CCTTC	3 cut(s)	83, 184, 265
HpyCH4III	ACNGT	2 cut(s)	265, 471
HpyCH4IV	ACGT	1 cut(s)	446
HpyCH4V	TGCA	4 cut(s)	67, 148, 442, 554
HpyF10VI	GCNNNNNNNGC	5 cut(s)	111, 240, 306, 448, 563
HpyF3I	CTNAG	2 cut(s)	360, 570
HpySE526I	ACGT	1 cut(s)	446
Hsp92II	CATG	2 cut(s)	171, 482
Ksp22I	TGATCA	2 cut(s)	427, 475
Kzo9I	GATC	7 cut(s)	31, 96, 132, 246, 370, 427, 475
LmnI	GCTCC	2 cut(s)	160, 497
LpnPI	CCDG	9 cut(s)	25, 68, 143, 163, 262, 387, 421, 448, 557
Lsp1109I	GCAGC	6 cut(s)	132, 243, 426, 553, 566, 596
MaeI	CTAG	1 cut(s)	452
MaeII	ACGT	1 cut(s)	446
MalI	GATC	7 cut(s)	33, 98, 134, 248, 372, 429, 477
MboI	GATC	7 cut(s)	31, 96, 132, 246, 370, 427, 475
MboII	GAAGA	5 cut(s)	23, 41, 98, 117, 142
MflI	RGATCY	1 cut(s)	370
MhlI	GDGCHC	1 cut(s)	165
MluCI	AATT	5 cut(s)	272, 351, 531, 576, 594
MlyI	GAGTC	2 cut(s)	56, 394
MnlI	CCTC	9 cut(s)	112, 165, 202, 214, 262, 341, 361, 383, 556
MseI	TTAA	1 cut(s)	616
MslI	CAYNNNNRTG	1 cut(s)	483
MspA1I	CMGCKG	2 cut(s)	105, 145
MspR9I	CCNGG	1 cut(s)	436
Mva1269I	GAATGC	1 cut(s)	556
MvaI	CCWGG	1 cut(s)	436
MwoI	GCNNNNNNNGC	5 cut(s)	111, 240, 306, 448, 563
NdeII	GATC	7 cut(s)	31, 96, 132, 246, 370, 427, 475
NheI	GCTAGC	1 cut(s)	451
NlaIII	CATG	2 cut(s)	171, 482
NlaIV	GGNNCC	1 cut(s)	372
NmeAIII	GCCGAG	1 cut(s)	173
NspV	TTCGAA	1 cut(s)	128
PctI	GAATGC	1 cut(s)	556
PflFI	GACNNNGTC	1 cut(s)	46
PflMI	CCANNNNNTGG	1 cut(s)	157
PleI	GAGTC	2 cut(s)	55, 394
PpsI	GAGTC	2 cut(s)	55, 394
Psp6I	CCWGG	1 cut(s)	434
PspGI	CCWGG	1 cut(s)	434
PspN4I	GGNNCC	1 cut(s)	372
PspPI	GGNCC	3 cut(s)	171, 328, 543
PsuI	RGATCY	1 cut(s)	370
PsyI	GACNNNGTC	1 cut(s)	46
RseI	CAYNNNNRTG	1 cut(s)	483
SaqAI	TTAA	1 cut(s)	616
Sau3AI	GATC	7 cut(s)	31, 96, 132, 246, 370, 427, 475
Sau96I	GGNCC	3 cut(s)	171, 328, 543
SchI	GAGTC	2 cut(s)	56, 394
ScrFI	CCNGG	1 cut(s)	436
SduI	GDGCHC	1 cut(s)	165
SetI	ASST	9 cut(s)	25, 84, 123, 176, 236, 257, 333, 449, 576
SfuI	TTCGAA	1 cut(s)	128
SinI	GGWCC	3 cut(s)	171, 328, 543
SmiMI	CAYNNNNRTG	1 cut(s)	483
Sse9I	AATT	5 cut(s)	272, 351, 531, 576, 594
SsiI	CCGC	5 cut(s)	5, 105, 108, 111, 143
SspMI	CTAG	1 cut(s)	452
StyD4I	CCNGG	1 cut(s)	434
TaaI	ACNGT	2 cut(s)	265, 471
TaiI	ACGT	1 cut(s)	449
TaqI	TCGA	3 cut(s)	50, 128, 183
TasI	AATT	5 cut(s)	272, 351, 531, 576, 594
TauI	GCSGC	4 cut(s)	108, 111, 114, 145
Tru1I	TTAA	1 cut(s)	616
Tru9I	TTAA	1 cut(s)	616
TscAI	CASTG	1 cut(s)	462
TseI	GCWGC	6 cut(s)	145, 231, 439, 554, 566, 609
TspDTI	ATGAA	1 cut(s)	501
TspGWI	ACGGA	2 cut(s)	59, 341
TspRI	CASTG	1 cut(s)	462
Tth111I	GACNNNGTC	1 cut(s)	46
Van91I	CCANNNNNTGG	1 cut(s)	157
VpaK11BI	GGWCC	3 cut(s)	171, 328, 543
XapI	RAATTY	1 cut(s)	272
XspI	CTAG	1 cut(s)	452

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