Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000001

Orthogroup ID

OG0004163

Physical Location & Seq

Genomic Coordinates Reverse (-)

79631177 .. 79635845

Gene Structure 4669 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_1G00057630.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1266 bp

ATGGCAACGGCTTTCTCTTTTTGCCCAAACTCTTTTGCCTCTGATAAGCCTCACAGCAAAAAATGGAGGCAGCCAGTGACATCGGCGCTGGAGCTCGGCGGCGTCAAGATTGCTAAAGAGGGTAACTTTCACTATTTTCTTCATCCTTTTGAGCTTCTTATTGCTAAAGATGTTTGGTTGTTTGAAAGATATGTTGAAAGAGTGCCCCAGAAACAAGTTCTGGATACAGTTTCTGCAAGGCTCTTGCTTGCTTTTAAAAAAAGAGATCAGCACCCACTTGGAATTCTGAAGAATGCCATATACGAATACTTTGACACCAATTACTCAAACAAGTTTGATAAGTTCGATGATCTTTGCCCACTTGTATCTGTTAAGGAGAATTTTGATGATGTATTAGTTCCTGCTGATCACGTGAGTCGAAGTTATAATGATACATACTATGTGGACTCTCAAACAGTTTTGAGGTGCCATACAAGTGCTCATCAGGCAGAGTTATTGAGAAGAGGACATACTCATTTCCTTGTAACTGGAGATGTGTACCGTAGGGATTCCATCGACTCTACACATTACCCTGTATGGGAAGGGGGTTCGTGTTTTTCTCCAGAAGACTGGGCAGCATCTGGGACAGATGCAACATCTTATGTAGCTGAGGACTTGAAGAAATGCCTTGAGGGCTTGGCACGCCACCTATTTGGTGCTGTGGAGATGCGCTGGGTTGATACATACTTTCCATTTACCAATCCATCATTTGAACTTGAGATTTTCTTTCAGGAAAAGTGGTTGGAGGTTCTGGGTTGCGGAGTGACAGAACAAGAAATATTGAAGAGAAGTGGCAATACAGACAATGTTGCTTGGGCTTTCGGACTTGGATTGGAGCGGCTGGCAATGGTTCTATTTGAAATCCCTGATATTCGCCTTTTCTGGTCAACTGATGAGAGGTTTACCTCGCAGTTTTTGAAAGGGCAGCTGGGAGTCAAGTTCAAGCCATATTCGAAGTATCCTCCGTGTTACAAAGATGTTAGTTTTTGGATCAGTGAATCTTTCACCGAAAACAATTTATGTGAAGTTGTTAGAGAGGTTGCTGGTGATCTTGCTGAGGAGGTGCAATTGATAGACAATTTCACAAACAAGAAAGGAATGACCAGTCACTGTTACAGGATTGCGTATAGGTCCATGGAACGGTCACTTACAGACGAGGAGATCAATAAGTTGCAGGGTACTGTAAGAGAGTTGGTTGAGAGCAAGCTGAAGGTGGTCTTGAGATGA

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

48.63

Weight (kDa)

5.71

Isoelectric Point (pI)

36.67

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
tRNA-synt_2d	PF01409	91 - 318	9.9e-45	tRNA synthetases class II core domain (F)
FDX-ACB	PF03147	331 - 421	1.3e-21	Ferredoxin-fold anticodon binding 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: 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)	426
AccB1I	GGYRCC	1 cut(s)	465
AccBSI	CCGCTC	1 cut(s)	877
AciI	CCGC	3 cut(s)	99, 798, 877
AclWI	GGATC	1 cut(s)	1037
AcsI	RAATTY	2 cut(s)	282, 379
AcuI	CTGAAG	1 cut(s)	308
AcvI	CACGTG	1 cut(s)	412
AcyI	GRCGYC	1 cut(s)	102
AfaI	GTAC	2 cut(s)	539, 1219
AfiI	CCNNNNNNNGG	2 cut(s)	577, 1179
AgsI	TTSAA	8 cut(s)	185, 197, 658, 752, 823, 899, 958, 982
AluBI	AGCT	5 cut(s)	94, 154, 647, 967, 1246
AluI	AGCT	5 cut(s)	94, 154, 647, 967, 1246
Alw21I	GWGCWC	2 cut(s)	96, 481
AlwI	GGATC	1 cut(s)	1037
AlwNI	CAGNNNCTG	3 cut(s)	233, 620, 1149
ApeKI	GCWGC	3 cut(s)	70, 614, 964
ApoI	RAATTY	2 cut(s)	282, 379
AspLEI	GCGC	2 cut(s)	88, 711
AspS9I	GGNCC	1 cut(s)	1170
AsuHPI	GGTGA	2 cut(s)	1036, 1097
AsuII	TTCGAA	1 cut(s)	992
AvaII	GGWCC	1 cut(s)	1170
BaeGI	GKGCMC	1 cut(s)	207
BanI	GGYRCC	1 cut(s)	465
BanII	GRGCYC	1 cut(s)	96
BarI	GAAGNNNNNNTAC	4 cut(s)	493, 525, 820, 852
BbrPI	CACGTG	1 cut(s)	412
BbsI	GAAGAC	1 cut(s)	612
Bbv12I	GWGCWC	2 cut(s)	96, 481
BbvCI	CCTCAGC	2 cut(s)	648, 1095
BbvI	GCAGC	3 cut(s)	82, 626, 976
BccI	CCATC	2 cut(s)	560, 751
BceAI	ACGGC	1 cut(s)	24
BciVI	GTATCC	2 cut(s)	217, 1008
BclI	TGATCA	1 cut(s)	406
BfoI	RGCGCY	1 cut(s)	89
BfuI	GTATCC	2 cut(s)	217, 1008
BglI	GCCNNNNNGGC	1 cut(s)	672
BisI	GCNGC	5 cut(s)	71, 100, 615, 878, 965
BlsI	GCNGC	5 cut(s)	72, 101, 616, 879, 966
Bme18I	GGWCC	1 cut(s)	1170
BmgT120I	GGNCC	1 cut(s)	1170
BmiI	GGNNCC	1 cut(s)	467
BmrI	ACTGGG	1 cut(s)	619
BmsI	GCATC	3 cut(s)	619, 626, 696
BmuI	ACTGGG	1 cut(s)	619
BpiI	GAAGAC	1 cut(s)	612
BpmI	CTGGAG	3 cut(s)	110, 549, 585
Bpu10I	CCTNAGC	2 cut(s)	648, 1095
Bpu14I	TTCGAA	1 cut(s)	992
BpuEI	CTTGAG	2 cut(s)	689, 776
BsaAI	YACGTR	1 cut(s)	412
BsaHI	GRCGYC	1 cut(s)	102
BsaJI	CCNNGG	1 cut(s)	1173
Bsc4I	CCNNNNNNNGG	2 cut(s)	577, 1179
Bse1I	ACTGG	4 cut(s)	74, 532, 614, 1143
Bse3DI	GCAATG	1 cut(s)	891
BseDI	CCNNGG	1 cut(s)	1173
BseGI	GGATG	1 cut(s)	142
BseLI	CCNNNNNNNGG	2 cut(s)	577, 1179
BseMI	GCAATG	1 cut(s)	891
BseMII	CTCAG	2 cut(s)	639, 1086
BseNI	ACTGG	4 cut(s)	74, 532, 614, 1143
BseRI	GAGGAG	2 cut(s)	1112, 1211
BseSI	GKGCMC	1 cut(s)	207
BseXI	GCAGC	3 cut(s)	82, 626, 976
BseYI	CCCAGC	2 cut(s)	711, 967
BshNI	GGYRCC	1 cut(s)	465
BsiHKAI	GWGCWC	2 cut(s)	96, 481
BslFI	GGGAC	1 cut(s)	637
BslI	CCNNNNNNNGG	2 cut(s)	577, 1179
BsmFI	GGGAC	1 cut(s)	637
BsmI	GAATGC	1 cut(s)	298
Bsp119I	TTCGAA	1 cut(s)	992
Bsp1286I	GDGCHC	3 cut(s)	96, 207, 481
Bsp143I	GATC	6 cut(s)	265, 349, 406, 1029, 1087, 1200
Bsp19I	CCATGG	1 cut(s)	1173
BspACI	CCGC	3 cut(s)	99, 798, 877
BspCNI	CTCAG	2 cut(s)	640, 1087
BspLI	GGNNCC	1 cut(s)	467
BspPI	GGATC	1 cut(s)	1037
BspT104I	TTCGAA	1 cut(s)	992
BspT107I	GGYRCC	1 cut(s)	465
BsrBI	CCGCTC	1 cut(s)	877
BsrDI	GCAATG	1 cut(s)	891
BsrI	ACTGG	4 cut(s)	74, 532, 614, 1143
BssECI	CCNNGG	1 cut(s)	1173
BssMI	GATC	6 cut(s)	265, 349, 406, 1029, 1087, 1200
BssNI	GRCGYC	1 cut(s)	102
BssT1I	CCWWGG	1 cut(s)	1173
Bst4CI	ACNGT	6 cut(s)	229, 457, 542, 1151, 1182, 1222
Bst6I	CTCTTC	2 cut(s)	496, 818
BstACI	GRCGYC	1 cut(s)	102
BstBAI	YACGTR	1 cut(s)	412
BstBI	TTCGAA	1 cut(s)	992
BstC8I	GCNNGC	4 cut(s)	249, 682, 882, 1244
BstDEI	CTNAG	2 cut(s)	648, 1095
BstDSI	CCRYGG	1 cut(s)	1173
BstF5I	GGATG	1 cut(s)	142
BstH2I	RGCGCY	1 cut(s)	89
BstHHI	GCGC	2 cut(s)	88, 711
BstKTI	GATC	6 cut(s)	268, 352, 409, 1032, 1090, 1203
BstMBI	GATC	6 cut(s)	265, 349, 406, 1029, 1087, 1200
BstMWI	GCNNNNNNNGC	3 cut(s)	485, 672, 681
BstSLI	GKGCMC	1 cut(s)	207
BstV1I	GCAGC	3 cut(s)	82, 626, 976
BstV2I	GAAGAC	1 cut(s)	612
BstXI	CCANNNNNNTGG	2 cut(s)	609, 692
BsuI	GTATCC	2 cut(s)	217, 1008
BtgI	CCRYGG	1 cut(s)	1173
BtsCI	GGATG	1 cut(s)	142
BtsIMutI	CAGTG	3 cut(s)	81, 1039, 1147
Cac8I	GCNNGC	4 cut(s)	249, 682, 882, 1244
CaiI	CAGNNNCTG	3 cut(s)	233, 620, 1149
CfoI	GCGC	2 cut(s)	88, 711
Cfr13I	GGNCC	1 cut(s)	1170
CseI	GACGC	1 cut(s)	91
Csp6I	GTAC	2 cut(s)	538, 1218
CviAII	CATG	1 cut(s)	1174
CviQI	GTAC	2 cut(s)	538, 1218
DdeI	CTNAG	2 cut(s)	648, 1095
DpnI	GATC	6 cut(s)	267, 351, 408, 1031, 1089, 1202
DpnII	GATC	6 cut(s)	265, 349, 406, 1029, 1087, 1200
DraI	TTTAAA	1 cut(s)	256
Eam1104I	CTCTTC	2 cut(s)	496, 818
EarI	CTCTTC	2 cut(s)	496, 818
Ecl136II	GAGCTC	1 cut(s)	94
Eco130I	CCWWGG	1 cut(s)	1173
Eco24I	GRGCYC	1 cut(s)	96
Eco47I	GGWCC	1 cut(s)	1170
Eco53kI	GAGCTC	1 cut(s)	94
Eco57I	CTGAAG	1 cut(s)	308
Eco72I	CACGTG	1 cut(s)	412
EcoICRI	GAGCTC	1 cut(s)	94
EcoRI	GAATTC	1 cut(s)	282
EcoT14I	CCWWGG	1 cut(s)	1173
EcoT38I	GRGCYC	1 cut(s)	96
ErhI	CCWWGG	1 cut(s)	1173
FaeI	CATG	1 cut(s)	1177
FalI	AAGNNNNNCTT	1 cut(s)	1241
FaqI	GGGAC	1 cut(s)	637
FatI	CATG	1 cut(s)	1173
FbaI	TGATCA	1 cut(s)	406
Fnu4HI	GCNGC	5 cut(s)	71, 100, 615, 878, 965
FokI	GGATG	1 cut(s)	129
FriOI	GRGCYC	1 cut(s)	96
Fsp4HI	GCNGC	5 cut(s)	71, 100, 615, 878, 965
GlaI	GCGC	2 cut(s)	87, 710
GluI	GCNGC	5 cut(s)	71, 100, 615, 878, 965
GsaI	CCCAGC	2 cut(s)	715, 971
GsuI	CTGGAG	3 cut(s)	110, 549, 585
HaeII	RGCGCY	1 cut(s)	89
HgaI	GACGC	1 cut(s)	91
HhaI	GCGC	2 cut(s)	88, 711
Hin1I	GRCGYC	1 cut(s)	102
Hin1II	CATG	1 cut(s)	1177
Hin6I	GCGC	2 cut(s)	86, 709
HinP1I	GCGC	2 cut(s)	86, 709
HincII	GTYRAC	1 cut(s)	927
HindII	GTYRAC	1 cut(s)	927
HinfI	GANTC	6 cut(s)	415, 446, 548, 557, 972, 1037
HphI	GGTGA	2 cut(s)	1036, 1097
Hpy166II	GTNNAC	4 cut(s)	445, 538, 927, 942
Hpy188I	TCNGA	3 cut(s)	43, 288, 863
Hpy188III	TCNNGA	5 cut(s)	106, 221, 602, 770, 1258
Hpy8I	GTNNAC	4 cut(s)	445, 538, 927, 942
HpyAV	CCTTC	2 cut(s)	575, 1243
HpyCH4III	ACNGT	6 cut(s)	229, 457, 542, 1151, 1182, 1222
HpyCH4IV	ACGT	1 cut(s)	411
HpyCH4V	TGCA	4 cut(s)	236, 632, 1105, 1213
HpyF10VI	GCNNNNNNNGC	3 cut(s)	485, 672, 681
HpyF3I	CTNAG	2 cut(s)	648, 1095
HpySE526I	ACGT	1 cut(s)	411
Hsp92I	GRCGYC	1 cut(s)	102
Hsp92II	CATG	1 cut(s)	1177
HspAI	GCGC	2 cut(s)	86, 709
Ksp22I	TGATCA	1 cut(s)	406
Kzo9I	GATC	6 cut(s)	265, 349, 406, 1029, 1087, 1200
LmnI	GCTCC	2 cut(s)	91, 874
Lsp1109I	GCAGC	3 cut(s)	82, 626, 976
LweI	GCATC	3 cut(s)	619, 626, 696
MaeII	ACGT	1 cut(s)	411
MaeIII	GTNAC	8 cut(s)	76, 122, 523, 802, 1007, 1145, 1151, 1182
MalI	GATC	6 cut(s)	267, 351, 408, 1031, 1089, 1202
MbiI	CCGCTC	1 cut(s)	877
MboI	GATC	6 cut(s)	265, 349, 406, 1029, 1087, 1200
MboII	GAAGA	6 cut(s)	131, 301, 513, 617, 670, 835
MfeI	CAATTG	1 cut(s)	1106
MhlI	GDGCHC	3 cut(s)	96, 207, 481
MluCI	AATT	6 cut(s)	282, 319, 379, 1054, 1106, 1117
MlyI	GAGTC	4 cut(s)	424, 440, 551, 981
MmeI	TCCRAC	1 cut(s)	762
MseI	TTAA	2 cut(s)	255, 372
MslI	CAYNNNNRTG	1 cut(s)	474
MspA1I	CMGCKG	1 cut(s)	967
MunI	CAATTG	1 cut(s)	1106
Mva1269I	GAATGC	1 cut(s)	298
MwoI	GCNNNNNNNGC	3 cut(s)	485, 672, 681
NcoI	CCATGG	1 cut(s)	1173
NdeII	GATC	6 cut(s)	265, 349, 406, 1029, 1087, 1200
NlaIII	CATG	1 cut(s)	1177
NlaIV	GGNNCC	1 cut(s)	467
NmeAIII	GCCGAG	1 cut(s)	75
NmuCI	GTSAC	4 cut(s)	76, 802, 1145, 1182
NspV	TTCGAA	1 cut(s)	992
PctI	GAATGC	1 cut(s)	298
PfeI	GAWTC	2 cut(s)	548, 1037
PkrI	GCNGC	5 cut(s)	72, 101, 616, 879, 966
PleI	GAGTC	4 cut(s)	423, 440, 551, 980
PmaCI	CACGTG	1 cut(s)	412
PmlI	CACGTG	1 cut(s)	412
PpsI	GAGTC	4 cut(s)	423, 440, 551, 980
Ppu21I	YACGTR	1 cut(s)	412
PsiI	TTATAA	1 cut(s)	426
Psp124BI	GAGCTC	1 cut(s)	96
PspCI	CACGTG	1 cut(s)	412
PspFI	CCCAGC	2 cut(s)	711, 967
PspN4I	GGNNCC	1 cut(s)	467
PspPI	GGNCC	1 cut(s)	1170
PstNI	CAGNNNCTG	3 cut(s)	233, 620, 1149
PvuII	CAGCTG	1 cut(s)	967
RsaI	GTAC	2 cut(s)	539, 1219
RsaNI	GTAC	2 cut(s)	538, 1218
RseI	CAYNNNNRTG	1 cut(s)	474
SacI	GAGCTC	1 cut(s)	96
SaqAI	TTAA	2 cut(s)	255, 372
SatI	GCNGC	5 cut(s)	71, 100, 615, 878, 965
Sau3AI	GATC	6 cut(s)	265, 349, 406, 1029, 1087, 1200
Sau96I	GGNCC	1 cut(s)	1170
SchI	GAGTC	4 cut(s)	424, 440, 551, 981
SduI	GDGCHC	3 cut(s)	96, 207, 481
SfaNI	GCATC	3 cut(s)	619, 626, 696
SfuI	TTCGAA	1 cut(s)	992
SinI	GGWCC	1 cut(s)	1170
SmiMI	CAYNNNNRTG	1 cut(s)	474
SmlI	CTYRAG	3 cut(s)	668, 755, 1258
SmoI	CTYRAG	3 cut(s)	668, 755, 1258
Sse9I	AATT	6 cut(s)	282, 319, 379, 1054, 1106, 1117
SsiI	CCGC	3 cut(s)	99, 798, 877
SspI	AATATT	1 cut(s)	819
SstI	GAGCTC	1 cut(s)	96
StyI	CCWWGG	1 cut(s)	1173
TaaI	ACNGT	6 cut(s)	229, 457, 542, 1151, 1182, 1222
TaiI	ACGT	1 cut(s)	414
TaqI	TCGA	4 cut(s)	345, 418, 555, 992
TasI	AATT	6 cut(s)	282, 319, 379, 1054, 1106, 1117
TauI	GCSGC	2 cut(s)	102, 880
TfiI	GAWTC	2 cut(s)	548, 1037
Tru1I	TTAA	2 cut(s)	255, 372
Tru9I	TTAA	2 cut(s)	255, 372
TscAI	CASTG	3 cut(s)	81, 1039, 1154
TseFI	GTSAC	4 cut(s)	76, 802, 1145, 1182
TseI	GCWGC	3 cut(s)	70, 614, 964
Tsp45I	GTSAC	4 cut(s)	76, 802, 1145, 1182
TspDTI	ATGAA	1 cut(s)	131
TspGWI	ACGGA	1 cut(s)	993
TspRI	CASTG	3 cut(s)	81, 1039, 1154
VpaK11BI	GGWCC	1 cut(s)	1170
XapI	RAATTY	2 cut(s)	282, 379

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