Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr5

Orthogroup ID

OG0004163

Physical Location & Seq

Genomic Coordinates Reverse (-)

17948374 .. 17960660

Gene Structure 12287 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000023089

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1299 bp

ATGGCAACTGCCTTCTCTTTTGCCCAAGCTGCTCTCTTCTCCAAAACCCCACTCTCTCTTCGCACCAATGCCCTCAGAACCTTAACCTTCTGCTTACCCTTCTCTTCTTCTTCTGCAGCTCTTGCCTCTGACAAGCCTCGCAGCAAGAAATGGAGGCACCCAGTAATTTCAGCAGCGCTCGAGCTCGGCGGCGTCAAGATTGCTAAAGATGATGTCTTGAGGGATGACCCCACAAACAATGTTCCGGATACGATTTTTGCAAAGCTCGGAATGCAACTGCATAGAAGAGACCAGCACCCACTTGGAATTCTTAAGAATGCTATCTACGAATACTTCGACACTAATTGCTCGAACACGTTTGATAAGTTCGATGATCTTTGCCCACTTGTATCTGTTAAAGAGAATTTTGATGATGTTTTAGTTCCTGCTGATCATGTAAGTCGAAGTTATAATGATACATACTATGTGGACTCTCAAACCGTTTTGAGGTGCCATACAAGTGCTCATCAGGCAGAGTTATTGAGAAGAGGACACACTCATTTCCTTGTAACTGGAGATGTGTACCGTAGGGATTCCATTGACTCTACACATTACCCTGTGTTCCATCAGATGGAAGGCGTGCGTGTTTTTTCTCCAGAAGATTGGGCAGCATCTGGGAGAGATGCAACATCTTATGTAGCTGAGGACTTGAAGAAATGTCTTGAGGGTCTGGCACGCCACCTATTTGGTGCTGTGGAGATGCGCTGGGTTGATACGTACTTTCCATTTACCAATCCATCATTTGAACTTGAGATTTTCTTTCAGGAAAAGTGGTTGGAGGTTTTGGGTTGCGGAGTAACAGAACAAGAAATATTGAAGAGAAGTGGGAAAACAGACAATGTTGCTTGGGCTTTCGGACTTGGATTGGAGCGGCTGGCAATGGTTCTATTTGACATCCCTGATATTCGCCTTTTCTGGTCAACTGATGAGAGGTTTACCTCTCAGTTTTTGAAGGGGCAGCTGGGAGTCAAGTTCAAGCCATATTCAAAGTATCCTCCGTGTTACAAAGATGTTAGTTTTTGGATCAGTGAATCTTTCACTGAAAACAATTTATGTGAAGTTGTTAGAGAGGTTGCTGGAGATCTTGCTGAGGAGGTGCAATTGATAGACAATTTCACAAACAAGAAAGGAATGACCAGTCACTGTTACAGGATTGCTTATAGGTCTATGGAACGATCACTTACAGACGAGGAAGTCAATAAATTGCAGGGTACTGTAAGAGAGTTGGTTGAGAGCAAGTTGAAGGTTATCTTGAGATGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003824 GO:0004812 GO:0004826 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005739 GO:0006082 GO:0006139 GO:0006399 GO:0006412 GO:0006418 GO:0006432 GO:0006518 GO:0006520 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009507 GO:0009532 GO:0009536 GO:0009570 GO:0009987 GO:0010467 GO:0016020 GO:0016070 GO:0016874 GO:0016875 GO:0019538 GO:0019752 GO:0034641 GO:0034645 GO:0034660 GO:0043038 GO:0043039 GO:0043043 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043436 GO:0043603 GO:0043604 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044267 GO:0044271 GO:0044281 GO:0044422 GO:0044424 GO:0044434 GO:0044435 GO:0044444 GO:0044446 GO:0044464 GO:0046483 GO:0071704 GO:0090304 GO:0140098 GO:0140101 GO:1901360 GO:1901564 GO:1901566 GO:1901576

KEGG Pathways

Metabolic & Signaling

ko00970 map00970

Pfam Domains

Protein Families

FDX-ACB tRNA-synt_2d

Protein Analysis

433

Amino Acids

49.36

Weight (kDa)

5.99

Isoelectric Point (pI)

36.93

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
tRNA-synt_2d	PF01409	119 - 329	1.5e-48	tRNA synthetases class II core domain (F)
FDX-ACB	PF03147	342 - 432	1.4e-21	Ferredoxin-fold anticodon 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: OG0004163)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G58140
fragaria_vesca	FvH4_3g12680 FvH4_3g12680 FvH4_3g12680
malus_domestica	MD05G1248600.v1.1 MD10G1229100.v1.1
prunus_persica	Prupe.4G115500_v2.0.a1
pyrus_communis	pycom05g22530 pycom10g19270
rosa_chinensis	RchiOBHm_Chr3g0486261 RchiOBHm_Chr5g0020641
rosa_laevigata	RLG00000023089 RLG00000032549
rosa_multiflora	Rmu_sc0001857.1_g000018 Rmu_sc0005607.1_g000020 Rmu_sc0005842.1_g000003 Rmu_sc0007661.1_g000010
rosa_roxburghii	Rroxscaffold_1G00057630 Rroxscaffold_6G00395930
rosa_rugosa	Rorug03G0224300 Rorug03G0224400 Rorug03G0224500 Rorug05G0062200
rosa_samantha	Rh3AG274300 Rh3BG309600 Rh3CG308800 Rh5AG151900 Rh5BG151600 Rh5CG162900 Rh5DG150800
rosa_wichuraiana	Rw0G022550 Rw3G024320 Rw5G013460

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	450
AasI	GACNNNNNNGTC	1 cut(s)	1232
AccB1I	GGYRCC	2 cut(s)	156, 489
AccB7I	CCANNNNNTGG	1 cut(s)	610
AccBSI	CCGCTC	1 cut(s)	910
AccIII	TCCGGA	1 cut(s)	244
AciI	CCGC	3 cut(s)	189, 831, 910
AclWI	GGATC	1 cut(s)	1070
AcsI	RAATTY	2 cut(s)	306, 403
AcyI	GRCGYC	1 cut(s)	192
AfaI	GTAC	3 cut(s)	563, 758, 1252
AfeI	AGCGCT	1 cut(s)	177
AfiI	CCNNNNNNNGG	2 cut(s)	486, 610
AflII	CTTAAG	1 cut(s)	311
AflIII	ACRYGT	1 cut(s)	354
AgsI	TTSAA	7 cut(s)	691, 785, 856, 991, 1015, 1026, 1282
AluBI	AGCT	6 cut(s)	29, 119, 184, 265, 680, 1000
AluI	AGCT	6 cut(s)	29, 119, 184, 265, 680, 1000
Alw21I	GWGCWC	2 cut(s)	186, 505
Alw26I	GTCTC	1 cut(s)	282
AlwI	GGATC	1 cut(s)	1070
AlwNI	CAGNNNCTG	2 cut(s)	653, 1182
Ama87I	CYCGRG	1 cut(s)	179
Aor13HI	TCCGGA	1 cut(s)	244
Aor51HI	AGCGCT	1 cut(s)	177
ApeKI	GCWGC	6 cut(s)	29, 116, 141, 173, 647, 997
ApoI	RAATTY	2 cut(s)	306, 403
AspLEI	GCGC	2 cut(s)	178, 744
AvaI	CYCGRG	1 cut(s)	179
BanI	GGYRCC	2 cut(s)	156, 489
BanII	GRGCYC	1 cut(s)	186
Bbv12I	GWGCWC	2 cut(s)	186, 505
BbvCI	CCTCAGC	2 cut(s)	681, 1128
BbvI	GCAGC	6 cut(s)	16, 128, 153, 185, 659, 1009
BccI	CCATC	3 cut(s)	604, 612, 784
BciVI	GTATCC	2 cut(s)	241, 1041
BclI	TGATCA	1 cut(s)	430
BcoDI	GTCTC	1 cut(s)	282
BfmI	CTRYAG	1 cut(s)	114
BfoI	RGCGCY	1 cut(s)	179
BfrI	CTTAAG	1 cut(s)	311
BfuI	GTATCC	2 cut(s)	241, 1041
BglII	AGATCT	1 cut(s)	1120
BisI	GCNGC	8 cut(s)	30, 117, 142, 174, 190, 648, 911, 998
BlsI	GCNGC	8 cut(s)	31, 118, 143, 175, 191, 649, 912, 999
BmeT110I	CYCGRG	1 cut(s)	179
BmiI	GGNNCC	2 cut(s)	158, 491
BmrI	ACTGGG	1 cut(s)	155
BmsI	GCATC	3 cut(s)	652, 659, 729
BmuI	ACTGGG	1 cut(s)	155
BpmI	CTGGAG	3 cut(s)	573, 618, 1137
Bpu10I	CCTNAGC	2 cut(s)	681, 1128
BpuEI	CTTGAG	3 cut(s)	238, 722, 809
BsaAI	YACGTR	1 cut(s)	756
BsaHI	GRCGYC	1 cut(s)	192
BsaI	GGTCTC	1 cut(s)	282
BsaWI	WCCGGW	1 cut(s)	244
Bsc4I	CCNNNNNNNGG	2 cut(s)	486, 610
Bse1I	ACTGG	3 cut(s)	161, 556, 1176
Bse3DI	GCAATG	1 cut(s)	924
BseAI	TCCGGA	1 cut(s)	244
BseGI	GGATG	2 cut(s)	229, 933
BseLI	CCNNNNNNNGG	2 cut(s)	486, 610
BseMI	GCAATG	1 cut(s)	924
BseMII	CTCAG	4 cut(s)	88, 672, 995, 1119
BseNI	ACTGG	3 cut(s)	161, 556, 1176
BseRI	GAGGAG	1 cut(s)	1145
BseXI	GCAGC	6 cut(s)	16, 128, 153, 185, 659, 1009
BseYI	CCCAGC	2 cut(s)	744, 1000
BshNI	GGYRCC	2 cut(s)	156, 489
BsiHKAI	GWGCWC	2 cut(s)	186, 505
BsiHKCI	CYCGRG	1 cut(s)	179
BsiSI	CCGG	1 cut(s)	245
BslI	CCNNNNNNNGG	2 cut(s)	486, 610
BsmAI	GTCTC	1 cut(s)	282
BsmI	GAATGC	2 cut(s)	276, 322
Bso31I	GGTCTC	1 cut(s)	282
BsoBI	CYCGRG	1 cut(s)	179
Bsp1286I	GDGCHC	2 cut(s)	186, 505
Bsp13I	TCCGGA	1 cut(s)	244
Bsp143I	GATC	5 cut(s)	373, 430, 1062, 1120, 1214
BspACI	CCGC	3 cut(s)	189, 831, 910
BspCNI	CTCAG	4 cut(s)	87, 673, 994, 1120
BspEI	TCCGGA	1 cut(s)	244
BspLI	GGNNCC	2 cut(s)	158, 491
BspMAI	CTGCAG	1 cut(s)	118
BspPI	GGATC	1 cut(s)	1070
BspT107I	GGYRCC	2 cut(s)	156, 489
BspTI	CTTAAG	1 cut(s)	311
BspTNI	GGTCTC	1 cut(s)	282
BsrBI	CCGCTC	1 cut(s)	910
BsrDI	GCAATG	1 cut(s)	924
BsrI	ACTGG	3 cut(s)	161, 556, 1176
BssMI	GATC	5 cut(s)	373, 430, 1062, 1120, 1214
BssNI	GRCGYC	1 cut(s)	192
Bst4CI	ACNGT	4 cut(s)	481, 566, 1184, 1255
Bst6I	CTCTTC	6 cut(s)	41, 63, 109, 280, 520, 851
BstACI	GRCGYC	1 cut(s)	192
BstAFI	CTTAAG	1 cut(s)	311
BstAPI	GCANNNNNTGC	1 cut(s)	122
BstBAI	YACGTR	1 cut(s)	756
BstC8I	GCNNGC	3 cut(s)	620, 715, 915
BstDEI	CTNAG	4 cut(s)	74, 681, 981, 1128
BstF5I	GGATG	2 cut(s)	229, 933
BstH2I	RGCGCY	1 cut(s)	179
BstHHI	GCGC	2 cut(s)	178, 744
BstKTI	GATC	5 cut(s)	376, 433, 1065, 1123, 1217
BstMAI	GTCTC	1 cut(s)	282
BstMBI	GATC	5 cut(s)	373, 430, 1062, 1120, 1214
BstMWI	GCNNNNNNNGC	4 cut(s)	29, 122, 271, 509
BstSFI	CTRYAG	1 cut(s)	114
BstSNI	TACGTA	1 cut(s)	756
BstV1I	GCAGC	6 cut(s)	16, 128, 153, 185, 659, 1009
BstX2I	RGATCY	1 cut(s)	1120
BstXI	CCANNNNNNTGG	2 cut(s)	642, 725
BstYI	RGATCY	1 cut(s)	1120
BsuI	GTATCC	2 cut(s)	241, 1041
BtsCI	GGATG	2 cut(s)	229, 933
BtsIMutI	CAGTG	3 cut(s)	1072, 1077, 1180
Cac8I	GCNNGC	3 cut(s)	620, 715, 915
CaiI	CAGNNNCTG	2 cut(s)	653, 1182
CfoI	GCGC	2 cut(s)	178, 744
CseI	GACGC	1 cut(s)	181
Csp6I	GTAC	3 cut(s)	562, 757, 1251
CviAII	CATG	1 cut(s)	434
CviQI	GTAC	3 cut(s)	562, 757, 1251
DdeI	CTNAG	4 cut(s)	74, 681, 981, 1128
DpnI	GATC	5 cut(s)	375, 432, 1064, 1122, 1216
DpnII	GATC	5 cut(s)	373, 430, 1062, 1120, 1214
DrdI	GACNNNNNNGTC	1 cut(s)	1232
DseDI	GACNNNNNNGTC	1 cut(s)	1232
Eam1104I	CTCTTC	6 cut(s)	41, 63, 109, 280, 520, 851
EarI	CTCTTC	6 cut(s)	41, 63, 109, 280, 520, 851
Ecl136II	GAGCTC	1 cut(s)	184
Eco105I	TACGTA	1 cut(s)	756
Eco24I	GRGCYC	1 cut(s)	186
Eco31I	GGTCTC	1 cut(s)	282
Eco47III	AGCGCT	1 cut(s)	177
Eco53kI	GAGCTC	1 cut(s)	184
Eco88I	CYCGRG	1 cut(s)	179
EcoICRI	GAGCTC	1 cut(s)	184
EcoRI	GAATTC	1 cut(s)	306
EcoT38I	GRGCYC	1 cut(s)	186
FaeI	CATG	1 cut(s)	437
FalI	AAGNNNNNCTT	1 cut(s)	1274
FatI	CATG	1 cut(s)	433
FbaI	TGATCA	1 cut(s)	430
Fnu4HI	GCNGC	8 cut(s)	30, 117, 142, 174, 190, 648, 911, 998
FokI	GGATG	2 cut(s)	236, 920
FriOI	GRGCYC	1 cut(s)	186
Fsp4HI	GCNGC	8 cut(s)	30, 117, 142, 174, 190, 648, 911, 998
GlaI	GCGC	2 cut(s)	177, 743
GluI	GCNGC	8 cut(s)	30, 117, 142, 174, 190, 648, 911, 998
GsaI	CCCAGC	2 cut(s)	748, 1004
GsuI	CTGGAG	3 cut(s)	573, 618, 1137
HaeII	RGCGCY	1 cut(s)	179
HapII	CCGG	1 cut(s)	245
HgaI	GACGC	1 cut(s)	181
HhaI	GCGC	2 cut(s)	178, 744
Hin1I	GRCGYC	1 cut(s)	192
Hin1II	CATG	1 cut(s)	437
Hin6I	GCGC	2 cut(s)	176, 742
HinP1I	GCGC	2 cut(s)	176, 742
HincII	GTYRAC	1 cut(s)	960
HindII	GTYRAC	1 cut(s)	960
HinfI	GANTC	5 cut(s)	470, 572, 581, 1005, 1070
HpaII	CCGG	1 cut(s)	245
Hpy166II	GTNNAC	4 cut(s)	469, 562, 960, 975
Hpy188I	TCNGA	5 cut(s)	77, 130, 269, 609, 896
Hpy188III	TCNNGA	7 cut(s)	196, 217, 245, 635, 701, 803, 1291
Hpy8I	GTNNAC	4 cut(s)	469, 562, 960, 975
HpyAV	CCTTC	6 cut(s)	22, 97, 109, 608, 985, 1276
HpyCH4III	ACNGT	4 cut(s)	481, 566, 1184, 1255
HpyCH4IV	ACGT	2 cut(s)	356, 755
HpyCH4V	TGCA	7 cut(s)	116, 260, 274, 280, 665, 1138, 1246
HpyF10VI	GCNNNNNNNGC	4 cut(s)	29, 122, 271, 509
HpyF3I	CTNAG	4 cut(s)	74, 681, 981, 1128
HpySE526I	ACGT	2 cut(s)	356, 755
Hsp92I	GRCGYC	1 cut(s)	192
Hsp92II	CATG	1 cut(s)	437
HspAI	GCGC	2 cut(s)	176, 742
Kpn2I	TCCGGA	1 cut(s)	244
Ksp22I	TGATCA	1 cut(s)	430
Kzo9I	GATC	5 cut(s)	373, 430, 1062, 1120, 1214
LmnI	GCTCC	1 cut(s)	907
Lsp1109I	GCAGC	6 cut(s)	16, 128, 153, 185, 659, 1009
LweI	GCATC	3 cut(s)	652, 659, 729
MaeII	ACGT	2 cut(s)	356, 755
MaeIII	GTNAC	5 cut(s)	547, 835, 1040, 1178, 1184
MalI	GATC	5 cut(s)	375, 432, 1064, 1122, 1216
MbiI	CCGCTC	1 cut(s)	910
MboI	GATC	5 cut(s)	373, 430, 1062, 1120, 1214
MfeI	CAATTG	1 cut(s)	1139
MflI	RGATCY	1 cut(s)	1120
MhlI	GDGCHC	2 cut(s)	186, 505
MluCI	AATT	8 cut(s)	165, 306, 343, 403, 1087, 1139, 1150, 1241
MlyI	GAGTC	3 cut(s)	464, 575, 1014
MmeI	TCCRAC	1 cut(s)	795
MroI	TCCGGA	1 cut(s)	244
MseI	TTAA	3 cut(s)	83, 312, 396
MslI	CAYNNNNRTG	1 cut(s)	498
MspA1I	CMGCKG	1 cut(s)	1000
MspCI	CTTAAG	1 cut(s)	311
MspI	CCGG	1 cut(s)	245
MunI	CAATTG	1 cut(s)	1139
Mva1269I	GAATGC	2 cut(s)	276, 322
MwoI	GCNNNNNNNGC	4 cut(s)	29, 122, 271, 509
NdeII	GATC	5 cut(s)	373, 430, 1062, 1120, 1214
NlaIII	CATG	1 cut(s)	437
NlaIV	GGNNCC	2 cut(s)	158, 491
NmeAIII	GCCGAG	1 cut(s)	165
NmuCI	GTSAC	1 cut(s)	1178
PaeR7I	CTCGAG	1 cut(s)	179
PcsI	WCGNNNNNNNCGW	1 cut(s)	333
PctI	GAATGC	2 cut(s)	276, 322
PfeI	GAWTC	2 cut(s)	572, 1070
PflMI	CCANNNNNTGG	1 cut(s)	610
PkrI	GCNGC	8 cut(s)	31, 118, 143, 175, 191, 649, 912, 999
PleI	GAGTC	3 cut(s)	464, 575, 1013
PpsI	GAGTC	3 cut(s)	464, 575, 1013
Ppu21I	YACGTR	1 cut(s)	756
PsiI	TTATAA	1 cut(s)	450
Psp124BI	GAGCTC	1 cut(s)	186
PspFI	CCCAGC	2 cut(s)	744, 1000
PspN4I	GGNNCC	2 cut(s)	158, 491
PspXI	VCTCGAGB	1 cut(s)	179
PstI	CTGCAG	1 cut(s)	118
PstNI	CAGNNNCTG	2 cut(s)	653, 1182
PsuI	RGATCY	1 cut(s)	1120
PvuII	CAGCTG	1 cut(s)	1000
RsaI	GTAC	3 cut(s)	563, 758, 1252
RsaNI	GTAC	3 cut(s)	562, 757, 1251
RseI	CAYNNNNRTG	1 cut(s)	498
SacI	GAGCTC	1 cut(s)	186
SaqAI	TTAA	3 cut(s)	83, 312, 396
SatI	GCNGC	8 cut(s)	30, 117, 142, 174, 190, 648, 911, 998
Sau3AI	GATC	5 cut(s)	373, 430, 1062, 1120, 1214
SchI	GAGTC	3 cut(s)	464, 575, 1014
SduI	GDGCHC	2 cut(s)	186, 505
SfaNI	GCATC	3 cut(s)	652, 659, 729
SfcI	CTRYAG	1 cut(s)	114
Sfr274I	CTCGAG	1 cut(s)	179
SlaI	CTCGAG	1 cut(s)	179
SmiMI	CAYNNNNRTG	1 cut(s)	498
SmlI	CTYRAG	6 cut(s)	179, 217, 311, 701, 788, 1291
SmoI	CTYRAG	6 cut(s)	179, 217, 311, 701, 788, 1291
SnaBI	TACGTA	1 cut(s)	756
Sse9I	AATT	8 cut(s)	165, 306, 343, 403, 1087, 1139, 1150, 1241
SsiI	CCGC	3 cut(s)	189, 831, 910
SspI	AATATT	1 cut(s)	852
SstI	GAGCTC	1 cut(s)	186
TaaI	ACNGT	4 cut(s)	481, 566, 1184, 1255
TaiI	ACGT	2 cut(s)	359, 758
TaqI	TCGA	5 cut(s)	180, 336, 350, 369, 442
TasI	AATT	8 cut(s)	165, 306, 343, 403, 1087, 1139, 1150, 1241
TauI	GCSGC	2 cut(s)	192, 913
TfiI	GAWTC	2 cut(s)	572, 1070
Tru1I	TTAA	3 cut(s)	83, 312, 396
Tru9I	TTAA	3 cut(s)	83, 312, 396
TscAI	CASTG	3 cut(s)	1072, 1084, 1187
TseFI	GTSAC	1 cut(s)	1178
TseI	GCWGC	6 cut(s)	29, 116, 141, 173, 647, 997
Tsp45I	GTSAC	1 cut(s)	1178
TspGWI	ACGGA	1 cut(s)	1026
TspRI	CASTG	3 cut(s)	1072, 1084, 1187
Van91I	CCANNNNNTGG	1 cut(s)	610
Vha464I	CTTAAG	1 cut(s)	311
XapI	RAATTY	2 cut(s)	306, 403
XcmI	CCANNNNNNNNNTGG	1 cut(s)	299
XhoI	CTCGAG	1 cut(s)	179

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