Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000004

Orthogroup ID

OG0001659

Physical Location & Seq

Genomic Coordinates Forward (+)

48159918 .. 48161871

Gene Structure 1954 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_4G00319950.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1221 bp

ATGGCTACATCTGAGAGCTTCTTCTCCATCTTTGCTCTTTTAGGTTTTGGTAAAGTCGTCTTCTTTAATGGTTTCAGAGCTTTGGGGACATCATCTAAGAGCTTTGATGAAAAAAGATTTGGTGGTGGATCTGGAACTGTAAGAGCTACTTGGGGAAATAAAGGCACGGTAGATCTACCGGAGGCTGAGGTTGGAAAGGTGAAGTTGAGGTTTGCGCCGGAACCAAGTGGTTATCTTCACATTGGGCACTCGAAAGCAGCTTTACTGAATCAGTATTTTGCTCAGCGGTATCAAGAAAGCAATGAGTTTGTGGATAATCTTCTCAAAGATATTCAGACTTTGGGTATCAAGTATGAGGAGGTTACCTATACTTCAGATCACTTCGTTAAGTTGATGGATATGACCGAGATGCTGATTAACCAAGGTAAAGCATATGTCGACGATACACCTAGAGAAGAGATGAAAAAGCAACGGATGGATGGGATTGAGTCGAGGTGTAGAAACCACAGCAAAGACGAAAATTTGAAACTGTGGAAGGAGATGAAAGCAGGTTCAGAGAGGGGTCTGCAGTGTTGCGTTAGAGGGAAGCTGGACATGCAGGACCCTAATAAATCACTCAGAGATCCAGTTTGTTATCGTTGCAATCCAATGCCACATCATAGGAAAGAGATAGGGTCCAAGTACAAGGTCTACCCAACTTATGATTTCGCTTGTCCATTTGTTGACTCCATTCAAGGTATTACTCATGCCCTTCGATCTAGTGAATATCATGATCGCAACGCCCAGTACTATAGGATTCAAGAGGATATGGGACTGAGAAAAGTGCATGTGTATGAGTTCAGTAGGTTGAACATGGTCTATACACTCCTCACTCCTCAGCAAACGCAAGCTTTTGTGGTCAATGGATGGGATGATCCTCGATTCCCAACTGTTCTAGGCATCGTGCGTAGAGGTCTCAAAGTTGAAGCATTGATACAGTTCATTCTTGAGCAGCGGGCTTCAAAGAATCTGAATCTTATGGAATGGGATAAACTGTGGACTATTAATAAGAAGATTATTGATCCTGTATGCCCAAGACATACTGCAGTAATTGAAGAGGGACGAGTGCTATTGACTCTCTCTAATGGCCCTCAGAAGCCATTTATCCGCATGATACCAGGCATAAGAAGTATGAAGGTGCTGGAGAGAAGGCAACAACATTCACAAGGAGCATATGGATAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0002181 GO:0003674 GO:0003824 GO:0004812 GO:0004818 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005829 GO:0006082 GO:0006139 GO:0006399 GO:0006412 GO:0006418 GO:0006424 GO:0006518 GO:0006520 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009987 GO:0010467 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: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:0071704 GO:0090304 GO:0140098 GO:0140101 GO:1901360 GO:1901564 GO:1901566 GO:1901576

KEGG Pathways

Metabolic & Signaling

ko00860 ko00970 ko01100 ko01110 ko01120 map00860 map00970 map01100 map01110 map01120

Pfam Domains

Protein Families

GST_C GST_C_3 tRNA-synt_1c tRNA-synt_1c_C

Protein Analysis

406

Amino Acids

46.73

Weight (kDa)

9.22

Isoelectric Point (pI)

32.99

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
tRNA-synt_1c	PF00749	66 - 354	1.1e-75	tRNA synthetases class I (E and Q), catalytic 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: OG0001659)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G26710
fragaria_vesca	FvH4_1g07040 FvH4_3g18420 FvH4_5g29940 FvH4_5g29940 FvH4_6g08750
malus_domestica	MD04G1184100.v1.1 MD12G1197300.v1.1
prunus_persica	Prupe.6G302600_v2.0.a1 Prupe.6G302600_v2.0.a1
pyrus_communis	pycom04g16310
rosa_chinensis	RchiOBHm_Chr1g0323481 RchiOBHm_Chr1g0323531 RchiOBHm_Chr1g0330311 RchiOBHm_Chr1g0330321 RchiOBHm_Chr1g0330421 RchiOBHm_Chr1g0330431 RchiOBHm_Chr3g0459011
rosa_laevigata	RLG00000025126 RLG00000029811 RLG00000030323 RLG00000030332
rosa_multiflora	Rmu_co8493977.1_g000001 Rmu_sc0002634.1_g000044 Rmu_sc0004343.1_g000022 Rmu_sc0007290.1_g000009 Rmu_sc0007290.1_g000010
rosa_roxburghii	Rroxscaffold_4G00319950 Rroxscaffold_4G00319960 Rroxscaffold_6G00420600
rosa_rugosa	Rorug01G0088900 Rorug03G0032500 Rorug05G0414800
rosa_samantha	Rh1AG106700 Rh1AG106800 Rh1CG056600 Rh1CG057900 Rh1CG102700 Rh1CG102800 Rh1DG060600 Rh1DG061700 Rh1DG110600 Rh3BG093600 Rh5DG502200 Rh6BG457000 Rh6BG457100
rosa_wichuraiana	Rw1G008430 Rw1G008550 Rw3G007770

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	1 cut(s)	539
AccI	GTMKAC	2 cut(s)	438, 690
AciI	CCGC	3 cut(s)	286, 994, 1147
AclWI	GGATC	4 cut(s)	136, 617, 908, 1055
AcsI	RAATTY	1 cut(s)	520
AcuI	CTGAAG	1 cut(s)	357
AfaI	GTAC	2 cut(s)	683, 788
AgsI	TTSAA	7 cut(s)	526, 734, 800, 850, 965, 1002, 1094
AjnI	CCWGG	1 cut(s)	1156
AjuI	GAANNNNNNNTTGG	2 cut(s)	102, 134
AluBI	AGCT	7 cut(s)	18, 80, 102, 146, 260, 589, 890
AluI	AGCT	7 cut(s)	18, 80, 102, 146, 260, 589, 890
Alw26I	GTCTC	1 cut(s)	959
AlwI	GGATC	4 cut(s)	136, 617, 908, 1055
AoxI	GGCC	1 cut(s)	1126
ApeKI	GCWGC	2 cut(s)	257, 991
ApoI	RAATTY	1 cut(s)	520
AseI	ATTAAT	1 cut(s)	1044
AspLEI	GCGC	1 cut(s)	217
AspS9I	GGNCC	3 cut(s)	601, 675, 1127
AsuHPI	GGTGA	1 cut(s)	211
AvaII	GGWCC	2 cut(s)	601, 675
BaeGI	GKGCMC	1 cut(s)	249
BarI	GAAGNNNNNNTAC	2 cut(s)	957, 989
BbsI	GAAGAC	1 cut(s)	52
BbvCI	CCTCAGC	2 cut(s)	186, 876
BbvI	GCAGC	2 cut(s)	269, 1003
BccI	CCATC	5 cut(s)	35, 388, 469, 473, 900
BciT130I	CCWGG	1 cut(s)	1158
BcoDI	GTCTC	1 cut(s)	959
BfaI	CTAG	3 cut(s)	450, 759, 935
BfmI	CTRYAG	3 cut(s)	566, 790, 1083
BfuAI	ACCTGC	1 cut(s)	539
BglII	AGATCT	1 cut(s)	172
BisI	GCNGC	2 cut(s)	258, 992
BlpI	GCTNAGC	1 cut(s)	282
BlsI	GCNGC	2 cut(s)	259, 993
BmcAI	AGTACT	1 cut(s)	788
Bme1390I	CCNGG	1 cut(s)	1158
Bme18I	GGWCC	2 cut(s)	601, 675
BmgT120I	GGNCC	3 cut(s)	601, 675, 1127
BmiI	GGNNCC	3 cut(s)	222, 603, 676
BmrFI	CCNGG	1 cut(s)	1158
BmrI	ACTGGG	1 cut(s)	778
BmsI	GCATC	2 cut(s)	399, 948
BmuI	ACTGGG	1 cut(s)	778
BpiI	GAAGAC	1 cut(s)	52
BpmI	CTGGAG	1 cut(s)	1202
Bpu10I	CCTNAGC	2 cut(s)	186, 876
Bpu1102I	GCTNAGC	1 cut(s)	282
BpuEI	CTTGAG	1 cut(s)	1007
BsaI	GGTCTC	1 cut(s)	959
BsaJI	CCNNGG	1 cut(s)	421
BsaWI	WCCGGW	1 cut(s)	178
Bse1I	ACTGG	2 cut(s)	626, 784
Bse3DI	GCAATG	1 cut(s)	307
BseBI	CCWGG	1 cut(s)	1158
BseDI	CCNNGG	1 cut(s)	421
BseGI	GGATG	4 cut(s)	480, 484, 911, 916
BseMI	GCAATG	1 cut(s)	307
BseMII	CTCAG	6 cut(s)	177, 296, 631, 806, 890, 1145
BseNI	ACTGG	2 cut(s)	626, 784
BseRI	GAGGAG	3 cut(s)	371, 857, 864
BseSI	GKGCMC	1 cut(s)	249
BseXI	GCAGC	2 cut(s)	269, 1003
BshFI	GGCC	1 cut(s)	1128
BsiSI	CCGG	2 cut(s)	179, 218
BslFI	GGGAC	3 cut(s)	100, 825, 1113
BsmAI	GTCTC	1 cut(s)	959
BsmFI	GGGAC	3 cut(s)	100, 825, 1113
BsnI	GGCC	1 cut(s)	1128
Bso31I	GGTCTC	1 cut(s)	959
Bsp1286I	GDGCHC	1 cut(s)	249
Bsp143I	GATC	8 cut(s)	128, 172, 376, 622, 755, 772, 913, 1060
Bsp1720I	GCTNAGC	1 cut(s)	282
BspACI	CCGC	3 cut(s)	286, 994, 1147
BspANI	GGCC	1 cut(s)	1128
BspCNI	CTCAG	7 cut(s)	4, 178, 295, 630, 807, 889, 1144
BspHI	TCATGA	1 cut(s)	769
BspLI	GGNNCC	3 cut(s)	222, 603, 676
BspMAI	CTGCAG	2 cut(s)	570, 1087
BspMI	ACCTGC	1 cut(s)	539
BspPI	GGATC	4 cut(s)	136, 617, 908, 1055
BspTNI	GGTCTC	1 cut(s)	959
BsrDI	GCAATG	1 cut(s)	307
BsrI	ACTGG	2 cut(s)	626, 784
BssECI	CCNNGG	1 cut(s)	421
BssMI	GATC	8 cut(s)	128, 172, 376, 622, 755, 772, 913, 1060
BssT1I	CCWWGG	1 cut(s)	421
Bst2UI	CCWGG	1 cut(s)	1158
Bst4CI	ACNGT	6 cut(s)	139, 169, 531, 931, 978, 1035
Bst6I	CTCTTC	2 cut(s)	450, 1089
BstC8I	GCNNGC	2 cut(s)	888, 996
BstDEI	CTNAG	8 cut(s)	12, 96, 186, 282, 617, 815, 876, 1131
BstEII	GGTNACC	1 cut(s)	361
BstF5I	GGATG	4 cut(s)	480, 484, 911, 916
BstHHI	GCGC	1 cut(s)	217
BstKTI	GATC	8 cut(s)	131, 175, 379, 625, 758, 775, 916, 1063
BstMAI	GTCTC	1 cut(s)	959
BstMBI	GATC	8 cut(s)	128, 172, 376, 622, 755, 772, 913, 1060
BstMWI	GCNNNNNNNGC	1 cut(s)	595
BstNI	CCWGG	1 cut(s)	1158
BstNSI	RCATGY	2 cut(s)	598, 830
BstPI	GGTNACC	1 cut(s)	361
BstSCI	CCNGG	1 cut(s)	1156
BstSFI	CTRYAG	3 cut(s)	566, 790, 1083
BstSLI	GKGCMC	1 cut(s)	249
BstV1I	GCAGC	2 cut(s)	269, 1003
BstV2I	GAAGAC	1 cut(s)	52
BstX2I	RGATCY	3 cut(s)	128, 172, 622
BstYI	RGATCY	3 cut(s)	128, 172, 622
BsuRI	GGCC	1 cut(s)	1128
BtsCI	GGATG	4 cut(s)	480, 484, 911, 916
BtsI	GCAGTG	1 cut(s)	575
BtsIMutI	CAGTG	1 cut(s)	575
BveI	ACCTGC	1 cut(s)	539
Cac8I	GCNNGC	2 cut(s)	888, 996
CciI	TCATGA	1 cut(s)	769
CfoI	GCGC	1 cut(s)	217
Cfr13I	GGNCC	3 cut(s)	601, 675, 1127
Csp6I	GTAC	2 cut(s)	682, 787
CviAII	CATG	6 cut(s)	595, 746, 770, 827, 853, 1150
CviQI	GTAC	2 cut(s)	682, 787
DdeI	CTNAG	8 cut(s)	12, 96, 186, 282, 617, 815, 876, 1131
DpnI	GATC	8 cut(s)	130, 174, 378, 624, 757, 774, 915, 1062
DpnII	GATC	8 cut(s)	128, 172, 376, 622, 755, 772, 913, 1060
Eam1104I	CTCTTC	2 cut(s)	450, 1089
EarI	CTCTTC	2 cut(s)	450, 1089
Eco130I	CCWWGG	1 cut(s)	421
Eco31I	GGTCTC	1 cut(s)	959
Eco47I	GGWCC	2 cut(s)	601, 675
Eco57I	CTGAAG	1 cut(s)	357
Eco91I	GGTNACC	1 cut(s)	361
EcoO109I	RGGNCCY	1 cut(s)	601
EcoO65I	GGTNACC	1 cut(s)	361
EcoRII	CCWGG	1 cut(s)	1156
EcoT14I	CCWWGG	1 cut(s)	421
ErhI	CCWWGG	1 cut(s)	421
FaeI	CATG	6 cut(s)	598, 749, 773, 830, 856, 1153
FalI	AAGNNNNNCTT	2 cut(s)	133, 165
FaqI	GGGAC	3 cut(s)	100, 825, 1113
FatI	CATG	6 cut(s)	594, 745, 769, 826, 852, 1149
FauI	CCCGC	1 cut(s)	987
FauNDI	CATATG	2 cut(s)	433, 1213
FblI	GTMKAC	2 cut(s)	438, 690
Fnu4HI	GCNGC	2 cut(s)	258, 992
FokI	GGATG	4 cut(s)	487, 491, 918, 923
Fsp4HI	GCNGC	2 cut(s)	258, 992
FspBI	CTAG	3 cut(s)	450, 759, 935
GlaI	GCGC	1 cut(s)	216
GluI	GCNGC	2 cut(s)	258, 992
GsuI	CTGGAG	1 cut(s)	1202
HaeIII	GGCC	1 cut(s)	1128
HapII	CCGG	2 cut(s)	179, 218
HhaI	GCGC	1 cut(s)	217
Hin1II	CATG	6 cut(s)	598, 749, 773, 830, 856, 1153
Hin6I	GCGC	1 cut(s)	215
HinP1I	GCGC	1 cut(s)	215
HincII	GTYRAC	2 cut(s)	439, 724
HindII	GTYRAC	2 cut(s)	439, 724
HindIII	AAGCTT	1 cut(s)	888
HinfI	GANTC	8 cut(s)	268, 488, 725, 796, 921, 1006, 1012, 1114
HpaII	CCGG	2 cut(s)	179, 218
HphI	GGTGA	1 cut(s)	211
Hpy166II	GTNNAC	4 cut(s)	439, 691, 724, 1038
Hpy188I	TCNGA	8 cut(s)	13, 77, 336, 376, 556, 620, 1011, 1134
Hpy188III	TCNNGA	5 cut(s)	132, 293, 770, 800, 986
Hpy8I	GTNNAC	4 cut(s)	439, 691, 724, 1038
Hpy99I	CGWCG	1 cut(s)	443
HpyAV	CCTTC	4 cut(s)	529, 761, 1168, 1182
HpyCH4III	ACNGT	6 cut(s)	139, 169, 531, 931, 978, 1035
HpyCH4V	TGCA	5 cut(s)	568, 598, 642, 826, 1085
HpyF10VI	GCNNNNNNNGC	1 cut(s)	595
HpyF3I	CTNAG	8 cut(s)	12, 96, 186, 282, 617, 815, 876, 1131
Hsp92II	CATG	6 cut(s)	598, 749, 773, 830, 856, 1153
HspAI	GCGC	1 cut(s)	215
Kzo9I	GATC	8 cut(s)	128, 172, 376, 622, 755, 772, 913, 1060
LmnI	GCTCC	1 cut(s)	1208
Lsp1109I	GCAGC	2 cut(s)	269, 1003
LweI	GCATC	2 cut(s)	399, 948
MaeI	CTAG	3 cut(s)	450, 759, 935
MaeIII	GTNAC	1 cut(s)	361
MalI	GATC	8 cut(s)	130, 174, 378, 624, 757, 774, 915, 1062
MboI	GATC	8 cut(s)	128, 172, 376, 622, 755, 772, 913, 1060
MboII	GAAGA	7 cut(s)	13, 52, 227, 311, 467, 1063, 1106
MflI	RGATCY	3 cut(s)	128, 172, 622
MhlI	GDGCHC	1 cut(s)	249
MluCI	AATT	2 cut(s)	520, 1089
MlyI	GAGTC	3 cut(s)	497, 719, 1108
MmeI	TCCRAC	1 cut(s)	172
MseI	TTAA	4 cut(s)	66, 387, 417, 1044
MslI	CAYNNNNRTG	1 cut(s)	831
MspA1I	CMGCKG	2 cut(s)	286, 994
MspI	CCGG	2 cut(s)	179, 218
MspR9I	CCNGG	1 cut(s)	1158
MvaI	CCWGG	1 cut(s)	1158
MwoI	GCNNNNNNNGC	1 cut(s)	595
NdeI	CATATG	2 cut(s)	433, 1213
NdeII	GATC	8 cut(s)	128, 172, 376, 622, 755, 772, 913, 1060
NlaIII	CATG	6 cut(s)	598, 749, 773, 830, 856, 1153
NlaIV	GGNNCC	3 cut(s)	222, 603, 676
NspI	RCATGY	2 cut(s)	598, 830
PagI	TCATGA	1 cut(s)	769
PfeI	GAWTC	5 cut(s)	268, 796, 921, 1006, 1012
PkrI	GCNGC	2 cut(s)	259, 993
PleI	GAGTC	3 cut(s)	496, 719, 1108
PpsI	GAGTC	3 cut(s)	496, 719, 1108
PpuMI	RGGWCCY	1 cut(s)	601
PshBI	ATTAAT	1 cut(s)	1044
Psp5II	RGGWCCY	1 cut(s)	601
Psp6I	CCWGG	1 cut(s)	1156
PspEI	GGTNACC	1 cut(s)	361
PspGI	CCWGG	1 cut(s)	1156
PspN4I	GGNNCC	3 cut(s)	222, 603, 676
PspPI	GGNCC	3 cut(s)	601, 675, 1127
PspPPI	RGGWCCY	1 cut(s)	601
PstI	CTGCAG	2 cut(s)	570, 1087
PsuI	RGATCY	3 cut(s)	128, 172, 622
RsaI	GTAC	2 cut(s)	683, 788
RsaNI	GTAC	2 cut(s)	682, 787
RseI	CAYNNNNRTG	1 cut(s)	831
SalI	GTCGAC	1 cut(s)	437
SaqAI	TTAA	4 cut(s)	66, 387, 417, 1044
SatI	GCNGC	2 cut(s)	258, 992
Sau3AI	GATC	8 cut(s)	128, 172, 376, 622, 755, 772, 913, 1060
Sau96I	GGNCC	3 cut(s)	601, 675, 1127
ScaI	AGTACT	1 cut(s)	788
SchI	GAGTC	3 cut(s)	497, 719, 1108
ScrFI	CCNGG	1 cut(s)	1158
SduI	GDGCHC	1 cut(s)	249
SfaNI	GCATC	2 cut(s)	399, 948
SfcI	CTRYAG	3 cut(s)	566, 790, 1083
SinI	GGWCC	2 cut(s)	601, 675
SmiMI	CAYNNNNRTG	1 cut(s)	831
SmlI	CTYRAG	1 cut(s)	986
SmoI	CTYRAG	1 cut(s)	986
Sse9I	AATT	2 cut(s)	520, 1089
SsiI	CCGC	3 cut(s)	286, 994, 1147
SspMI	CTAG	3 cut(s)	450, 759, 935
StyD4I	CCNGG	1 cut(s)	1156
StyI	CCWWGG	1 cut(s)	421
TaaI	ACNGT	6 cut(s)	139, 169, 531, 931, 978, 1035
TaqI	TCGA	5 cut(s)	251, 438, 491, 754, 919
TaqII	GACCGA	1 cut(s)	419
TasI	AATT	2 cut(s)	520, 1089
TatI	WGTACW	2 cut(s)	681, 786
TfiI	GAWTC	5 cut(s)	268, 796, 921, 1006, 1012
Tru1I	TTAA	4 cut(s)	66, 387, 417, 1044
Tru9I	TTAA	4 cut(s)	66, 387, 417, 1044
TscAI	CASTG	1 cut(s)	575
TseI	GCWGC	2 cut(s)	257, 991
TspDTI	ATGAA	5 cut(s)	123, 476, 557, 970, 1187
TspGWI	ACGGA	1 cut(s)	487
TspRI	CASTG	1 cut(s)	575
VpaK11BI	GGWCC	2 cut(s)	601, 675
VspI	ATTAAT	1 cut(s)	1044
XapI	RAATTY	1 cut(s)	520
XceI	RCATGY	2 cut(s)	598, 830
XmiI	GTMKAC	2 cut(s)	438, 690
XspI	CTAG	3 cut(s)	450, 759, 935
ZrmI	AGTACT	1 cut(s)	788

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