Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4D

Orthogroup ID

OG0001029

Physical Location & Seq

Genomic Coordinates Forward (+)

36052215 .. 36055653

Gene Structure 3439 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4DG181400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1143 bp

ATGTTTCCTTCCACGCTTCTTGGAACTGGTGAAAATTGGACCTTAATGAAGACAATTAGTGTTACTGAATACTTGAACTATGAAGCAGGAAAGTTTTCCAAGAGTAAAGAGGTTGGAGTATTTGGAAACGATGCCAAAGATACAAACATTCCTGTTGAAGTATGGCGATATTACTTGCTGACCAATAGGCCCGAGGCGTCAGATACATTATTTACATGGGCGGATTTGCAAGCGAAGCTCAACAGTGAATTGCTGAATAATTTGGGCAACTTCATTAACCGAGTTTTGAGTTTTGTTGCCAAACCTTCATGTCAAGGATATGACTCCATTATTCCAGATGCTCAAGATGCCATCTCTGATCCTTTGACAGAGAAAATTGCTGAAAAAGTGGGTAAATGTGTGGAGCAATATGTGGAGGCCATGGAGAAGGTAAAACTAAAGCAAGGACTCAAACTGGCAATGAGCATTTCAAGTGAAGGGAATGCATATCTGCAAGAAAGTCAGTTCTGGAAGCTTTACAAGGAAGATCAACCTTGCTGCTCCATTGTTATGAGAACTGCAGTGGGGCTAGTGCATCTTCTTGCTTGCTTATTAGAACCCTTCATGCCATCTTTTTCTGTTGAGGTATTTAAGCAGCTTAATTTGTCTCATGAGACGCACATATCACTTTGTGATGATAAAGGCGATACTGATAGGGCAAGACGGCCATGGGAGATTGTACCTAGAGGTCACAAGATTGGGAAACCAGAGCCTTTGTTCAAGGAATTGAATGATGATGAAGTAGATTCTCTAAGGAAGAGGTTTGCTGGAAGTCAGGCGGATAGAAAGGAAAGGGAAGAAGCTGAAGCAGTGAAGTTGGCTGAGCAGCTCAAGAAATCAAAAACAAGAGTGGAAAGAAGAAACAACAAGCCACACAAATCTGCAACTGAAGCAGAGATTTCCATTTCTAGACTAGATATTCGTGTCGGGCTCATTACAAAAGCTCAGAAGCATCCTGATGCTGATGCACTTTATGTGGAAGAGATTGATGTTGGCGAAGGACAGCCTAGAACAGTTGTCAGTGGACTAGTCAGGTTTATACCTCTTGAAGAAATGCAGCCCAACAAGAGTCGCGGCAGACCTGGGAGCAGCTGGCCGACGTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005829 GO:0006082 GO:0006139 GO:0006399 GO:0006412 GO:0006418 GO:0006518 GO:0006520 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009987 GO:0010035 GO:0010038 GO:0010467 GO:0016070 GO:0019538 GO:0019752 GO:0034641 GO:0034645 GO:0034660 GO:0042221 GO:0043038 GO:0043039 GO:0043043 GO:0043170 GO:0043436 GO:0043603 GO:0043604 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044267 GO:0044271 GO:0044281 GO:0044424 GO:0044444 GO:0044464 GO:0046483 GO:0046686 GO:0050896 GO:0071704 GO:0090304 GO:1901360 GO:1901564 GO:1901566 GO:1901576

KEGG Pathways

Metabolic & Signaling

ko00450 ko00970 map00450 map00970

Pfam Domains

Protein Families

Anticodon_1 tRNA-synt_1g tRNA_bind

Protein Analysis

380

Amino Acids

42.88

Weight (kDa)

6.17

Isoelectric Point (pI)

33.41

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
tRNA-synt_1g	PF09334	1 - 96	9.7e-27	tRNA synthetases class I (M)
Anticodon_3	PF19303	123 - 272	2.2e-20	Anticodon binding domain of methionyl tRNA ligase
tRNA_bind	PF01588	320 - 367	1.2e-12	Putative tRNA binding domain

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)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0001029)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G13780
fragaria_vesca	FvH4_4g13560 FvH4_4g13560 FvH4_4g13560 FvH4_4g36101 FvH4_4g36103
malus_domestica	MD04G1013400.v1.1 MD05G1172700.v1.1 MD10G1161000.v1.1
prunus_persica	Prupe.1G159500_v2.0.a1 Prupe.1G159500_v2.0.a1 Prupe.1G159500_v2.0.a1 Prupe.2G130000_v2.0.a1 Prupe.2G130800_v2.0.a1 Prupe.8G200100_v2.0.a1 Prupe.8G200100_v2.0.a1
pyrus_communis	pycom04g01040 pycom05g15930 pycom10g13910
rosa_chinensis	RchiOBHm_Chr1g0332221 RchiOBHm_Chr2g0166871 RchiOBHm_Chr4g0414311 RchiOBHm_Chr4g0442441
rosa_laevigata	RLG00000005711 RLG00000008159 RLG00000021676
rosa_multiflora	Rmu_co8251943.1_g000001 Rmu_co8341625.1_g000001 Rmu_sc0000733.1_g000008 Rmu_sc0001063.1_g000003 Rmu_sc0002735.1_g000014 Rmu_sc0005196.1_g000006 Rmu_sc0005344.1_g000007 Rmu_sc0032860.1_g000001
rosa_roxburghii	Rroxscaffold_2G00084040 Rroxscaffold_2G00084460 Rroxscaffold_4G00318360 Rroxscaffold_5G00358180
rosa_rugosa	Rorug01G0098500 Rorug01G0098600 Rorug01G0098700 Rorug01G0098800 Rorug01G0098900 Rorug02G0526100 Rorug04G0126800
rosa_samantha	Rh1AG122600 Rh1BG093900 Rh1CG117200 Rh1DG128200 Rh2AG593100 Rh2BG604400 Rh2CG575300 Rh2DG616000 Rh4AG184800 Rh4BG184300 Rh4CG197700 Rh4DG181400 Rh4DG182000
rosa_wichuraiana	Rw1G010000 Rw2G049370 Rw4G015810

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccII	CGCG	1 cut(s)	1113
AciI	CCGC	3 cut(s)	221, 818, 1113
AclWI	GGATC	1 cut(s)	353
AcoI	YGGCCR	2 cut(s)	704, 1133
AcuI	CTGAAG	2 cut(s)	864, 948
AcyI	GRCGYC	1 cut(s)	197
AdeI	CACNNNGTG	1 cut(s)	671
AfaI	GTAC	1 cut(s)	720
AgsI	TTSAA	6 cut(s)	76, 158, 471, 760, 769, 1088
AhlI	ACTAGT	1 cut(s)	1066
AjiI	CACGTC	1 cut(s)	1140
AjnI	CCWGG	1 cut(s)	1120
AluBI	AGCT	7 cut(s)	238, 514, 637, 842, 868, 983, 1131
AluI	AGCT	7 cut(s)	238, 514, 637, 842, 868, 983, 1131
Alw26I	GTCTC	2 cut(s)	647, 651
AlwI	GGATC	1 cut(s)	353
Ama87I	CYCGRG	1 cut(s)	191
AoxI	GGCC	4 cut(s)	188, 417, 704, 1133
ApeKI	GCWGC	5 cut(s)	537, 634, 865, 1096, 1128
ArsI	GACNNNNNNTTYG	2 cut(s)	942, 974
Asp700I	GAANNNNTTC	1 cut(s)	94
AspS9I	GGNCC	2 cut(s)	39, 189
AsuHPI	GGTGA	1 cut(s)	41
AvaI	CYCGRG	1 cut(s)	191
AvaII	GGWCC	1 cut(s)	39
BanII	GRGCYC	1 cut(s)	972
BbsI	GAAGAC	1 cut(s)	56
BbvI	GCAGC	4 cut(s)	524, 646, 877, 1108
BccI	CCATC	2 cut(s)	359, 616
BceAI	ACGGC	1 cut(s)	719
BciT130I	CCWGG	1 cut(s)	1122
BcoDI	GTCTC	2 cut(s)	647, 651
BcuI	ACTAGT	1 cut(s)	1066
BfaI	CTAG	6 cut(s)	569, 723, 948, 953, 1047, 1067
BfmI	CTRYAG	1 cut(s)	558
BisI	GCNGC	6 cut(s)	538, 635, 866, 1097, 1114, 1129
BlpI	GCTNAGC	1 cut(s)	861
BlsI	GCNGC	6 cut(s)	539, 636, 867, 1098, 1115, 1130
Bme1390I	CCNGG	1 cut(s)	1122
Bme18I	GGWCC	1 cut(s)	39
BmeT110I	CYCGRG	1 cut(s)	191
BmgBI	CACGTC	1 cut(s)	1140
BmgT120I	GGNCC	2 cut(s)	39, 189
BmrFI	CCNGG	1 cut(s)	1122
BmsI	GCATC	7 cut(s)	121, 328, 337, 583, 988, 994, 1000
BpiI	GAAGAC	1 cut(s)	56
Bpu1102I	GCTNAGC	1 cut(s)	861
BpuEI	CTTGAG	2 cut(s)	327, 854
BsaHI	GRCGYC	1 cut(s)	197
BsaJI	CCNNGG	4 cut(s)	192, 420, 707, 1121
Bse1I	ACTGG	2 cut(s)	31, 459
Bse3DI	GCAATG	1 cut(s)	465
BseBI	CCWGG	1 cut(s)	1122
BseDI	CCNNGG	4 cut(s)	192, 420, 707, 1121
BseGI	GGATG	1 cut(s)	991
BseMI	GCAATG	1 cut(s)	465
BseMII	CTCAG	2 cut(s)	852, 998
BseNI	ACTGG	2 cut(s)	31, 459
BseXI	GCAGC	4 cut(s)	524, 646, 877, 1108
Bsh1236I	CGCG	1 cut(s)	1113
BshFI	GGCC	4 cut(s)	190, 419, 706, 1135
BsiHKCI	CYCGRG	1 cut(s)	191
BsmAI	GTCTC	2 cut(s)	647, 651
BsmBI	CGTCTC	1 cut(s)	647
BsmI	GAATGC	1 cut(s)	487
BsnI	GGCC	4 cut(s)	190, 419, 706, 1135
BsoBI	CYCGRG	1 cut(s)	191
Bsp1286I	GDGCHC	1 cut(s)	972
Bsp143I	GATC	2 cut(s)	358, 526
Bsp1720I	GCTNAGC	1 cut(s)	861
Bsp19I	CCATGG	2 cut(s)	420, 707
BspACI	CCGC	3 cut(s)	221, 818, 1113
BspANI	GGCC	4 cut(s)	190, 419, 706, 1135
BspCNI	CTCAG	2 cut(s)	853, 997
BspFNI	CGCG	1 cut(s)	1113
BspHI	TCATGA	1 cut(s)	649
BspMAI	CTGCAG	1 cut(s)	562
BspPI	GGATC	1 cut(s)	353
BsrDI	GCAATG	1 cut(s)	465
BsrI	ACTGG	2 cut(s)	31, 459
BssECI	CCNNGG	4 cut(s)	192, 420, 707, 1121
BssMI	GATC	2 cut(s)	358, 526
BssNI	GRCGYC	1 cut(s)	197
BssT1I	CCWWGG	2 cut(s)	420, 707
Bst2UI	CCWGG	1 cut(s)	1122
Bst4CI	ACNGT	2 cut(s)	245, 1054
Bst6I	CTCTTC	2 cut(s)	791, 1014
BstACI	GRCGYC	1 cut(s)	197
BstC8I	GCNNGC	3 cut(s)	231, 586, 1133
BstDEI	CTNAG	3 cut(s)	791, 861, 984
BstDSI	CCRYGG	2 cut(s)	420, 707
BstF5I	GGATG	1 cut(s)	991
BstFNI	CGCG	1 cut(s)	1113
BstKTI	GATC	2 cut(s)	361, 529
BstMAI	GTCTC	2 cut(s)	647, 651
BstMBI	GATC	2 cut(s)	358, 526
BstMWI	GCNNNNNNNGC	3 cut(s)	235, 347, 929
BstNI	CCWGG	1 cut(s)	1122
BstSCI	CCNGG	1 cut(s)	1120
BstSFI	CTRYAG	1 cut(s)	558
BstUI	CGCG	1 cut(s)	1113
BstV1I	GCAGC	4 cut(s)	524, 646, 877, 1108
BstV2I	GAAGAC	1 cut(s)	56
BsuRI	GGCC	4 cut(s)	190, 419, 706, 1135
BtgI	CCRYGG	2 cut(s)	420, 707
BtrI	CACGTC	1 cut(s)	1140
BtsCI	GGATG	1 cut(s)	991
BtsI	GCAGTG	2 cut(s)	567, 855
BtsIMutI	CAGTG	4 cut(s)	250, 567, 855, 1066
Cac8I	GCNNGC	3 cut(s)	231, 586, 1133
CciI	TCATGA	1 cut(s)	649
Cfr13I	GGNCC	2 cut(s)	39, 189
CseI	GACGC	2 cut(s)	186, 664
Csp6I	GTAC	1 cut(s)	719
CspCI	CAANNNNNGTGG	1 cut(s)	36
CviAII	CATG	6 cut(s)	216, 309, 421, 604, 650, 708
CviQI	GTAC	1 cut(s)	719
DdeI	CTNAG	3 cut(s)	791, 861, 984
DpnI	GATC	2 cut(s)	360, 528
DpnII	GATC	2 cut(s)	358, 526
DraIII	CACNNNGTG	1 cut(s)	671
EaeI	YGGCCR	2 cut(s)	704, 1133
Eam1104I	CTCTTC	2 cut(s)	791, 1014
EarI	CTCTTC	2 cut(s)	791, 1014
EciI	GGCGGA	2 cut(s)	236, 833
Eco130I	CCWWGG	2 cut(s)	420, 707
Eco24I	GRGCYC	1 cut(s)	972
Eco47I	GGWCC	1 cut(s)	39
Eco57I	CTGAAG	2 cut(s)	864, 948
Eco88I	CYCGRG	1 cut(s)	191
EcoRII	CCWGG	1 cut(s)	1120
EcoT14I	CCWWGG	2 cut(s)	420, 707
EcoT22I	ATGCAT	1 cut(s)	487
EcoT38I	GRGCYC	1 cut(s)	972
ErhI	CCWWGG	2 cut(s)	420, 707
Esp3I	CGTCTC	1 cut(s)	647
FaeI	CATG	6 cut(s)	219, 312, 424, 607, 653, 711
FatI	CATG	6 cut(s)	215, 308, 420, 603, 649, 707
Fnu4HI	GCNGC	6 cut(s)	538, 635, 866, 1097, 1114, 1129
FokI	GGATG	1 cut(s)	978
FriOI	GRGCYC	1 cut(s)	972
Fsp4HI	GCNGC	6 cut(s)	538, 635, 866, 1097, 1114, 1129
FspBI	CTAG	6 cut(s)	569, 723, 948, 953, 1047, 1067
GluI	GCNGC	6 cut(s)	538, 635, 866, 1097, 1114, 1129
HaeIII	GGCC	4 cut(s)	190, 419, 706, 1135
HgaI	GACGC	2 cut(s)	186, 664
Hin1I	GRCGYC	1 cut(s)	197
Hin1II	CATG	6 cut(s)	219, 312, 424, 607, 653, 711
HindIII	AAGCTT	1 cut(s)	512
HinfI	GANTC	4 cut(s)	323, 447, 785, 1108
HphI	GGTGA	1 cut(s)	41
Hpy166II	GTNNAC	1 cut(s)	1064
Hpy188I	TCNGA	3 cut(s)	202, 358, 987
Hpy188III	TCNNGA	8 cut(s)	335, 344, 508, 650, 871, 948, 995, 1085
Hpy8I	GTNNAC	1 cut(s)	1064
Hpy99I	CGWCG	1 cut(s)	1141
HpyAV	CCTTC	6 cut(s)	18, 315, 421, 470, 610, 1031
HpyCH4III	ACNGT	2 cut(s)	245, 1054
HpyCH4IV	ACGT	1 cut(s)	1139
HpyCH4V	TGCA	8 cut(s)	229, 485, 493, 560, 574, 923, 1007, 1096
HpyF10VI	GCNNNNNNNGC	3 cut(s)	235, 347, 929
HpyF3I	CTNAG	3 cut(s)	791, 861, 984
HpySE526I	ACGT	1 cut(s)	1139
Hsp92I	GRCGYC	1 cut(s)	197
Hsp92II	CATG	6 cut(s)	219, 312, 424, 607, 653, 711
Kzo9I	GATC	2 cut(s)	358, 526
LmnI	GCTCC	3 cut(s)	403, 545, 1125
Lsp1109I	GCAGC	4 cut(s)	524, 646, 877, 1108
LweI	GCATC	7 cut(s)	121, 328, 337, 583, 988, 994, 1000
MaeI	CTAG	6 cut(s)	569, 723, 948, 953, 1047, 1067
MaeII	ACGT	1 cut(s)	1139
MaeIII	GTNAC	2 cut(s)	61, 728
MalI	GATC	2 cut(s)	360, 528
MboI	GATC	2 cut(s)	358, 526
MboII	GAAGA	8 cut(s)	61, 536, 569, 808, 848, 909, 1031, 1100
MhlI	GDGCHC	1 cut(s)	972
MluCI	AATT	7 cut(s)	34, 54, 248, 259, 375, 640, 764
MlyI	GAGTC	3 cut(s)	317, 441, 1117
MmeI	TCCRAC	1 cut(s)	94
MnlI	CCTC	7 cut(s)	103, 187, 409, 616, 719, 792, 1092
Mph1103I	ATGCAT	1 cut(s)	487
MroXI	GAANNNNTTC	1 cut(s)	94
MseI	TTAA	4 cut(s)	44, 276, 630, 639
MslI	CAYNNNNRTG	2 cut(s)	548, 996
MspA1I	CMGCKG	1 cut(s)	1131
MspR9I	CCNGG	1 cut(s)	1122
Mva1269I	GAATGC	1 cut(s)	487
MvaI	CCWGG	1 cut(s)	1122
MvnI	CGCG	1 cut(s)	1113
MwoI	GCNNNNNNNGC	3 cut(s)	235, 347, 929
NcoI	CCATGG	2 cut(s)	420, 707
NdeII	GATC	2 cut(s)	358, 526
NlaIII	CATG	6 cut(s)	219, 312, 424, 607, 653, 711
NmuCI	GTSAC	1 cut(s)	728
NsiI	ATGCAT	1 cut(s)	487
PagI	TCATGA	1 cut(s)	649
PctI	GAATGC	1 cut(s)	487
PdmI	GAANNNNTTC	1 cut(s)	94
PfeI	GAWTC	1 cut(s)	785
PkrI	GCNGC	6 cut(s)	539, 636, 867, 1098, 1115, 1130
PleI	GAGTC	3 cut(s)	317, 441, 1116
PpsI	GAGTC	3 cut(s)	317, 441, 1116
Psp6I	CCWGG	1 cut(s)	1120
PspGI	CCWGG	1 cut(s)	1120
PspPI	GGNCC	2 cut(s)	39, 189
PstI	CTGCAG	1 cut(s)	562
PvuII	CAGCTG	1 cut(s)	1131
RsaI	GTAC	1 cut(s)	720
RsaNI	GTAC	1 cut(s)	719
RseI	CAYNNNNRTG	2 cut(s)	548, 996
SaqAI	TTAA	4 cut(s)	44, 276, 630, 639
SatI	GCNGC	6 cut(s)	538, 635, 866, 1097, 1114, 1129
Sau3AI	GATC	2 cut(s)	358, 526
Sau96I	GGNCC	2 cut(s)	39, 189
SchI	GAGTC	3 cut(s)	317, 441, 1117
ScrFI	CCNGG	1 cut(s)	1122
SduI	GDGCHC	1 cut(s)	972
SfaNI	GCATC	7 cut(s)	121, 328, 337, 583, 988, 994, 1000
SfcI	CTRYAG	1 cut(s)	558
SinI	GGWCC	1 cut(s)	39
SmiMI	CAYNNNNRTG	2 cut(s)	548, 996
SmlI	CTYRAG	2 cut(s)	342, 869
SmoI	CTYRAG	2 cut(s)	342, 869
SpeI	ACTAGT	1 cut(s)	1066
Sse9I	AATT	7 cut(s)	34, 54, 248, 259, 375, 640, 764
SsiI	CCGC	3 cut(s)	221, 818, 1113
SspMI	CTAG	6 cut(s)	569, 723, 948, 953, 1047, 1067
StyD4I	CCNGG	1 cut(s)	1120
StyI	CCWWGG	2 cut(s)	420, 707
TaaI	ACNGT	2 cut(s)	245, 1054
TaiI	ACGT	1 cut(s)	1142
TasI	AATT	7 cut(s)	34, 54, 248, 259, 375, 640, 764
TauI	GCSGC	1 cut(s)	1116
TfiI	GAWTC	1 cut(s)	785
Tru1I	TTAA	4 cut(s)	44, 276, 630, 639
Tru9I	TTAA	4 cut(s)	44, 276, 630, 639
TscAI	CASTG	4 cut(s)	250, 567, 855, 1066
TseFI	GTSAC	1 cut(s)	728
TseI	GCWGC	5 cut(s)	537, 634, 865, 1096, 1128
Tsp45I	GTSAC	1 cut(s)	728
TspDTI	ATGAA	6 cut(s)	62, 96, 262, 297, 592, 792
TspRI	CASTG	4 cut(s)	250, 567, 855, 1066
VpaK11BI	GGWCC	1 cut(s)	39
XbaI	TCTAGA	1 cut(s)	947
XmnI	GAANNNNTTC	1 cut(s)	94
XspI	CTAG	6 cut(s)	569, 723, 948, 953, 1047, 1067
Zsp2I	ATGCAT	1 cut(s)	487

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