Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6C

Orthogroup ID

OG0005472

Physical Location & Seq

Genomic Coordinates Reverse (-)

39896284 .. 39902187

Gene Structure 5904 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6CG234900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1356 bp

ATGGCATTTTGGTGCAGCAGACTCACCCAATCTAAGCTCAGGCAATTAGTCCATCACTCTAAGACCATTCCTTATGCTTCTTCTCTGCTTAACCCCACTGCTTCCAAGCCATGCGTTTCAGACAACCCATTGATCTCTCACCCTGATTTTATTTTTTCCAGTAAAGTTAGGTTCTTTTCTGCCCCAGTTCAGGCAAATGCAAATGCAAGGAAGACAGAGCAGGCCACGAGTGGTCCGCGGTTGAATGAGCATATCAGAGCCAATGTTGTTAGGCTTGTTATGGGCGAAGAACATTTTATCATCTCAAAGAGTGAAGCTCTGGAACGTGCCAGGAATCTTGAGCTTGATTTAGTCGAGGTTCAGGGCACAGCTAATCCTCCTGTTTGTAAAATCATGGATTACCATAAAGAGAAGTATAAAAAAGAAACAAGGGAGAAAGAGCAGATTAAAATCAAGTCTAAGGAAGTTAAGACTTTGCGTGCAGATACTAAGGAAGTCAAGTTTTCTCCAAAGACTGAGGCAAAGGATCTCAAGATGAAAGCAGACATGGTAAAGAGATTTATGGACAAGGGTTACCGAGTGAAGTGTACTGCCTCGGATTCTGAGGGTCGGGACTTGGGAGCAGTTTTCTCTCGTCTCATTGCACTGATAGAAGACACAGCGTATATCGAATGTGAACCTACGGTAGGAAGAGGAAAAGAGTCATTCATAATGGTCAGGCATGTGAAGTTTGGCCCACCAAAGAGTGGTGGGAAAAAAACAAAGGCTGAAAACAAAAAAAGCCCTGAGAAGGGTAGTGGTGATGGTATTGGGGTTACTATCAGAGCAGACACAGTTCCACTTCCTCCACAAGAATCTTCTGGTGTGGCTGAAAATAGGTACAGAAATACTGAGGTTTCACCAACAAGAGAAATGGATAGTAAGAGAGAAACTCCCAATAATAGAGAAATCTCACCATCAATGAGAGAGCAGCATATTCCATATCAAAGGAGAGAAGCGCCTACAAACGTGCACTTCTCATCGCCAACAAGAGAAACCAACAGAGCTGCTCCATCGGCATTTAGAAACTCTGCTCAGCTTCCTAACAGTATTCCCAAGCAAGAACCATCTAATCCTAATCCTCCCCGTTCTGCAGGACTCAAGCAAGAACCATCTAGTCCTAATCCTCCTCGTTCTCGTCCTCCAGGACTTGGTTATGGGATATTTAGCACCCCTAATGGTAATGGTTCCGCAAAACAAGGTGTGTCGGAAAGGTTTCCGGCAAATCCAAACTCACCAAGTTCAAGACCTTATAGTAGCCAAAGACCAGGAACAGACATTGGTAAGGATGGACGGGGGATGGGGAATCTTTGGTAG

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

451

Amino Acids

50.09

Weight (kDa)

9.83

Isoelectric Point (pI)

48.72

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, 1190
AccII	CGCG	1 cut(s)	238
AciI	CCGC	3 cut(s)	236, 238, 1230
AclWI	GGATC	1 cut(s)	534
AfaI	GTAC	2 cut(s)	589, 881
AfiI	CCNNNNNNNGG	6 cut(s)	190, 686, 746, 790, 791, 1190
AgsI	TTSAA	2 cut(s)	244, 1284
AjnI	CCWGG	3 cut(s)	329, 1183, 1306
AluBI	AGCT	6 cut(s)	37, 317, 343, 371, 1046, 1078
AluI	AGCT	6 cut(s)	37, 317, 343, 371, 1046, 1078
Alw21I	GWGCWC	1 cut(s)	1014
Alw26I	GTCTC	1 cut(s)	641
Alw44I	GTGCAC	1 cut(s)	1010
AlwI	GGATC	1 cut(s)	534
AoxI	GGCC	2 cut(s)	222, 733
ApaLI	GTGCAC	1 cut(s)	1010
ApeKI	GCWGC	3 cut(s)	15, 970, 1046
Asp700I	GAANNNNTTC	1 cut(s)	1254
AspLEI	GCGC	1 cut(s)	1000
AspS9I	GGNCC	2 cut(s)	233, 734
AsuHPI	GGTGA	6 cut(s)	16, 131, 812, 891, 945, 1266
AvaII	GGWCC	1 cut(s)	233
BaeGI	GKGCMC	2 cut(s)	368, 1014
BauI	CACGAG	1 cut(s)	226
BbsI	GAAGAC	2 cut(s)	218, 660
Bbv12I	GWGCWC	1 cut(s)	1014
BbvI	GCAGC	3 cut(s)	27, 982, 1033
BccI	CCATC	8 cut(s)	60, 797, 964, 1060, 1114, 1159, 1322, 1333
BciT130I	CCWGG	3 cut(s)	331, 1185, 1308
BcoDI	GTCTC	1 cut(s)	641
BfaI	CTAG	1 cut(s)	1155
BfmI	CTRYAG	1 cut(s)	1131
BfoI	RGCGCY	1 cut(s)	1001
BisI	GCNGC	3 cut(s)	16, 971, 1047
BlpI	GCTNAGC	1 cut(s)	1074
BlsI	GCNGC	3 cut(s)	17, 972, 1048
Bme1390I	CCNGG	3 cut(s)	331, 1185, 1308
Bme18I	GGWCC	1 cut(s)	233
BmgT120I	GGNCC	2 cut(s)	233, 734
BmiI	GGNNCC	1 cut(s)	1228
BmrFI	CCNGG	3 cut(s)	331, 1185, 1308
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)	1167
Bpu10I	CCTNAGC	1 cut(s)	38
Bpu1102I	GCTNAGC	1 cut(s)	1074
BpuEI	CTTGAG	3 cut(s)	359, 515, 1124
BsaBI	GATNNNNATC	1 cut(s)	449
BsaJI	CCNNGG	2 cut(s)	236, 594
Bsc4I	CCNNNNNNNGG	6 cut(s)	190, 686, 746, 790, 791, 1190
Bse1I	ACTGG	2 cut(s)	159, 185
Bse3DI	GCAATG	1 cut(s)	639
Bse8I	GATNNNNATC	1 cut(s)	449
BseBI	CCWGG	3 cut(s)	331, 1185, 1308
BseDI	CCNNGG	2 cut(s)	236, 594
BseGI	GGATG	2 cut(s)	1333, 1344
BseJI	GATNNNNATC	1 cut(s)	449
BseLI	CCNNNNNNNGG	6 cut(s)	190, 686, 746, 790, 791, 1190
BseMI	GCAATG	1 cut(s)	639
BseMII	CTCAG	6 cut(s)	52, 507, 594, 777, 882, 1088
BseNI	ACTGG	2 cut(s)	159, 185
BseRI	GAGGAG	1 cut(s)	1158
BseSI	GKGCMC	2 cut(s)	368, 1014
BseXI	GCAGC	3 cut(s)	27, 982, 1033
BsgI	GTGCAG	2 cut(s)	34, 501
Bsh1236I	CGCG	1 cut(s)	238
BshFI	GGCC	2 cut(s)	224, 735
BsiHKAI	GWGCWC	1 cut(s)	1014
BsiSI	CCGG	1 cut(s)	1259
BslFI	GGGAC	1 cut(s)	626
BslI	CCNNNNNNNGG	6 cut(s)	190, 686, 746, 790, 791, 1190
BsmAI	GTCTC	1 cut(s)	641
BsmBI	CGTCTC	1 cut(s)	641
BsmFI	GGGAC	1 cut(s)	626
BsnI	GGCC	2 cut(s)	224, 735
Bsp1286I	GDGCHC	2 cut(s)	368, 1014
Bsp143I	GATC	2 cut(s)	132, 526
Bsp1720I	GCTNAGC	1 cut(s)	1074
BspACI	CCGC	3 cut(s)	236, 238, 1230
BspANI	GGCC	2 cut(s)	224, 735
BspCNI	CTCAG	6 cut(s)	51, 508, 595, 778, 883, 1087
BspFNI	CGCG	1 cut(s)	238
BspLI	GGNNCC	1 cut(s)	1228
BspMAI	CTGCAG	1 cut(s)	1135
BspPI	GGATC	1 cut(s)	534
BsrDI	GCAATG	1 cut(s)	639
BsrI	ACTGG	2 cut(s)	159, 185
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, 1185, 1308
Bst4CI	ACNGT	3 cut(s)	685, 835, 1088
Bst6I	CTCTTC	1 cut(s)	685
BstC8I	GCNNGC	2 cut(s)	222, 480
BstDSI	CCRYGG	1 cut(s)	236
BstEII	GGTNACC	1 cut(s)	572
BstENI	CCTNNNNNAGG	1 cut(s)	684
BstF5I	GGATG	2 cut(s)	1333, 1344
BstFNI	CGCG	1 cut(s)	238
BstH2I	RGCGCY	1 cut(s)	1001
BstHHI	GCGC	1 cut(s)	1000
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)	1055
BstNI	CCWGG	3 cut(s)	331, 1185, 1308
BstNSI	RCATGY	1 cut(s)	725
BstPI	GGTNACC	1 cut(s)	572
BstSCI	CCNGG	3 cut(s)	329, 1183, 1306
BstSFI	CTRYAG	1 cut(s)	1131
BstSLI	GKGCMC	2 cut(s)	368, 1014
BstUI	CGCG	1 cut(s)	238
BstV1I	GCAGC	3 cut(s)	27, 982, 1033
BstV2I	GAAGAC	2 cut(s)	218, 660
BstX2I	RGATCY	1 cut(s)	526
BstYI	RGATCY	1 cut(s)	526
BsuRI	GGCC	2 cut(s)	224, 735
BtgI	CCRYGG	1 cut(s)	236
BtgZI	GCGATG	1 cut(s)	1005
BtsCI	GGATG	2 cut(s)	1333, 1344
BtsI	GCAGTG	1 cut(s)	96
BtsIMutI	CAGTG	2 cut(s)	96, 644
Cac8I	GCNNGC	2 cut(s)	222, 480
CfoI	GCGC	1 cut(s)	1000
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
DpnI	GATC	2 cut(s)	134, 528
DpnII	GATC	2 cut(s)	132, 526
Eam1104I	CTCTTC	1 cut(s)	685
EarI	CTCTTC	1 cut(s)	685
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, 1183, 1306
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	3 cut(s)	16, 971, 1047
FokI	GGATG	2 cut(s)	1340, 1351
Fsp4HI	GCNGC	3 cut(s)	16, 971, 1047
FspBI	CTAG	1 cut(s)	1155
GlaI	GCGC	1 cut(s)	999
GluI	GCNGC	3 cut(s)	16, 971, 1047
GsuI	CTGGAG	1 cut(s)	1167
HaeII	RGCGCY	1 cut(s)	1001
HaeIII	GGCC	2 cut(s)	224, 735
HapII	CCGG	1 cut(s)	1259
HhaI	GCGC	1 cut(s)	1000
Hin1II	CATG	4 cut(s)	114, 397, 550, 725
Hin6I	GCGC	1 cut(s)	998
HinP1I	GCGC	1 cut(s)	998
HinfI	GANTC	7 cut(s)	21, 334, 599, 701, 854, 1137, 1345
HpaII	CCGG	1 cut(s)	1259
HphI	GGTGA	6 cut(s)	16, 131, 812, 891, 945, 1266
Hpy166II	GTNNAC	3 cut(s)	588, 677, 1012
Hpy188I	TCNGA	6 cut(s)	121, 257, 598, 604, 824, 1249
Hpy188III	TCNNGA	5 cut(s)	320, 338, 532, 611, 1284
Hpy8I	GTNNAC	3 cut(s)	588, 677, 1012
HpyAV	CCTTC	1 cut(s)	784
HpyCH4III	ACNGT	3 cut(s)	685, 835, 1088
HpyCH4IV	ACGT	2 cut(s)	325, 1008
HpyCH4V	TGCA	7 cut(s)	15, 200, 206, 482, 644, 1012, 1133
HpyF10VI	GCNNNNNNNGC	1 cut(s)	1055
HpySE526I	ACGT	2 cut(s)	325, 1008
Hsp92II	CATG	4 cut(s)	114, 397, 550, 725
HspAI	GCGC	1 cut(s)	998
KspI	CCGCGG	1 cut(s)	239
Kzo9I	GATC	2 cut(s)	132, 526
LmnI	GCTCC	2 cut(s)	620, 1054
Lsp1109I	GCAGC	3 cut(s)	27, 982, 1033
MaeI	CTAG	1 cut(s)	1155
MaeII	ACGT	2 cut(s)	325, 1008
MaeIII	GTNAC	2 cut(s)	572, 814
MalI	GATC	2 cut(s)	134, 528
MboI	GATC	2 cut(s)	132, 526
MboII	GAAGA	6 cut(s)	72, 223, 299, 665, 702, 849
MflI	RGATCY	1 cut(s)	526
MhlI	GDGCHC	2 cut(s)	368, 1014
MluCI	AATT	1 cut(s)	44
MlyI	GAGTC	3 cut(s)	15, 710, 1131
MmeI	TCCRAC	1 cut(s)	1227
MroXI	GAANNNNTTC	1 cut(s)	1254
MseI	TTAA	3 cut(s)	90, 447, 468
MslI	CAYNNNNRTG	1 cut(s)	10
MspA1I	CMGCKG	1 cut(s)	238
MspI	CCGG	1 cut(s)	1259
MspR9I	CCNGG	3 cut(s)	331, 1185, 1308
MvaI	CCWGG	3 cut(s)	331, 1185, 1308
MvnI	CGCG	1 cut(s)	238
MwoI	GCNNNNNNNGC	1 cut(s)	1055
NdeII	GATC	2 cut(s)	132, 526
NlaIII	CATG	4 cut(s)	114, 397, 550, 725
NlaIV	GGNNCC	1 cut(s)	1228
NspI	RCATGY	1 cut(s)	725
PdmI	GAANNNNTTC	1 cut(s)	1254
PfeI	GAWTC	4 cut(s)	334, 599, 854, 1345
PflMI	CCANNNNNTGG	2 cut(s)	746, 1190
PfoI	TCCNGGA	1 cut(s)	1183
PkrI	GCNGC	3 cut(s)	17, 972, 1048
PleI	GAGTC	3 cut(s)	15, 709, 1131
PpsI	GAGTC	3 cut(s)	15, 709, 1131
Psp6I	CCWGG	3 cut(s)	329, 1183, 1306
PspEI	GGTNACC	1 cut(s)	572
PspGI	CCWGG	3 cut(s)	329, 1183, 1306
PspN4I	GGNNCC	1 cut(s)	1228
PspPI	GGNCC	2 cut(s)	233, 734
PstI	CTGCAG	1 cut(s)	1135
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	3 cut(s)	16, 971, 1047
Sau3AI	GATC	2 cut(s)	132, 526
Sau96I	GGNCC	2 cut(s)	233, 734
SchI	GAGTC	3 cut(s)	15, 710, 1131
ScrFI	CCNGG	3 cut(s)	331, 1185, 1308
SduI	GDGCHC	2 cut(s)	368, 1014
SfcI	CTRYAG	1 cut(s)	1131
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, 1139
SmoI	CTYRAG	3 cut(s)	338, 530, 1139
Sse9I	AATT	1 cut(s)	44
SsiI	CCGC	3 cut(s)	236, 238, 1230
SspMI	CTAG	1 cut(s)	1155
StyD4I	CCNGG	3 cut(s)	329, 1183, 1306
TaaI	ACNGT	3 cut(s)	685, 835, 1088
TaiI	ACGT	2 cut(s)	328, 1011
TaqI	TCGA	2 cut(s)	354, 669
TasI	AATT	1 cut(s)	44
TatI	WGTACW	1 cut(s)	587
TfiI	GAWTC	4 cut(s)	334, 599, 854, 1345
Tru1I	TTAA	3 cut(s)	90, 447, 468
Tru9I	TTAA	3 cut(s)	90, 447, 468
TscAI	CASTG	2 cut(s)	103, 651
TseI	GCWGC	3 cut(s)	15, 970, 1046
TspDTI	ATGAA	2 cut(s)	551, 697
TspRI	CASTG	2 cut(s)	103, 651
Van91I	CCANNNNNTGG	2 cut(s)	746, 1190
VneI	GTGCAC	1 cut(s)	1010
VpaK11BI	GGWCC	1 cut(s)	233
XagI	CCTNNNNNAGG	1 cut(s)	684
XceI	RCATGY	1 cut(s)	725
XmnI	GAANNNNTTC	1 cut(s)	1254
XspI	CTAG	1 cut(s)	1155

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