Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6D

Orthogroup ID

OG0005472

Physical Location & Seq

Genomic Coordinates Reverse (-)

40560269 .. 40567198

Gene Structure 6930 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6DG226500.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1371 bp

ATGGCATTTTGGTGCAGCAGACTCACCCAATCTAAGCTCAGGCAATTAGCCCATCACTCCAAGACCATTCCTTATGCTTCTTCTCTGCTTAACCCCACTGCTTCCAAGCCATGCGTTTCAGACAACCCATTGATCTCTCACCCTGATTTTATTTTTGCCAGTAAAGTTAGGTTCTTTGCTGCCCCAGTTCAGGCAAATGCAAATGCAAAGAAGACAGAGCAGGGCACGAGTGGTCCGCGGTTGAATGAGCATATCAGAGCCAATGTTGTTAGGCTTGTTATGGGCGAAGAACATTTTATCATCTCAAAGAGTGAAGCTCTGGAACGTGCCAGGAATCTTGAGCTTGATTTAGTCGAGGTTCAGGGCACAGCTAATCCTCCTGTTTGTAAAATCATGGATTACCATAAAGAGAAGTATAAAAAAGAAACAAGGGAGAAAGAGCAGATTAAAATCAAGTCTAAGGAAGTTAAGACTTTGCGTGCAGATACTAAGGAAGTCAAGTTTTCTCCAAAGACTGAGGCAAAGGATCTCAAGATGAAAGCAGACATGGTGAAGAGATTTATGGACAAGGGTTACCGGGTGAAGTGTACTGCCTCGGATTCTGAGGGTCGGGACTTGGGAGCAGTTTTCTCTCGTCTCATTGCGCTGATAGAAGACACAGCGTATATTGAATGTGAACCTACGGTAGGAAGAGGAAAAGAGTCATTCATAATGGTCAGGCATGTGAAGTTTGGCCCACCAAAGAGTGGTGGGAAAAAAACAAAGGCTGAAAACAAAAAAAGCCCTGAGAAGGGTAGTGGTGATGGTATTGGGGTTACTACCAGAGCAGACACAGTTCCACTTCCTCCACAAGAATCTTCTGGTGTGGCTGAAAATAGGTACAGAAATACTGAGGTTTCACCAACAAGAGAAATGGATAGTAAGAGAGAAACTCCCAATAACAGAGAAATCCCAATTTCACATTTCTCACCATCAATGAGAGAGCAGCATATTCCATATCAAAGGAGAGAAGCACCTACAAACGTGCACTTCTCATCGCCAACAAGAGAAACCAACAGAGCTGCTCCATCGGCATTTAGAAACTCTGCTCAGCTTCCTAACAGTATTCCCAAGCAAGAACCATCTAATCCTAATCCTCCCCGTTCTGCAGGACTCAAGCAAGAACCATCTAGTCCTAATCCTCCTCGTTCTCGTCCTCCAGGACTTGGTTATGGGATATTTAGCACCCCAACTGGTAATGGTTCCGCAAAACAAGGTGTGTCGGAAAGGTTTCCGGCAAATCCAAACTCACCAAGTTCAAGGCCTTATAGTAGCCAAAGACCAGGAACAGACATTGGTAAGGATGGACGGGGGTTGGGGAATCTTTGGTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003676 GO:0003723 GO:0003743 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005739 GO:0005829 GO:0006412 GO:0006413 GO:0006518 GO:0006807 GO:0006996 GO:0008135 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009507 GO:0009536 GO:0009987 GO:0010467 GO:0016020 GO:0016043 GO:0019538 GO:0022411 GO:0032790 GO:0032984 GO:0032988 GO:0034641 GO:0034645 GO:0043021 GO:0043022 GO:0043043 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043603 GO:0043604 GO:0043933 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044267 GO:0044271 GO:0044424 GO:0044444 GO:0044464 GO:0044877 GO:0071704 GO:0071826 GO:0071840 GO:0097159 GO:1901363 GO:1901564 GO:1901566 GO:1901576 GO:1903008

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

IF3_C IF3_N

Protein Analysis

456

Amino Acids

50.52

Weight (kDa)

9.82

Isoelectric Point (pI)

47.36

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
IF3_N	PF05198	82 - 148	1.2e-22	Translation initiation factor IF-3, N-terminal domain
IF3_C	PF00707	162 - 233	4.1e-08	Translation initiation factor IF-3, C-terminal 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: OG0005472)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G34360 AT1G34360 AT1G34360
fragaria_vesca	FvH4_2g15550 FvH4_2g15550 FvH4_2g15550 FvH4_2g15550 FvH4_2g15550 FvH4_2g15550
malus_domestica	MD05G1123900.v1.1 MD10G1126600.v1.1 MD10G1126800.v1.1
prunus_persica	Prupe.8G167900_v2.0.a1 Prupe.8G167900_v2.0.a1 Prupe.8G167900_v2.0.a1 Prupe.8G167900_v2.0.a1 Prupe.8G167900_v2.0.a1
pyrus_communis	pycom05g11810
rosa_chinensis	RchiOBHm_Chr6g0278721
rosa_laevigata	RLG00000013198
rosa_multiflora	Rmu_sc0000531.1_g000010
rosa_roxburghii	Rroxscaffold_7G00189680 Rroxscaffold_7G00189940
rosa_rugosa	Rorug06G0118400
rosa_samantha	Rh6AG227300 Rh6BG232800 Rh6CG234900 Rh6DG226500
rosa_wichuraiana	Rw6G019940

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB7I	CCANNNNNTGG	2 cut(s)	746, 1205
AccII	CGCG	1 cut(s)	238
AciI	CCGC	3 cut(s)	236, 238, 1245
AclWI	GGATC	1 cut(s)	534
AfaI	GTAC	2 cut(s)	589, 881
AfiI	CCNNNNNNNGG	6 cut(s)	190, 686, 746, 790, 791, 1205
AgsI	TTSAA	3 cut(s)	244, 671, 1299
AjnI	CCWGG	3 cut(s)	329, 1198, 1321
AluBI	AGCT	6 cut(s)	37, 317, 343, 371, 1061, 1093
AluI	AGCT	6 cut(s)	37, 317, 343, 371, 1061, 1093
Alw21I	GWGCWC	1 cut(s)	1029
Alw26I	GTCTC	1 cut(s)	641
Alw44I	GTGCAC	1 cut(s)	1025
AlwI	GGATC	1 cut(s)	534
AoxI	GGCC	2 cut(s)	733, 1301
ApaLI	GTGCAC	1 cut(s)	1025
ApeKI	GCWGC	4 cut(s)	15, 179, 985, 1061
Asp700I	GAANNNNTTC	1 cut(s)	1269
AspLEI	GCGC	1 cut(s)	646
AspS9I	GGNCC	2 cut(s)	233, 734
AsuC2I	CCSGG	1 cut(s)	578
AsuHPI	GGTGA	8 cut(s)	16, 131, 562, 592, 812, 891, 960, 1281
AvaII	GGWCC	1 cut(s)	233
BaeGI	GKGCMC	3 cut(s)	227, 368, 1029
BauI	CACGAG	1 cut(s)	226
BbsI	GAAGAC	2 cut(s)	218, 660
Bbv12I	GWGCWC	1 cut(s)	1029
BbvI	GCAGC	4 cut(s)	27, 166, 997, 1048
BccI	CCATC	7 cut(s)	60, 797, 979, 1075, 1129, 1174, 1337
BciT130I	CCWGG	3 cut(s)	331, 1200, 1323
BcnI	CCSGG	1 cut(s)	578
BcoDI	GTCTC	1 cut(s)	641
BfaI	CTAG	1 cut(s)	1170
BfmI	CTRYAG	1 cut(s)	1146
BisI	GCNGC	4 cut(s)	16, 180, 986, 1062
BlpI	GCTNAGC	1 cut(s)	1089
BlsI	GCNGC	4 cut(s)	17, 181, 987, 1063
Bme1390I	CCNGG	4 cut(s)	331, 578, 1200, 1323
Bme18I	GGWCC	1 cut(s)	233
BmgT120I	GGNCC	2 cut(s)	233, 734
BmiI	GGNNCC	1 cut(s)	1243
BmrFI	CCNGG	4 cut(s)	331, 578, 1200, 1323
BmrI	ACTGGG	1 cut(s)	179
BmuI	ACTGGG	1 cut(s)	179
BpiI	GAAGAC	2 cut(s)	218, 660
BplI	GAGNNNNNCTC	4 cut(s)	301, 333, 916, 948
BpmI	CTGGAG	1 cut(s)	1182
Bpu10I	CCTNAGC	1 cut(s)	38
Bpu1102I	GCTNAGC	1 cut(s)	1089
BpuEI	CTTGAG	3 cut(s)	359, 515, 1139
BpuMI	CCSGG	1 cut(s)	578
BsaBI	GATNNNNATC	1 cut(s)	449
BsaJI	CCNNGG	2 cut(s)	236, 594
Bsc4I	CCNNNNNNNGG	6 cut(s)	190, 686, 746, 790, 791, 1205
Bse1I	ACTGG	3 cut(s)	159, 185, 1237
Bse3DI	GCAATG	1 cut(s)	639
Bse8I	GATNNNNATC	1 cut(s)	449
BseBI	CCWGG	3 cut(s)	331, 1200, 1323
BseDI	CCNNGG	2 cut(s)	236, 594
BseGI	GGATG	1 cut(s)	1348
BseJI	GATNNNNATC	1 cut(s)	449
BseLI	CCNNNNNNNGG	6 cut(s)	190, 686, 746, 790, 791, 1205
BseMI	GCAATG	1 cut(s)	639
BseMII	CTCAG	6 cut(s)	52, 507, 594, 777, 882, 1103
BseNI	ACTGG	3 cut(s)	159, 185, 1237
BseRI	GAGGAG	1 cut(s)	1173
BseSI	GKGCMC	3 cut(s)	227, 368, 1029
BseXI	GCAGC	4 cut(s)	27, 166, 997, 1048
BsgI	GTGCAG	2 cut(s)	34, 501
Bsh1236I	CGCG	1 cut(s)	238
BshFI	GGCC	2 cut(s)	735, 1303
BsiHKAI	GWGCWC	1 cut(s)	1029
BsiSI	CCGG	2 cut(s)	577, 1274
BslFI	GGGAC	1 cut(s)	626
BslI	CCNNNNNNNGG	6 cut(s)	190, 686, 746, 790, 791, 1205
BsmAI	GTCTC	1 cut(s)	641
BsmBI	CGTCTC	1 cut(s)	641
BsmFI	GGGAC	1 cut(s)	626
BsnI	GGCC	2 cut(s)	735, 1303
Bsp1286I	GDGCHC	3 cut(s)	227, 368, 1029
Bsp143I	GATC	2 cut(s)	132, 526
Bsp1720I	GCTNAGC	1 cut(s)	1089
BspACI	CCGC	3 cut(s)	236, 238, 1245
BspANI	GGCC	2 cut(s)	735, 1303
BspCNI	CTCAG	6 cut(s)	51, 508, 595, 778, 883, 1102
BspFNI	CGCG	1 cut(s)	238
BspLI	GGNNCC	1 cut(s)	1243
BspMAI	CTGCAG	1 cut(s)	1150
BspPI	GGATC	1 cut(s)	534
BsrDI	GCAATG	1 cut(s)	639
BsrI	ACTGG	3 cut(s)	159, 185, 1237
BssECI	CCNNGG	2 cut(s)	236, 594
BssMI	GATC	2 cut(s)	132, 526
BssSI	CACGAG	1 cut(s)	226
Bst2BI	CACGAG	1 cut(s)	226
Bst2UI	CCWGG	3 cut(s)	331, 1200, 1323
Bst4CI	ACNGT	3 cut(s)	685, 835, 1103
Bst6I	CTCTTC	2 cut(s)	548, 685
BstC8I	GCNNGC	1 cut(s)	480
BstDEI	CTNAG	9 cut(s)	33, 38, 459, 489, 516, 603, 786, 891, 1089
BstDSI	CCRYGG	1 cut(s)	236
BstEII	GGTNACC	1 cut(s)	572
BstENI	CCTNNNNNAGG	1 cut(s)	684
BstF5I	GGATG	1 cut(s)	1348
BstFNI	CGCG	1 cut(s)	238
BstHHI	GCGC	1 cut(s)	646
BstKTI	GATC	2 cut(s)	135, 529
BstMAI	GTCTC	1 cut(s)	641
BstMBI	GATC	2 cut(s)	132, 526
BstMWI	GCNNNNNNNGC	1 cut(s)	1070
BstNI	CCWGG	3 cut(s)	331, 1200, 1323
BstNSI	RCATGY	1 cut(s)	725
BstPI	GGTNACC	1 cut(s)	572
BstSCI	CCNGG	4 cut(s)	329, 576, 1198, 1321
BstSFI	CTRYAG	1 cut(s)	1146
BstSLI	GKGCMC	3 cut(s)	227, 368, 1029
BstUI	CGCG	1 cut(s)	238
BstV1I	GCAGC	4 cut(s)	27, 166, 997, 1048
BstV2I	GAAGAC	2 cut(s)	218, 660
BstX2I	RGATCY	1 cut(s)	526
BstYI	RGATCY	1 cut(s)	526
BsuRI	GGCC	2 cut(s)	735, 1303
BtgI	CCRYGG	1 cut(s)	236
BtgZI	GCGATG	1 cut(s)	1020
BtsCI	GGATG	1 cut(s)	1348
BtsI	GCAGTG	1 cut(s)	96
BtsIMutI	CAGTG	1 cut(s)	96
Cac8I	GCNNGC	1 cut(s)	480
CfoI	GCGC	1 cut(s)	646
Cfr13I	GGNCC	2 cut(s)	233, 734
Cfr42I	CCGCGG	1 cut(s)	239
Csp6I	GTAC	2 cut(s)	588, 880
CviAII	CATG	4 cut(s)	111, 394, 547, 722
CviQI	GTAC	2 cut(s)	588, 880
DdeI	CTNAG	9 cut(s)	33, 38, 459, 489, 516, 603, 786, 891, 1089
DpnI	GATC	2 cut(s)	134, 528
DpnII	GATC	2 cut(s)	132, 526
Eam1104I	CTCTTC	2 cut(s)	548, 685
EarI	CTCTTC	2 cut(s)	548, 685
Eco147I	AGGCCT	1 cut(s)	1303
Eco47I	GGWCC	1 cut(s)	233
Eco91I	GGTNACC	1 cut(s)	572
EcoNI	CCTNNNNNAGG	1 cut(s)	684
EcoO65I	GGTNACC	1 cut(s)	572
EcoRII	CCWGG	3 cut(s)	329, 1198, 1321
Esp3I	CGTCTC	1 cut(s)	641
FaeI	CATG	4 cut(s)	114, 397, 550, 725
FaqI	GGGAC	1 cut(s)	626
FatI	CATG	4 cut(s)	110, 393, 546, 721
Fnu4HI	GCNGC	4 cut(s)	16, 180, 986, 1062
FokI	GGATG	1 cut(s)	1355
Fsp4HI	GCNGC	4 cut(s)	16, 180, 986, 1062
FspBI	CTAG	1 cut(s)	1170
GlaI	GCGC	1 cut(s)	645
GluI	GCNGC	4 cut(s)	16, 180, 986, 1062
GsuI	CTGGAG	1 cut(s)	1182
HaeIII	GGCC	2 cut(s)	735, 1303
HapII	CCGG	2 cut(s)	577, 1274
HhaI	GCGC	1 cut(s)	646
Hin1II	CATG	4 cut(s)	114, 397, 550, 725
Hin6I	GCGC	1 cut(s)	644
HinP1I	GCGC	1 cut(s)	644
HinfI	GANTC	7 cut(s)	21, 334, 599, 701, 854, 1152, 1360
HpaII	CCGG	2 cut(s)	577, 1274
HphI	GGTGA	8 cut(s)	16, 131, 562, 592, 812, 891, 960, 1281
Hpy166II	GTNNAC	3 cut(s)	588, 677, 1027
Hpy188I	TCNGA	5 cut(s)	121, 257, 598, 604, 1264
Hpy188III	TCNNGA	4 cut(s)	320, 338, 532, 611
Hpy8I	GTNNAC	3 cut(s)	588, 677, 1027
HpyAV	CCTTC	1 cut(s)	784
HpyCH4III	ACNGT	3 cut(s)	685, 835, 1103
HpyCH4IV	ACGT	2 cut(s)	325, 1023
HpyCH4V	TGCA	6 cut(s)	15, 200, 206, 482, 1027, 1148
HpyF10VI	GCNNNNNNNGC	1 cut(s)	1070
HpyF3I	CTNAG	9 cut(s)	33, 38, 459, 489, 516, 603, 786, 891, 1089
HpySE526I	ACGT	2 cut(s)	325, 1023
Hsp92II	CATG	4 cut(s)	114, 397, 550, 725
HspAI	GCGC	1 cut(s)	644
KspI	CCGCGG	1 cut(s)	239
Kzo9I	GATC	2 cut(s)	132, 526
LmnI	GCTCC	2 cut(s)	620, 1069
Lsp1109I	GCAGC	4 cut(s)	27, 166, 997, 1048
MaeI	CTAG	1 cut(s)	1170
MaeII	ACGT	2 cut(s)	325, 1023
MaeIII	GTNAC	2 cut(s)	572, 814
MalI	GATC	2 cut(s)	134, 528
MboI	GATC	2 cut(s)	132, 526
MboII	GAAGA	7 cut(s)	72, 223, 299, 565, 665, 702, 849
MflI	RGATCY	1 cut(s)	526
MhlI	GDGCHC	3 cut(s)	227, 368, 1029
MluCI	AATT	2 cut(s)	44, 954
MlyI	GAGTC	3 cut(s)	15, 710, 1146
MmeI	TCCRAC	1 cut(s)	1242
MroXI	GAANNNNTTC	1 cut(s)	1269
MseI	TTAA	3 cut(s)	90, 447, 468
MslI	CAYNNNNRTG	1 cut(s)	10
MspA1I	CMGCKG	1 cut(s)	238
MspI	CCGG	2 cut(s)	577, 1274
MspR9I	CCNGG	4 cut(s)	331, 578, 1200, 1323
MvaI	CCWGG	3 cut(s)	331, 1200, 1323
MvnI	CGCG	1 cut(s)	238
MwoI	GCNNNNNNNGC	1 cut(s)	1070
NciI	CCSGG	1 cut(s)	578
NdeII	GATC	2 cut(s)	132, 526
NlaIII	CATG	4 cut(s)	114, 397, 550, 725
NlaIV	GGNNCC	1 cut(s)	1243
NspI	RCATGY	1 cut(s)	725
PceI	AGGCCT	1 cut(s)	1303
PdmI	GAANNNNTTC	1 cut(s)	1269
PfeI	GAWTC	4 cut(s)	334, 599, 854, 1360
PflMI	CCANNNNNTGG	2 cut(s)	746, 1205
PfoI	TCCNGGA	1 cut(s)	1198
PkrI	GCNGC	4 cut(s)	17, 181, 987, 1063
PleI	GAGTC	3 cut(s)	15, 709, 1146
PpsI	GAGTC	3 cut(s)	15, 709, 1146
Psp6I	CCWGG	3 cut(s)	329, 1198, 1321
PspEI	GGTNACC	1 cut(s)	572
PspGI	CCWGG	3 cut(s)	329, 1198, 1321
PspN4I	GGNNCC	1 cut(s)	1243
PspPI	GGNCC	2 cut(s)	233, 734
PstI	CTGCAG	1 cut(s)	1150
PsuI	RGATCY	1 cut(s)	526
RsaI	GTAC	2 cut(s)	589, 881
RsaNI	GTAC	2 cut(s)	588, 880
RseI	CAYNNNNRTG	1 cut(s)	10
SacII	CCGCGG	1 cut(s)	239
SaqAI	TTAA	3 cut(s)	90, 447, 468
SatI	GCNGC	4 cut(s)	16, 180, 986, 1062
Sau3AI	GATC	2 cut(s)	132, 526
Sau96I	GGNCC	2 cut(s)	233, 734
SchI	GAGTC	3 cut(s)	15, 710, 1146
ScrFI	CCNGG	4 cut(s)	331, 578, 1200, 1323
SduI	GDGCHC	3 cut(s)	227, 368, 1029
SfcI	CTRYAG	1 cut(s)	1146
Sfr303I	CCGCGG	1 cut(s)	239
SgrBI	CCGCGG	1 cut(s)	239
SinI	GGWCC	1 cut(s)	233
SmiMI	CAYNNNNRTG	1 cut(s)	10
SmlI	CTYRAG	3 cut(s)	338, 530, 1154
SmoI	CTYRAG	3 cut(s)	338, 530, 1154
Sse9I	AATT	2 cut(s)	44, 954
SseBI	AGGCCT	1 cut(s)	1303
SsiI	CCGC	3 cut(s)	236, 238, 1245
SspMI	CTAG	1 cut(s)	1170
StuI	AGGCCT	1 cut(s)	1303
StyD4I	CCNGG	4 cut(s)	329, 576, 1198, 1321
TaaI	ACNGT	3 cut(s)	685, 835, 1103
TaiI	ACGT	2 cut(s)	328, 1026
TaqI	TCGA	1 cut(s)	354
TasI	AATT	2 cut(s)	44, 954
TatI	WGTACW	1 cut(s)	587
TfiI	GAWTC	4 cut(s)	334, 599, 854, 1360
Tru1I	TTAA	3 cut(s)	90, 447, 468
Tru9I	TTAA	3 cut(s)	90, 447, 468
TscAI	CASTG	1 cut(s)	103
TseI	GCWGC	4 cut(s)	15, 179, 985, 1061
TspDTI	ATGAA	2 cut(s)	551, 697
TspRI	CASTG	1 cut(s)	103
Van91I	CCANNNNNTGG	2 cut(s)	746, 1205
VneI	GTGCAC	1 cut(s)	1025
VpaK11BI	GGWCC	1 cut(s)	233
XagI	CCTNNNNNAGG	1 cut(s)	684
XceI	RCATGY	1 cut(s)	725
XmnI	GAANNNNTTC	1 cut(s)	1269
XspI	CTAG	1 cut(s)	1170

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