Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5B

Orthogroup ID

OG0004163

Physical Location & Seq

Genomic Coordinates Forward (+)

15474958 .. 15479547

Gene Structure 4590 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5BG151600.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1266 bp

ATGGCAACGGCTTTCTCTTTTGCCCAAACTGTTCTCTTCTCCAAAACATCACTCTCTCTCCGCACCAATGCCCTCAAAAGCTTAACCTTCTGCCTACCTTTCTCTTCTTCTTCTGCAGCTCTTAATAAGCCTCACAGCAAAAAATGGAGGCAGCCAGTGACTTCGGCGCTGGAGCTCGGCGGCGTCAAGATTGCTAAAGATGATGTGTTGAGGGATGACCCCACAAACAATGTTCCGGATACAATTTTTGCAAAGCTTGGAATGCAACTGCACAGAAGAGATCAGCACCCACTTGGAATTCTGAAGAATGCCATATACGAATACATTGACACCAATTACTCAAACAAGTTTGATAAGTTCGATGATCTTTGCCCACTTGTATCTGTTAAGGAGAATTTTGATGATGTATTAGTTCCTGCTGATCACGTGAGTCGAAGTTATAATGATACATACTATGTGGACTCTCAAACAGTTTTGAGGTGCCATACAAGTGCTCATCAGGCAGAGTTATTGAGAAGAGGACATACTCATTTCCTTGTAACTGGAGATGTGTACCGTAGGGATTCCATCGACTCTACACATTACCCTGTGTTCCATCAGATGGAAGGGGTTCGTGTTTTTTCTCCAGAAGATTGGGCAGCATCTGGGACAGATGCAACATCTTATGTAGCTGAGGACTTGAAGAAATGCCTTGAGGGCTTGGCACGCCACCTATTTGGTGCTGTGGAGATGCGCTGGGTTGATACATACTTTCCATTTACCAATCCATCATTTGAACTTGAGATTTTCTTTCAGGAAAAGTGGTTGGAGGTTCTGGGTTGCGGAGTAACAGAACAAGAAATATTGAAGAGAAGTGGCAAAACAGACAATGTTGCTTGGGCTTTCGGACTTGGATTGGAGCGGCTGGCAATGGTTCTATTTGAAATCCCTGATATTCGTCTTTTCTGGTCAACTGATGAGAGGTTTACCTCGCAGTTTTTGAAAGGGCAGCTGGGAGTCAAGTTCAAGCCATATTCGAAGTATCCTCCGTGTTACAAAGATGTTAGTTTTTGGATCAGTGAATTTTTCACCGAAAACAATTTATGTGAAGTTGTTAGAGAGGTTGCTGGTGATCTTGCTGAGGAGGTGCAATTGATAGACAATTTCACAAACAAGAAAGGAATGACCAGTCACTGTTACAGGATTGCGTATAGGTCCATGGAACGGTCACTTACAGATGAGGAGATCAATAAGTTGCAGGTAGTTCAGATACATACGAGGCCATGA

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

421

Amino Acids

48.29

Weight (kDa)

5.93

Isoelectric Point (pI)

37.24

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
tRNA-synt_2d	PF01409	108 - 326	8.8e-49	tRNA synthetases class II core domain (F)
FDX-ACB	PF03147	339 - 412	5.6e-17	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)	441
Acc36I	ACCTGC	1 cut(s)	1228
AccB1I	GGYRCC	1 cut(s)	480
AccB7I	CCANNNNNTGG	1 cut(s)	601
AccBSI	CCGCTC	1 cut(s)	901
AccIII	TCCGGA	1 cut(s)	235
AciI	CCGC	4 cut(s)	61, 180, 822, 901
AclWI	GGATC	1 cut(s)	1061
AcsI	RAATTY	3 cut(s)	297, 394, 1061
AcuI	CTGAAG	1 cut(s)	323
AcvI	CACGTG	1 cut(s)	427
AcyI	GRCGYC	1 cut(s)	183
AfaI	GTAC	1 cut(s)	554
AfiI	CCNNNNNNNGG	2 cut(s)	601, 1203
AgsI	TTSAA	6 cut(s)	682, 776, 847, 923, 982, 1006
AluBI	AGCT	6 cut(s)	81, 119, 175, 256, 671, 991
AluI	AGCT	6 cut(s)	81, 119, 175, 256, 671, 991
Alw21I	GWGCWC	2 cut(s)	177, 496
AlwI	GGATC	1 cut(s)	1061
AlwNI	CAGNNNCTG	2 cut(s)	644, 1173
Aor13HI	TCCGGA	1 cut(s)	235
AoxI	GGCC	1 cut(s)	1259
ApeKI	GCWGC	4 cut(s)	116, 151, 638, 988
ApoI	RAATTY	3 cut(s)	297, 394, 1061
Asp700I	GAANNNNTTC	1 cut(s)	609
AspLEI	GCGC	2 cut(s)	169, 735
AspS9I	GGNCC	1 cut(s)	1194
AsuHPI	GGTGA	2 cut(s)	1060, 1121
AsuII	TTCGAA	1 cut(s)	1016
AvaII	GGWCC	1 cut(s)	1194
BanI	GGYRCC	1 cut(s)	480
BanII	GRGCYC	1 cut(s)	177
BarI	GAAGNNNNNNTAC	2 cut(s)	508, 540
BbrPI	CACGTG	1 cut(s)	427
Bbv12I	GWGCWC	2 cut(s)	177, 496
BbvCI	CCTCAGC	2 cut(s)	672, 1119
BbvI	GCAGC	4 cut(s)	128, 163, 650, 1000
BccI	CCATC	4 cut(s)	575, 595, 603, 775
BceAI	ACGGC	1 cut(s)	24
BciVI	GTATCC	2 cut(s)	232, 1032
BclI	TGATCA	1 cut(s)	421
BfmI	CTRYAG	1 cut(s)	114
BfoI	RGCGCY	1 cut(s)	170
BfuAI	ACCTGC	1 cut(s)	1228
BfuI	GTATCC	2 cut(s)	232, 1032
BglI	GCCNNNNNGGC	1 cut(s)	696
BisI	GCNGC	6 cut(s)	117, 152, 181, 639, 902, 989
BlsI	GCNGC	6 cut(s)	118, 153, 182, 640, 903, 990
Bme18I	GGWCC	1 cut(s)	1194
BmgT120I	GGNCC	1 cut(s)	1194
BmiI	GGNNCC	1 cut(s)	482
BmsI	GCATC	3 cut(s)	643, 650, 720
BpmI	CTGGAG	3 cut(s)	191, 564, 609
Bpu10I	CCTNAGC	2 cut(s)	672, 1119
Bpu14I	TTCGAA	1 cut(s)	1016
BpuEI	CTTGAG	2 cut(s)	713, 800
BsaAI	YACGTR	1 cut(s)	427
BsaHI	GRCGYC	1 cut(s)	183
BsaJI	CCNNGG	1 cut(s)	1197
BsaWI	WCCGGW	1 cut(s)	235
BsaXI	ACNNNNNCTCC	2 cut(s)	42, 72
Bsc4I	CCNNNNNNNGG	2 cut(s)	601, 1203
Bse1I	ACTGG	3 cut(s)	155, 547, 1167
Bse3DI	GCAATG	1 cut(s)	915
BseAI	TCCGGA	1 cut(s)	235
BseDI	CCNNGG	1 cut(s)	1197
BseGI	GGATG	1 cut(s)	220
BseLI	CCNNNNNNNGG	2 cut(s)	601, 1203
BseMI	GCAATG	1 cut(s)	915
BseMII	CTCAG	2 cut(s)	663, 1110
BseNI	ACTGG	3 cut(s)	155, 547, 1167
BseRI	GAGGAG	2 cut(s)	1136, 1235
BseXI	GCAGC	4 cut(s)	128, 163, 650, 1000
BseYI	CCCAGC	2 cut(s)	735, 991
BsgI	GTGCAG	1 cut(s)	254
BshFI	GGCC	1 cut(s)	1261
BshNI	GGYRCC	1 cut(s)	480
BsiHKAI	GWGCWC	2 cut(s)	177, 496
BsiSI	CCGG	1 cut(s)	236
BslFI	GGGAC	1 cut(s)	661
BslI	CCNNNNNNNGG	2 cut(s)	601, 1203
BsmFI	GGGAC	1 cut(s)	661
BsmI	GAATGC	2 cut(s)	267, 313
BsnI	GGCC	1 cut(s)	1261
Bsp119I	TTCGAA	1 cut(s)	1016
Bsp1286I	GDGCHC	2 cut(s)	177, 496
Bsp13I	TCCGGA	1 cut(s)	235
Bsp143I	GATC	6 cut(s)	280, 364, 421, 1053, 1111, 1224
Bsp19I	CCATGG	1 cut(s)	1197
BspACI	CCGC	4 cut(s)	61, 180, 822, 901
BspANI	GGCC	1 cut(s)	1261
BspCNI	CTCAG	2 cut(s)	664, 1111
BspEI	TCCGGA	1 cut(s)	235
BspLI	GGNNCC	1 cut(s)	482
BspMAI	CTGCAG	1 cut(s)	118
BspMI	ACCTGC	1 cut(s)	1228
BspPI	GGATC	1 cut(s)	1061
BspT104I	TTCGAA	1 cut(s)	1016
BspT107I	GGYRCC	1 cut(s)	480
BsrBI	CCGCTC	1 cut(s)	901
BsrDI	GCAATG	1 cut(s)	915
BsrI	ACTGG	3 cut(s)	155, 547, 1167
BssECI	CCNNGG	1 cut(s)	1197
BssMI	GATC	6 cut(s)	280, 364, 421, 1053, 1111, 1224
BssNI	GRCGYC	1 cut(s)	183
BssT1I	CCWWGG	1 cut(s)	1197
Bst4CI	ACNGT	5 cut(s)	31, 472, 557, 1175, 1206
Bst6I	CTCTTC	5 cut(s)	41, 109, 271, 511, 842
BstACI	GRCGYC	1 cut(s)	183
BstBAI	YACGTR	1 cut(s)	427
BstBI	TTCGAA	1 cut(s)	1016
BstC8I	GCNNGC	2 cut(s)	706, 906
BstDEI	CTNAG	2 cut(s)	672, 1119
BstDSI	CCRYGG	1 cut(s)	1197
BstF5I	GGATG	1 cut(s)	220
BstH2I	RGCGCY	1 cut(s)	170
BstHHI	GCGC	2 cut(s)	169, 735
BstKTI	GATC	6 cut(s)	283, 367, 424, 1056, 1114, 1227
BstMBI	GATC	6 cut(s)	280, 364, 421, 1053, 1111, 1224
BstMWI	GCNNNNNNNGC	4 cut(s)	262, 500, 696, 705
BstSFI	CTRYAG	1 cut(s)	114
BstV1I	GCAGC	4 cut(s)	128, 163, 650, 1000
BstXI	CCANNNNNNTGG	2 cut(s)	633, 716
BsuI	GTATCC	2 cut(s)	232, 1032
BsuRI	GGCC	1 cut(s)	1261
BtgI	CCRYGG	1 cut(s)	1197
BtsCI	GGATG	1 cut(s)	220
BtsIMutI	CAGTG	3 cut(s)	162, 1063, 1171
BveI	ACCTGC	1 cut(s)	1228
Cac8I	GCNNGC	2 cut(s)	706, 906
CaiI	CAGNNNCTG	2 cut(s)	644, 1173
CfoI	GCGC	2 cut(s)	169, 735
Cfr13I	GGNCC	1 cut(s)	1194
CseI	GACGC	1 cut(s)	172
Csp6I	GTAC	1 cut(s)	553
CviAII	CATG	2 cut(s)	1198, 1263
CviQI	GTAC	1 cut(s)	553
DdeI	CTNAG	2 cut(s)	672, 1119
DpnI	GATC	6 cut(s)	282, 366, 423, 1055, 1113, 1226
DpnII	GATC	6 cut(s)	280, 364, 421, 1053, 1111, 1224
Eam1104I	CTCTTC	5 cut(s)	41, 109, 271, 511, 842
EarI	CTCTTC	5 cut(s)	41, 109, 271, 511, 842
Ecl136II	GAGCTC	1 cut(s)	175
Eco130I	CCWWGG	1 cut(s)	1197
Eco24I	GRGCYC	1 cut(s)	177
Eco47I	GGWCC	1 cut(s)	1194
Eco53kI	GAGCTC	1 cut(s)	175
Eco57I	CTGAAG	1 cut(s)	323
Eco72I	CACGTG	1 cut(s)	427
EcoICRI	GAGCTC	1 cut(s)	175
EcoRI	GAATTC	1 cut(s)	297
EcoT14I	CCWWGG	1 cut(s)	1197
EcoT38I	GRGCYC	1 cut(s)	177
ErhI	CCWWGG	1 cut(s)	1197
FaeI	CATG	2 cut(s)	1201, 1266
FaqI	GGGAC	1 cut(s)	661
FatI	CATG	2 cut(s)	1197, 1262
FbaI	TGATCA	1 cut(s)	421
Fnu4HI	GCNGC	6 cut(s)	117, 152, 181, 639, 902, 989
FokI	GGATG	1 cut(s)	227
FriOI	GRGCYC	1 cut(s)	177
Fsp4HI	GCNGC	6 cut(s)	117, 152, 181, 639, 902, 989
GlaI	GCGC	2 cut(s)	168, 734
GluI	GCNGC	6 cut(s)	117, 152, 181, 639, 902, 989
GsaI	CCCAGC	2 cut(s)	739, 995
GsuI	CTGGAG	3 cut(s)	191, 564, 609
HaeII	RGCGCY	1 cut(s)	170
HaeIII	GGCC	1 cut(s)	1261
HapII	CCGG	1 cut(s)	236
HgaI	GACGC	1 cut(s)	172
HhaI	GCGC	2 cut(s)	169, 735
Hin1I	GRCGYC	1 cut(s)	183
Hin1II	CATG	2 cut(s)	1201, 1266
Hin6I	GCGC	2 cut(s)	167, 733
HinP1I	GCGC	2 cut(s)	167, 733
HincII	GTYRAC	1 cut(s)	951
HindII	GTYRAC	1 cut(s)	951
HindIII	AAGCTT	2 cut(s)	79, 254
HinfI	GANTC	5 cut(s)	430, 461, 563, 572, 996
HpaII	CCGG	1 cut(s)	236
HphI	GGTGA	2 cut(s)	1060, 1121
Hpy166II	GTNNAC	4 cut(s)	460, 553, 951, 966
Hpy188I	TCNGA	4 cut(s)	303, 600, 887, 1248
Hpy188III	TCNNGA	4 cut(s)	187, 236, 626, 794
Hpy8I	GTNNAC	4 cut(s)	460, 553, 951, 966
HpyAV	CCTTC	2 cut(s)	97, 599
HpyCH4III	ACNGT	5 cut(s)	31, 472, 557, 1175, 1206
HpyCH4IV	ACGT	1 cut(s)	426
HpyCH4V	TGCA	7 cut(s)	116, 251, 265, 271, 656, 1129, 1237
HpyF10VI	GCNNNNNNNGC	4 cut(s)	262, 500, 696, 705
HpyF3I	CTNAG	2 cut(s)	672, 1119
HpySE526I	ACGT	1 cut(s)	426
Hsp92I	GRCGYC	1 cut(s)	183
Hsp92II	CATG	2 cut(s)	1201, 1266
HspAI	GCGC	2 cut(s)	167, 733
Kpn2I	TCCGGA	1 cut(s)	235
Ksp22I	TGATCA	1 cut(s)	421
Kzo9I	GATC	6 cut(s)	280, 364, 421, 1053, 1111, 1224
LmnI	GCTCC	2 cut(s)	172, 898
Lsp1109I	GCAGC	4 cut(s)	128, 163, 650, 1000
LweI	GCATC	3 cut(s)	643, 650, 720
MaeII	ACGT	1 cut(s)	426
MaeIII	GTNAC	7 cut(s)	157, 538, 826, 1031, 1169, 1175, 1206
MalI	GATC	6 cut(s)	282, 366, 423, 1055, 1113, 1226
MbiI	CCGCTC	1 cut(s)	901
MboI	GATC	6 cut(s)	280, 364, 421, 1053, 1111, 1224
MfeI	CAATTG	1 cut(s)	1130
MhlI	GDGCHC	2 cut(s)	177, 496
MluCI	AATT	8 cut(s)	243, 297, 334, 394, 1061, 1078, 1130, 1141
MlyI	GAGTC	4 cut(s)	439, 455, 566, 1005
MmeI	TCCRAC	1 cut(s)	786
MroI	TCCGGA	1 cut(s)	235
MroXI	GAANNNNTTC	1 cut(s)	609
MseI	TTAA	3 cut(s)	83, 123, 387
MslI	CAYNNNNRTG	1 cut(s)	489
MspA1I	CMGCKG	1 cut(s)	991
MspI	CCGG	1 cut(s)	236
MunI	CAATTG	1 cut(s)	1130
Mva1269I	GAATGC	2 cut(s)	267, 313
MwoI	GCNNNNNNNGC	4 cut(s)	262, 500, 696, 705
NcoI	CCATGG	1 cut(s)	1197
NdeII	GATC	6 cut(s)	280, 364, 421, 1053, 1111, 1224
NlaIII	CATG	2 cut(s)	1201, 1266
NlaIV	GGNNCC	1 cut(s)	482
NmeAIII	GCCGAG	1 cut(s)	156
NmuCI	GTSAC	3 cut(s)	157, 1169, 1206
NspV	TTCGAA	1 cut(s)	1016
PctI	GAATGC	2 cut(s)	267, 313
PdmI	GAANNNNTTC	1 cut(s)	609
PfeI	GAWTC	1 cut(s)	563
PflMI	CCANNNNNTGG	1 cut(s)	601
PkrI	GCNGC	6 cut(s)	118, 153, 182, 640, 903, 990
PleI	GAGTC	4 cut(s)	438, 455, 566, 1004
PmaCI	CACGTG	1 cut(s)	427
PmlI	CACGTG	1 cut(s)	427
PpsI	GAGTC	4 cut(s)	438, 455, 566, 1004
Ppu21I	YACGTR	1 cut(s)	427
PsiI	TTATAA	1 cut(s)	441
Psp124BI	GAGCTC	1 cut(s)	177
PspCI	CACGTG	1 cut(s)	427
PspFI	CCCAGC	2 cut(s)	735, 991
PspN4I	GGNNCC	1 cut(s)	482
PspPI	GGNCC	1 cut(s)	1194
PstI	CTGCAG	1 cut(s)	118
PstNI	CAGNNNCTG	2 cut(s)	644, 1173
PvuII	CAGCTG	1 cut(s)	991
RsaI	GTAC	1 cut(s)	554
RsaNI	GTAC	1 cut(s)	553
RseI	CAYNNNNRTG	1 cut(s)	489
SacI	GAGCTC	1 cut(s)	177
SaqAI	TTAA	3 cut(s)	83, 123, 387
SatI	GCNGC	6 cut(s)	117, 152, 181, 639, 902, 989
Sau3AI	GATC	6 cut(s)	280, 364, 421, 1053, 1111, 1224
Sau96I	GGNCC	1 cut(s)	1194
SchI	GAGTC	4 cut(s)	439, 455, 566, 1005
SduI	GDGCHC	2 cut(s)	177, 496
SfaNI	GCATC	3 cut(s)	643, 650, 720
SfcI	CTRYAG	1 cut(s)	114
SfuI	TTCGAA	1 cut(s)	1016
SinI	GGWCC	1 cut(s)	1194
SmiMI	CAYNNNNRTG	1 cut(s)	489
SmlI	CTYRAG	2 cut(s)	692, 779
SmoI	CTYRAG	2 cut(s)	692, 779
Sse9I	AATT	8 cut(s)	243, 297, 334, 394, 1061, 1078, 1130, 1141
SsiI	CCGC	4 cut(s)	61, 180, 822, 901
SspI	AATATT	1 cut(s)	843
SstI	GAGCTC	1 cut(s)	177
StyI	CCWWGG	1 cut(s)	1197
TaaI	ACNGT	5 cut(s)	31, 472, 557, 1175, 1206
TaiI	ACGT	1 cut(s)	429
TaqI	TCGA	4 cut(s)	360, 433, 570, 1016
TasI	AATT	8 cut(s)	243, 297, 334, 394, 1061, 1078, 1130, 1141
TauI	GCSGC	2 cut(s)	183, 904
TfiI	GAWTC	1 cut(s)	563
Tru1I	TTAA	3 cut(s)	83, 123, 387
Tru9I	TTAA	3 cut(s)	83, 123, 387
TscAI	CASTG	3 cut(s)	162, 1063, 1178
TseFI	GTSAC	3 cut(s)	157, 1169, 1206
TseI	GCWGC	4 cut(s)	116, 151, 638, 988
Tsp45I	GTSAC	3 cut(s)	157, 1169, 1206
TspGWI	ACGGA	1 cut(s)	1017
TspRI	CASTG	3 cut(s)	162, 1063, 1178
Van91I	CCANNNNNTGG	1 cut(s)	601
VpaK11BI	GGWCC	1 cut(s)	1194
XapI	RAATTY	3 cut(s)	297, 394, 1061
XmnI	GAANNNNTTC	1 cut(s)	609

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