Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6D

Orthogroup ID

OG0009133

Physical Location & Seq

Genomic Coordinates Reverse (-)

1829254 .. 1831394

Gene Structure 2141 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6DG020600.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1296 bp

ATGGCGGCAACAGTGTCGTCTCCTTGGGCCAAGCCCGGCGCGTGGGCCCTCGACGCCGAAGAGCACGAAGCCGAGCTCGAACAACAACAACAGACTAAGATCGAAACGCAGCAGCCCCTCGCCGACTTCCCCTCTCTCTCCGCCGCCGCCGCGAAGCCGAAGAAGAAGAACAAGGGCCAGAAGGTCAGCCTCGCCGAGTTCTCCACCTTCGGTGGGCCCAAACCCGCCGAGCCCGTGGGCCTGACCCACGAAGATCGGTTGGTTCTCCCGACCGGCCCGCGCGAGCGGACCGCCGAGGAGCTCGAACGGAACCGGCTCGGCGGCGGGTTCAAGAGCTACGGCGGCGATCGGGGGAACCGTGAGGATTCGAGTTCGAAGTGGGGGGGTCAGAGGAGGGAAGGAGGAGGAGGGTTTGGGGGGAAAGAAGGAGGAGAGAGAGATGGGCCGTCGCGGGCGGATGAGGCCGACGACTGGGGCGCCGGGAAGAAATCGGCGGCGGGGAATGGGTTTGAGAGGAGGGAGAGAGGAGGGTTCTTTGGGTCCCAGTCGAAGGCGGATGAATCTGACAGCTGGGTCTCGAATAAGAGCTCGTTTTCGTCGGAGGGAAGGAGATACGGCGGCTCCGGCGGTGGGTTTGAGAGGGAGAGGAAGGTTGGGTTTGCATCGAATGGCGGCGGTGCTGATTCAGAGAGCTGGGGGAGGAAGAGGGAGGAGAGTAATGGTGGGGGTGGGTTTGAAAGGGAGAGGAAGGTAGGGTTAGGGTTCAATTCGAACGGTGGCGGTGCGGATTCGGAGAGTTGGGGAAGGAGGAGGGAGGAGAGTAATGGTGGGGTGGAGAGTACTGGGAGGCCGAGGCTCAATTTGCAGCCGAGGACATTGCCTGTTACTCTGCCTGTTGTGAGCAATGAAACCTCACCCGTGGCGGTGCCTGTGGATGTGGCGGCAGCACCAAAGCCCAGGGGTTCGAACCCGTTTGGGGCGGCAAGGCCGAGAGAGGAGGTTTTGGCAGAGAAAGGGCAGGATTGGAAGAAGATTGACGAGCAGCTTGAGTCTGTGAAGCTTAAGGAGAAGGAGGCTGTGGCTGCCGAAGGGGAGTCTTTTGGGAAGAGGAGTTTCGGGATGGGAAATGGGCGCTCTGGTGACCGCACCGGGGGAGTTTGGAGGAAACCTGCTGTGGCTGAGGCGGAGGCTGAGGCTGAGGCTGAGGCTCGTCCTCAGAGTGCTGGAAACGATGAGAGTAGGAGCAGCAATTCCGAGGAACCAGAACCGGAGAATGAGAATGTCAATGAGAACTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003676 GO:0003723 GO:0003729 GO:0005488 GO:0005515 GO:0042802 GO:0042803 GO:0046983 GO:0097159 GO:1901363

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

eIF-4B

Protein Analysis

431

Amino Acids

45.88

Weight (kDa)

5.39

Isoelectric Point (pI)

51.89

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
eIF-4B	PF06273	6 - 207	1e-37	Plant specific eukaryotic initiation factor 4B
eIF-4B	PF06273	179 - 354	2.1e-17	Plant specific eukaryotic initiation factor 4B

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

Font Size (px)

Line Width

Align Labels (Cladogram)

Image

Tree File

Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready

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

Orthologous Genes (Group: OG0009133)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G38710 AT4G38710
fragaria_vesca	FvH4_2g01750
malus_domestica	MD05G1116800.v1.1 MD10G1119900.v1.1
prunus_persica	Prupe.8G161300_v2.0.a1
pyrus_communis	pycom05g11110 pycom10g10330
rosa_chinensis	RchiOBHm_Chr6g0244781
rosa_laevigata	RLG00000015329
rosa_multiflora	Rmu_co8397245.1_g000001 Rmu_sc0002064.1_g000007 Rmu_sc0012997.1_g000002
rosa_roxburghii	Rroxscaffold_7G00215500
rosa_rugosa	Rorug05G0510600.1 Rorug05G0510700 Rorug05G0510700
rosa_samantha	Rh6AG025800 Rh6BG021500 Rh6CG020000 Rh6DG020600
rosa_wichuraiana	Rw6G002180

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	1 cut(s)	572
Acc36I	ACCTGC	1 cut(s)	1177
AccB1I	GGYRCC	2 cut(s)	476, 925
AccBSI	CCGCTC	1 cut(s)	286
AccII	CGCG	5 cut(s)	41, 152, 280, 282, 451
AcyI	GRCGYC	2 cut(s)	54, 477
AfaI	GTAC	1 cut(s)	841
AfiI	CCNNNNNNNGG	7 cut(s)	42, 213, 471, 550, 630, 976, 1150
AflII	CTTAAG	1 cut(s)	1061
AgsI	TTSAA	3 cut(s)	331, 737, 766
AjnI	CCWGG	1 cut(s)	956
AluBI	AGCT	8 cut(s)	76, 301, 336, 570, 588, 693, 1045, 1060
AluI	AGCT	8 cut(s)	76, 301, 336, 570, 588, 693, 1045, 1060
Alw21I	GWGCWC	4 cut(s)	66, 78, 303, 590
Alw26I	GTCTC	2 cut(s)	24, 580
ApaI	GGGCCC	2 cut(s)	49, 219
ApeKI	GCWGC	7 cut(s)	109, 112, 865, 944, 1042, 1082, 1245
AspLEI	GCGC	4 cut(s)	41, 282, 479, 1134
AsuC2I	CCSGG	3 cut(s)	36, 481, 1150
AsuHPI	GGTGA	2 cut(s)	906, 1151
AsuII	TTCGAA	3 cut(s)	374, 770, 965
AvaII	GGWCC	2 cut(s)	288, 540
BaeGI	GKGCMC	2 cut(s)	49, 219
BanI	GGYRCC	2 cut(s)	476, 925
BanII	GRGCYC	6 cut(s)	49, 78, 219, 234, 303, 590
Bbv12I	GWGCWC	4 cut(s)	66, 78, 303, 590
BbvCI	CCTCAGC	4 cut(s)	1179, 1191, 1197, 1203
BbvI	GCAGC	7 cut(s)	121, 124, 877, 956, 1054, 1069, 1257
BccI	CCATC	2 cut(s)	434, 1114
BceAI	ACGGC	3 cut(s)	355, 430, 631
BcgI	CGANNNNNNTGC	3 cut(s)	31, 859, 893
BciT130I	CCWGG	1 cut(s)	958
BcnI	CCSGG	3 cut(s)	36, 481, 1150
BcoDI	GTCTC	2 cut(s)	24, 580
BfoI	RGCGCY	2 cut(s)	480, 1135
BfrI	CTTAAG	1 cut(s)	1061
BfuAI	ACCTGC	1 cut(s)	1177
BmcAI	AGTACT	1 cut(s)	841
Bme1390I	CCNGG	4 cut(s)	36, 481, 958, 1150
Bme18I	GGWCC	2 cut(s)	288, 540
BmrFI	CCNGG	4 cut(s)	36, 481, 958, 1150
BmrI	ACTGGG	3 cut(s)	481, 538, 852
BmsI	GCATC	1 cut(s)	671
BmuI	ACTGGG	3 cut(s)	481, 538, 852
Bpu10I	CCTNAGC	4 cut(s)	1179, 1191, 1197, 1203
Bpu14I	TTCGAA	3 cut(s)	374, 770, 965
BpuEI	CTTGAG	1 cut(s)	1067
BpuMI	CCSGG	3 cut(s)	36, 481, 1150
BsaHI	GRCGYC	2 cut(s)	54, 477
BsaI	GGTCTC	1 cut(s)	580
BsaWI	WCCGGW	1 cut(s)	1267
BsaXI	ACNNNNNCTCC	2 cut(s)	605, 635
Bsc4I	CCNNNNNNNGG	7 cut(s)	42, 213, 471, 550, 630, 976, 1150
Bse118I	RCCGGY	2 cut(s)	272, 312
Bse1I	ACTGG	3 cut(s)	476, 544, 847
Bse3DI	GCAATG	2 cut(s)	875, 910
BseBI	CCWGG	1 cut(s)	958
BseGI	GGATG	4 cut(s)	463, 562, 940, 1125
BseLI	CCNNNNNNNGG	7 cut(s)	42, 213, 471, 550, 630, 976, 1150
BseMI	GCAATG	2 cut(s)	875, 910
BseMII	CTCAG	5 cut(s)	1170, 1182, 1188, 1194, 1229
BseNI	ACTGG	3 cut(s)	476, 544, 847
BseSI	GKGCMC	2 cut(s)	49, 219
BseXI	GCAGC	7 cut(s)	121, 124, 877, 956, 1054, 1069, 1257
BseYI	CCCAGC	2 cut(s)	570, 693
Bsh1236I	CGCG	5 cut(s)	41, 152, 280, 282, 451
Bsh1285I	CGRYCG	2 cut(s)	273, 349
BshNI	GGYRCC	2 cut(s)	476, 925
BsiEI	CGRYCG	2 cut(s)	273, 349
BsiHKAI	GWGCWC	4 cut(s)	66, 78, 303, 590
BsiSI	CCGG	7 cut(s)	36, 273, 313, 480, 624, 1149, 1268
BslFI	GGGAC	1 cut(s)	526
BslI	CCNNNNNNNGG	7 cut(s)	42, 213, 471, 550, 630, 976, 1150
BsmAI	GTCTC	2 cut(s)	24, 580
BsmBI	CGTCTC	1 cut(s)	24
BsmFI	GGGAC	1 cut(s)	526
Bso31I	GGTCTC	1 cut(s)	580
Bsp119I	TTCGAA	3 cut(s)	374, 770, 965
Bsp120I	GGGCCC	2 cut(s)	45, 215
Bsp1286I	GDGCHC	7 cut(s)	49, 66, 78, 219, 234, 303, 590
Bsp143I	GATC	3 cut(s)	99, 253, 346
BspCNI	CTCAG	5 cut(s)	1171, 1183, 1189, 1195, 1228
BspFNI	CGCG	5 cut(s)	41, 152, 280, 282, 451
BspMI	ACCTGC	1 cut(s)	1177
BspQI	GCTCTTC	1 cut(s)	54
BspT104I	TTCGAA	3 cut(s)	374, 770, 965
BspT107I	GGYRCC	2 cut(s)	476, 925
BspTI	CTTAAG	1 cut(s)	1061
BspTNI	GGTCTC	1 cut(s)	580
BsrBI	CCGCTC	1 cut(s)	286
BsrDI	GCAATG	2 cut(s)	875, 910
BsrFI	RCCGGY	2 cut(s)	272, 312
BsrI	ACTGG	3 cut(s)	476, 544, 847
BssAI	RCCGGY	2 cut(s)	272, 312
BssMI	GATC	3 cut(s)	99, 253, 346
BssNI	GRCGYC	2 cut(s)	54, 477
BssT1I	CCWWGG	1 cut(s)	23
Bst2UI	CCWGG	1 cut(s)	958
Bst4CI	ACNGT	3 cut(s)	13, 359, 776
Bst6I	CTCTTC	3 cut(s)	54, 698, 1100
BstACI	GRCGYC	2 cut(s)	54, 477
BstAFI	CTTAAG	1 cut(s)	1061
BstBI	TTCGAA	3 cut(s)	374, 770, 965
BstC8I	GCNNGC	3 cut(s)	278, 284, 453
BstDEI	CTNAG	6 cut(s)	96, 1179, 1191, 1197, 1203, 1215
BstDSI	CCRYGG	2 cut(s)	234, 918
BstEII	GGTNACC	1 cut(s)	1139
BstF5I	GGATG	4 cut(s)	463, 562, 940, 1125
BstFNI	CGCG	5 cut(s)	41, 152, 280, 282, 451
BstH2I	RGCGCY	2 cut(s)	480, 1135
BstHHI	GCGC	4 cut(s)	41, 282, 479, 1134
BstKTI	GATC	3 cut(s)	102, 256, 349
BstMAI	GTCTC	2 cut(s)	24, 580
BstMBI	GATC	3 cut(s)	99, 253, 346
BstMCI	CGRYCG	2 cut(s)	273, 349
BstMWI	GCNNNNNNNGC	7 cut(s)	53, 149, 342, 461, 624, 862, 1082
BstNI	CCWGG	1 cut(s)	958
BstPI	GGTNACC	1 cut(s)	1139
BstSCI	CCNGG	4 cut(s)	34, 479, 956, 1148
BstSLI	GKGCMC	2 cut(s)	49, 219
BstUI	CGCG	5 cut(s)	41, 152, 280, 282, 451
BstV1I	GCAGC	7 cut(s)	121, 124, 877, 956, 1054, 1069, 1257
BtgI	CCRYGG	2 cut(s)	234, 918
BtsCI	GGATG	4 cut(s)	463, 562, 940, 1125
BtsIMutI	CAGTG	1 cut(s)	18
BveI	ACCTGC	1 cut(s)	1177
Cac8I	GCNNGC	3 cut(s)	278, 284, 453
CfoI	GCGC	4 cut(s)	41, 282, 479, 1134
Cfr10I	RCCGGY	2 cut(s)	272, 312
CpoI	CGGWCCG	1 cut(s)	288
CseI	GACGC	1 cut(s)	62
Csp6I	GTAC	1 cut(s)	840
CspI	CGGWCCG	1 cut(s)	288
CviQI	GTAC	1 cut(s)	840
DdeI	CTNAG	6 cut(s)	96, 1179, 1191, 1197, 1203, 1215
DinI	GGCGCC	1 cut(s)	478
DpnI	GATC	3 cut(s)	101, 255, 348
DpnII	GATC	3 cut(s)	99, 253, 346
DrdI	GACNNNNNNGTC	1 cut(s)	572
DseDI	GACNNNNNNGTC	1 cut(s)	572
Eam1104I	CTCTTC	3 cut(s)	54, 698, 1100
EarI	CTCTTC	3 cut(s)	54, 698, 1100
EciI	GGCGGA	4 cut(s)	130, 470, 569, 1199
Ecl136II	GAGCTC	3 cut(s)	76, 301, 588
Eco130I	CCWWGG	1 cut(s)	23
Eco24I	GRGCYC	6 cut(s)	49, 78, 219, 234, 303, 590
Eco31I	GGTCTC	1 cut(s)	580
Eco47I	GGWCC	2 cut(s)	288, 540
Eco53kI	GAGCTC	3 cut(s)	76, 301, 588
Eco91I	GGTNACC	1 cut(s)	1139
EcoICRI	GAGCTC	3 cut(s)	76, 301, 588
EcoO109I	RGGNCCY	2 cut(s)	46, 540
EcoO65I	GGTNACC	1 cut(s)	1139
EcoRII	CCWGG	1 cut(s)	956
EcoT14I	CCWWGG	1 cut(s)	23
EcoT38I	GRGCYC	6 cut(s)	49, 78, 219, 234, 303, 590
EgeI	GGCGCC	1 cut(s)	478
EheI	GGCGCC	1 cut(s)	478
ErhI	CCWWGG	1 cut(s)	23
Esp3I	CGTCTC	1 cut(s)	24
FaqI	GGGAC	1 cut(s)	526
FauI	CCCGC	5 cut(s)	232, 285, 317, 444, 490
FokI	GGATG	4 cut(s)	470, 569, 947, 1132
FriOI	GRGCYC	6 cut(s)	49, 78, 219, 234, 303, 590
GlaI	GCGC	4 cut(s)	40, 281, 478, 1133
GsaI	CCCAGC	2 cut(s)	574, 697
HaeII	RGCGCY	2 cut(s)	480, 1135
HapII	CCGG	7 cut(s)	36, 273, 313, 480, 624, 1149, 1268
HgaI	GACGC	1 cut(s)	62
HhaI	GCGC	4 cut(s)	41, 282, 479, 1134
Hin1I	GRCGYC	2 cut(s)	54, 477
Hin6I	GCGC	4 cut(s)	39, 280, 477, 1132
HinP1I	GCGC	4 cut(s)	39, 280, 477, 1132
HindIII	AAGCTT	1 cut(s)	1058
HinfI	GANTC	6 cut(s)	365, 560, 683, 788, 1049, 1094
HpaII	CCGG	7 cut(s)	36, 273, 313, 480, 624, 1149, 1268
HphI	GGTGA	2 cut(s)	906, 1151
Hpy188I	TCNGA	7 cut(s)	390, 565, 601, 688, 793, 1218, 1255
Hpy188III	TCNNGA	4 cut(s)	268, 331, 577, 1117
Hpy99I	CGWCG	4 cut(s)	56, 451, 470, 601
HpyCH4III	ACNGT	3 cut(s)	13, 359, 776
HpyCH4V	TGCA	2 cut(s)	662, 865
HpyF10VI	GCNNNNNNNGC	7 cut(s)	53, 149, 342, 461, 624, 862, 1082
HpyF3I	CTNAG	6 cut(s)	96, 1179, 1191, 1197, 1203, 1215
Hsp92I	GRCGYC	2 cut(s)	54, 477
HspAI	GCGC	4 cut(s)	39, 280, 477, 1132
KasI	GGCGCC	1 cut(s)	476
KflI	GGGWCCC	1 cut(s)	540
Kzo9I	GATC	3 cut(s)	99, 253, 346
LguI	GCTCTTC	1 cut(s)	54
LmnI	GCTCC	3 cut(s)	298, 626, 1242
Lsp1109I	GCAGC	7 cut(s)	121, 124, 877, 956, 1054, 1069, 1257
LweI	GCATC	1 cut(s)	671
MaeIII	GTNAC	2 cut(s)	883, 1139
MalI	GATC	3 cut(s)	101, 255, 348
MbiI	CCGCTC	1 cut(s)	286
MboI	GATC	3 cut(s)	99, 253, 346
MhlI	GDGCHC	7 cut(s)	49, 66, 78, 219, 234, 303, 590
MluCI	AATT	3 cut(s)	766, 859, 1249
Mly113I	GGCGCC	1 cut(s)	477
MlyI	GAGTC	2 cut(s)	1058, 1103
MmeI	TCCRAC	1 cut(s)	579
MseI	TTAA	1 cut(s)	1062
MspA1I	CMGCKG	1 cut(s)	570
MspCI	CTTAAG	1 cut(s)	1061
MspI	CCGG	7 cut(s)	36, 273, 313, 480, 624, 1149, 1268
MspR9I	CCNGG	4 cut(s)	36, 481, 958, 1150
MvaI	CCWGG	1 cut(s)	958
MvnI	CGCG	5 cut(s)	41, 152, 280, 282, 451
MwoI	GCNNNNNNNGC	7 cut(s)	53, 149, 342, 461, 624, 862, 1082
NarI	GGCGCC	1 cut(s)	477
NciI	CCSGG	3 cut(s)	36, 481, 1150
NdeII	GATC	3 cut(s)	99, 253, 346
NmeAIII	GCCGAG	8 cut(s)	97, 220, 253, 297, 319, 876, 894, 1014
NmuCI	GTSAC	1 cut(s)	1139
NspV	TTCGAA	3 cut(s)	374, 770, 965
PasI	CCCWGGG	1 cut(s)	957
PciSI	GCTCTTC	1 cut(s)	54
PcsI	WCGNNNNNNNCGW	1 cut(s)	355
PfeI	GAWTC	4 cut(s)	365, 560, 683, 788
Ple19I	CGATCG	1 cut(s)	349
PleI	GAGTC	2 cut(s)	1057, 1102
PluTI	GGCGCC	1 cut(s)	480
PpsI	GAGTC	2 cut(s)	1057, 1102
PpuMI	RGGWCCY	1 cut(s)	540
Psp124BI	GAGCTC	3 cut(s)	78, 303, 590
Psp5II	RGGWCCY	1 cut(s)	540
Psp6I	CCWGG	1 cut(s)	956
PspEI	GGTNACC	1 cut(s)	1139
PspFI	CCCAGC	2 cut(s)	570, 693
PspGI	CCWGG	1 cut(s)	956
PspOMI	GGGCCC	2 cut(s)	45, 215
PspPPI	RGGWCCY	1 cut(s)	540
PvuI	CGATCG	1 cut(s)	349
PvuII	CAGCTG	1 cut(s)	570
RsaI	GTAC	1 cut(s)	841
RsaNI	GTAC	1 cut(s)	840
Rsr2I	CGGWCCG	1 cut(s)	288
RsrII	CGGWCCG	1 cut(s)	288
SacI	GAGCTC	3 cut(s)	78, 303, 590
SapI	GCTCTTC	1 cut(s)	54
SaqAI	TTAA	1 cut(s)	1062
Sau3AI	GATC	3 cut(s)	99, 253, 346
ScaI	AGTACT	1 cut(s)	841
SchI	GAGTC	2 cut(s)	1058, 1103
ScrFI	CCNGG	4 cut(s)	36, 481, 958, 1150
SduI	GDGCHC	7 cut(s)	49, 66, 78, 219, 234, 303, 590
SfaNI	GCATC	1 cut(s)	671
SfoI	GGCGCC	1 cut(s)	478
SfuI	TTCGAA	3 cut(s)	374, 770, 965
SinI	GGWCC	2 cut(s)	288, 540
SmlI	CTYRAG	2 cut(s)	1046, 1061
SmoI	CTYRAG	2 cut(s)	1046, 1061
Sse9I	AATT	3 cut(s)	766, 859, 1249
SspDI	GGCGCC	1 cut(s)	476
SstI	GAGCTC	3 cut(s)	78, 303, 590
StyD4I	CCNGG	4 cut(s)	34, 479, 956, 1148
StyI	CCWWGG	1 cut(s)	23
TaaI	ACNGT	3 cut(s)	13, 359, 776
TasI	AATT	3 cut(s)	766, 859, 1249
TatI	WGTACW	1 cut(s)	839
TfiI	GAWTC	4 cut(s)	365, 560, 683, 788
Tru1I	TTAA	1 cut(s)	1062
Tru9I	TTAA	1 cut(s)	1062
TscAI	CASTG	1 cut(s)	18
TseFI	GTSAC	1 cut(s)	1139
TseI	GCWGC	7 cut(s)	109, 112, 865, 944, 1042, 1082, 1245
Tsp45I	GTSAC	1 cut(s)	1139
TspDTI	ATGAA	2 cut(s)	573, 921
TspGWI	ACGGA	1 cut(s)	322
TspRI	CASTG	1 cut(s)	18
Vha464I	CTTAAG	1 cut(s)	1061
VpaK11BI	GGWCC	2 cut(s)	288, 540
ZrmI	AGTACT	1 cut(s)	841

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