Rorug06G0030000

Belongs to the class-I aminoacyl-tRNA synthetase family

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_rugosa
GWHBQTZ00000006
OG0000872
Physical Location & Seq
Forward (+)
3551252 .. 3553703
2452 bp
Loading structure...
UTR
Exon/CDS
Intron
Rorug06G0030000.1

Sequence Viewer

Length: 1359 bp
ATGCATAGTTTATATATGGGAGGAGACGAAGCTGTTATCCAGCTGCTTCTGAAGACAAATATAGATGTCAATGATGCTGATGCAGATGGAAATTCTGCTCTTCATTGGATACTTGCGTCATCGATATTGTCGCATCCACAACAGATAAGTATTATATTGCTTCTTCTAGAGCATGGTGCTCTCGTAAGGCAAAGGAATAAAATGGGGTTGACAGCATTTCATATTGCTGCTGGTAATGGTAATTCAAAGGCCCTTGAGATCCTTCTGTTGGAAGACCCGTTAGCTGTCCAATATATGACGGAAATGAAAGAAACCCCCCTCTTTTTCGCTGTGAAGAATGGGAGTAAAGACTGCACTGAGCTTCTTTTAACATGGGGAGCAAATAGTGAAGTCCTTAACGTGCGTGGGCAAAAAGCTATAGACCTGGCAACCTCTCAAGATATGCGTGACATACTGCTGAACATAACCACTGTTAGCCTCGTTAATCAGGCCTTCCCCAATCAACATAAATGTACTGCCTTAGAGGTGACAGATGAAGACACCTCTACTGAAAGAAATGTTAACTCAATCACCAAGGCAGAAGCTTGTAAGTACTTTGAATCTCATCAAGGATATGTCAGAGGAGTTCAGGATGGAGCATACCAGAGTCATTCTTGTGCTGCGAAACAACTCAAACGCAAAATATTTGTTGGAGGACTTCCTCCTTCAGTGGACTCTGATGTTTTGGGAAAGTTCTTTGAAGAGTTTGGATCAGTGGAAGATGCTGTAGTTATTGTAACTCAGATAGAAAAGAAGATAGAATCTCGAGGCTTTGGTTTTGTCACATTTAGAGAGGAGAAATCTGCTTTAGAAGCCATGCAAGCGAACTACGTCACCATGAGAGGCAAGAAAGTTGAAATAAAAAGTTTGATTCCAAAATTGGTTTTCGGAGCTGAGTTTGAGAAAATGTCACCTCAACAACGAGAACAAGATAAAAATTTTCAACTTCCACTGCAGAAGTCGAACGAGTATATTAGGGAAGCTGATAACCCTGAACAAGGTTCTTGCGCTGATAGATTAGTCCTGGGACAACCAGCGGCATGTTCCATTGAACCTCAAGCTCATGTGACCAAGAGCTCTGAGGACCCAAGCACTCCTACATGGCTAAAGGTTTTCAAGAAGTGGTTTCCTGGGTTCTTACAAGGTCTCCTGAAGCACTCAAAGTATGCTCTCTCTTCTCTAAAAGCTGATTTCAGGGCTAAATTTGGGTTAGAACTGGATCATTCATCTGTGGGCTACTCTAAGCTCAGTGACTTCCTGAAATGTTTCTCCGATTTATGTACCGTTGAGATTCTCTCCATAGTCCATATGCAAACGTAG
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko00970 ko01100 map00970 map01100
Pfam Domains
Protein Families
tRNA-synt_1c tRNA-synt_1c_C tRNA_synt_1c_R1 tRNA_synt_1c_R2

Protein Analysis

452

Amino Acids

50.2

Weight (kDa)

5.89

Isoelectric Point (pI)

43.01

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Ank_2 PF12796 7 - 89 1.2e-08 Ankyrin repeats (3 copies)
RRM_1 PF00076 228 - 298 6.1e-14 RNA recognition motif
OST-HTH PF12872 388 - 443 3.9e-08 OST-HTH/LOTUS domain
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
Loading...
Style Settings
Image
Tree File
Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AciI CCGC 1 cut(s) 1076
AclWI GGATC 3 cut(s) 253, 757, 1266
AcsI RAATTY 3 cut(s) 91, 976, 1241
AcuI CTGAAG 3 cut(s) 71, 690, 1211
AfaI GTAC 3 cut(s) 514, 593, 1321
AfiI CCNNNNNNNGG 2 cut(s) 268, 1037
AgsI TTSAA 7 cut(s) 246, 599, 740, 896, 983, 1091, 1156
AjnI CCWGG 3 cut(s) 423, 1062, 1168
Alw21I GWGCWC 2 cut(s) 181, 1118
Alw26I GTCTC 2 cut(s) 18, 1190
AlwI GGATC 3 cut(s) 253, 757, 1266
Ama87I CYCGRG 1 cut(s) 804
AoxI GGCC 2 cut(s) 249, 489
ApeKI GCWGC 3 cut(s) 43, 227, 659
ApoI RAATTY 3 cut(s) 91, 976, 1241
Asp700I GAANNNNTTC 1 cut(s) 1304
AspLEI GCGC 1 cut(s) 1049
AspS9I GGNCC 2 cut(s) 250, 1123
AsuHPI GGTGA 4 cut(s) 538, 562, 865, 942
AvaI CYCGRG 1 cut(s) 804
AvaII GGWCC 1 cut(s) 1123
BaeI ACNNNNGTAYC 2 cut(s) 101, 134
BanII GRGCYC 1 cut(s) 1118
BbsI GAAGAC 3 cut(s) 59, 279, 543
Bbv12I GWGCWC 2 cut(s) 181, 1118
BbvI GCAGC 3 cut(s) 30, 214, 646
BccI CCATC 2 cut(s) 80, 626
BciT130I CCWGG 3 cut(s) 425, 1064, 1170
BciVI GTATCC 1 cut(s) 102
BcoDI GTCTC 2 cut(s) 18, 1190
BfaI CTAG 1 cut(s) 167
BfmI CTRYAG 3 cut(s) 417, 765, 992
BfuI GTATCC 1 cut(s) 102
BisI GCNGC 4 cut(s) 44, 228, 660, 1077
BlsI GCNGC 4 cut(s) 45, 229, 661, 1078
BmcAI AGTACT 1 cut(s) 593
Bme1390I CCNGG 3 cut(s) 425, 1064, 1170
Bme18I GGWCC 1 cut(s) 1123
BmeT110I CYCGRG 1 cut(s) 804
BmgT120I GGNCC 2 cut(s) 250, 1123
BmiI GGNNCC 1 cut(s) 1125
BmrFI CCNGG 3 cut(s) 425, 1064, 1170
BmsI GCATC 4 cut(s) 64, 70, 142, 751
BpiI GAAGAC 3 cut(s) 59, 279, 543
BplI GAGNNNNNCTC 2 cut(s) 1319, 1351
BpuEI CTTGAG 3 cut(s) 275, 420, 1080
Bsa29I ATCGAT 1 cut(s) 122
BsaI GGTCTC 1 cut(s) 1190
BsaJI CCNNGG 3 cut(s) 573, 1063, 1169
BsaXI ACNNNNNCTCC 2 cut(s) 1170, 1200
Bsc4I CCNNNNNNNGG 2 cut(s) 268, 1037
Bse1I ACTGG 1 cut(s) 1260
BseBI CCWGG 3 cut(s) 425, 1064, 1170
BseCI ATCGAT 1 cut(s) 122
BseDI CCNNGG 3 cut(s) 573, 1063, 1169
BseGI GGATG 2 cut(s) 133, 637
BseLI CCNNNNNNNGG 2 cut(s) 268, 1037
BseMII CTCAG 5 cut(s) 348, 794, 924, 1110, 1300
BseNI ACTGG 1 cut(s) 1260
BseRI GAGGAG 3 cut(s) 36, 636, 848
BseXI GCAGC 3 cut(s) 30, 214, 646
BsgI GTGCAG 1 cut(s) 337
BshFI GGCC 2 cut(s) 251, 491
BshVI ATCGAT 1 cut(s) 122
BsiHKAI GWGCWC 2 cut(s) 181, 1118
BsiHKCI CYCGRG 1 cut(s) 804
BslFI GGGAC 1 cut(s) 1080
BslI CCNNNNNNNGG 2 cut(s) 268, 1037
BsmAI GTCTC 2 cut(s) 18, 1190
BsmBI CGTCTC 1 cut(s) 18
BsmFI GGGAC 1 cut(s) 1080
BsnI GGCC 2 cut(s) 251, 491
Bso31I GGTCTC 1 cut(s) 1190
BsoBI CYCGRG 1 cut(s) 804
Bsp1286I GDGCHC 2 cut(s) 181, 1118
Bsp143I GATC 3 cut(s) 258, 749, 1258
BspACI CCGC 1 cut(s) 1076
BspANI GGCC 2 cut(s) 251, 491
BspCNI CTCAG 5 cut(s) 349, 793, 925, 1111, 1299
BspDI ATCGAT 1 cut(s) 122
BspLI GGNNCC 1 cut(s) 1125
BspMAI CTGCAG 1 cut(s) 996
BspPI GGATC 3 cut(s) 253, 757, 1266
BspQI GCTCTTC 1 cut(s) 105
BspTNI GGTCTC 1 cut(s) 1190
BsrI ACTGG 1 cut(s) 1260
BssECI CCNNGG 3 cut(s) 573, 1063, 1169
BssMI GATC 3 cut(s) 258, 749, 1258
BssT1I CCWWGG 1 cut(s) 573
Bst2UI CCWGG 3 cut(s) 425, 1064, 1170
Bst4CI ACNGT 2 cut(s) 472, 1324
Bst6I CTCTTC 3 cut(s) 105, 735, 1219
BstC8I GCNNGC 1 cut(s) 861
BstDEI CTNAG 7 cut(s) 357, 520, 780, 933, 1119, 1281, 1286
BstENI CCTNNNNNAGG 1 cut(s) 1035
BstF5I GGATG 2 cut(s) 133, 637
BstHHI GCGC 1 cut(s) 1049
BstKTI GATC 3 cut(s) 261, 752, 1261
BstMAI GTCTC 2 cut(s) 18, 1190
BstMBI GATC 3 cut(s) 258, 749, 1258
BstMWI GCNNNNNNNGC 2 cut(s) 851, 860
BstNI CCWGG 3 cut(s) 425, 1064, 1170
BstNSI RCATGY 1 cut(s) 1083
BstSCI CCNGG 3 cut(s) 423, 1062, 1168
BstSFI CTRYAG 3 cut(s) 417, 765, 992
BstV1I GCAGC 3 cut(s) 30, 214, 646
BstV2I GAAGAC 3 cut(s) 59, 279, 543
BstX2I RGATCY 1 cut(s) 258
BstYI RGATCY 1 cut(s) 258
Bsu15I ATCGAT 1 cut(s) 122
BsuI GTATCC 1 cut(s) 102
BsuRI GGCC 2 cut(s) 251, 491
BsuTUI ATCGAT 1 cut(s) 122
BtsCI GGATG 2 cut(s) 133, 637
BtsI GCAGTG 1 cut(s) 989
BtsIMutI CAGTG 6 cut(s) 354, 468, 714, 759, 989, 1294
Cac8I GCNNGC 1 cut(s) 861
CfoI GCGC 1 cut(s) 1049
Cfr13I GGNCC 2 cut(s) 250, 1123
ClaI ATCGAT 1 cut(s) 122
CseI GACGC 1 cut(s) 105
Csp6I GTAC 3 cut(s) 513, 592, 1320
CviAII CATG 7 cut(s) 173, 372, 856, 877, 1080, 1103, 1140
CviQI GTAC 3 cut(s) 513, 592, 1320
DdeI CTNAG 7 cut(s) 357, 520, 780, 933, 1119, 1281, 1286
DpnI GATC 3 cut(s) 260, 751, 1260
DpnII GATC 3 cut(s) 258, 749, 1258
Eam1104I CTCTTC 3 cut(s) 105, 735, 1219
EarI CTCTTC 3 cut(s) 105, 735, 1219
Ecl136II GAGCTC 1 cut(s) 1116
Eco130I CCWWGG 1 cut(s) 573
Eco147I AGGCCT 1 cut(s) 491
Eco24I GRGCYC 1 cut(s) 1118
Eco31I GGTCTC 1 cut(s) 1190
Eco47I GGWCC 1 cut(s) 1123
Eco53kI GAGCTC 1 cut(s) 1116
Eco57I CTGAAG 3 cut(s) 71, 690, 1211
Eco88I CYCGRG 1 cut(s) 804
EcoICRI GAGCTC 1 cut(s) 1116
EcoNI CCTNNNNNAGG 1 cut(s) 1035
EcoO109I RGGNCCY 2 cut(s) 250, 1123
EcoRII CCWGG 3 cut(s) 423, 1062, 1168
EcoT14I CCWWGG 1 cut(s) 573
EcoT22I ATGCAT 1 cut(s) 6
EcoT38I GRGCYC 1 cut(s) 1118
ErhI CCWWGG 1 cut(s) 573
Esp3I CGTCTC 1 cut(s) 18
FaeI CATG 7 cut(s) 176, 375, 859, 880, 1083, 1106, 1143
FaqI GGGAC 1 cut(s) 1080
FatI CATG 7 cut(s) 172, 371, 855, 876, 1079, 1102, 1139
FauNDI CATATG 1 cut(s) 1347
Fnu4HI GCNGC 4 cut(s) 44, 228, 660, 1077
FokI GGATG 2 cut(s) 120, 644
FriOI GRGCYC 1 cut(s) 1118
Fsp4HI GCNGC 4 cut(s) 44, 228, 660, 1077
FspBI CTAG 1 cut(s) 167
GlaI GCGC 1 cut(s) 1048
GluI GCNGC 4 cut(s) 44, 228, 660, 1077
HaeIII GGCC 2 cut(s) 251, 491
HgaI GACGC 1 cut(s) 105
HhaI GCGC 1 cut(s) 1049
Hin1II CATG 7 cut(s) 176, 375, 859, 880, 1083, 1106, 1143
Hin6I GCGC 1 cut(s) 1047
HinP1I GCGC 1 cut(s) 1047
HincII GTYRAC 2 cut(s) 210, 562
HindII GTYRAC 2 cut(s) 210, 562
HindIII AAGCTT 1 cut(s) 582
HinfI GANTC 6 cut(s) 599, 646, 713, 800, 910, 1330
HpaI GTTAAC 1 cut(s) 562
HphI GGTGA 4 cut(s) 538, 562, 865, 942
Hpy166II GTNNAC 3 cut(s) 210, 562, 712
Hpy188I TCNGA 7 cut(s) 51, 620, 718, 783, 929, 1120, 1312
Hpy188III TCNNGA 7 cut(s) 167, 437, 629, 804, 1156, 1189, 1297
Hpy8I GTNNAC 3 cut(s) 210, 562, 712
HpyAV CCTTC 3 cut(s) 272, 502, 714
HpyCH4III ACNGT 2 cut(s) 472, 1324
HpyCH4IV ACGT 3 cut(s) 399, 870, 1355
HpyCH4V TGCA 6 cut(s) 4, 83, 354, 859, 994, 1351
HpyF10VI GCNNNNNNNGC 2 cut(s) 851, 860
HpyF3I CTNAG 7 cut(s) 357, 520, 780, 933, 1119, 1281, 1286
HpySE526I ACGT 3 cut(s) 399, 870, 1355
Hsp92II CATG 7 cut(s) 176, 375, 859, 880, 1083, 1106, 1143
HspAI GCGC 1 cut(s) 1047
KspAI GTTAAC 1 cut(s) 562
Kzo9I GATC 3 cut(s) 258, 749, 1258
LguI GCTCTTC 1 cut(s) 105
LmnI GCTCC 3 cut(s) 377, 635, 929
Lsp1109I GCAGC 3 cut(s) 30, 214, 646
LweI GCATC 4 cut(s) 64, 70, 142, 751
MaeI CTAG 1 cut(s) 167
MaeII ACGT 3 cut(s) 399, 870, 1355
MaeIII GTNAC 8 cut(s) 446, 526, 775, 820, 871, 948, 1105, 1289
MalI GATC 3 cut(s) 260, 751, 1260
MboI GATC 3 cut(s) 258, 749, 1258
MflI RGATCY 1 cut(s) 258
MhlI GDGCHC 2 cut(s) 181, 1118
MluCI AATT 5 cut(s) 91, 241, 917, 976, 1241
MlyI GAGTC 2 cut(s) 655, 707
MmeI TCCRAC 2 cut(s) 249, 670
Mph1103I ATGCAT 1 cut(s) 6
MroXI GAANNNNTTC 1 cut(s) 1304
MseI TTAA 4 cut(s) 368, 396, 483, 561
MslI CAYNNNNRTG 1 cut(s) 654
MspA1I CMGCKG 2 cut(s) 43, 1076
MspR9I CCNGG 3 cut(s) 425, 1064, 1170
MvaI CCWGG 3 cut(s) 425, 1064, 1170
MwoI GCNNNNNNNGC 2 cut(s) 851, 860
NdeI CATATG 1 cut(s) 1347
NdeII GATC 3 cut(s) 258, 749, 1258
NlaIII CATG 7 cut(s) 176, 375, 859, 880, 1083, 1106, 1143
NlaIV GGNNCC 1 cut(s) 1125
NmuCI GTSAC 7 cut(s) 446, 526, 820, 871, 948, 1105, 1289
NsiI ATGCAT 1 cut(s) 6
NspI RCATGY 1 cut(s) 1083
PaeR7I CTCGAG 1 cut(s) 804
PceI AGGCCT 1 cut(s) 491
PciSI GCTCTTC 1 cut(s) 105
PdmI GAANNNNTTC 1 cut(s) 1304
PfeI GAWTC 4 cut(s) 599, 800, 910, 1330
PkrI GCNGC 4 cut(s) 45, 229, 661, 1078
PleI GAGTC 2 cut(s) 654, 707
PpsI GAGTC 2 cut(s) 654, 707
PpuMI RGGWCCY 1 cut(s) 1123
Psp124BI GAGCTC 1 cut(s) 1118
Psp5II RGGWCCY 1 cut(s) 1123
Psp6I CCWGG 3 cut(s) 423, 1062, 1168
PspGI CCWGG 3 cut(s) 423, 1062, 1168
PspN4I GGNNCC 1 cut(s) 1125
PspPI GGNCC 2 cut(s) 250, 1123
PspPPI RGGWCCY 1 cut(s) 1123
PstI CTGCAG 1 cut(s) 996
PsuI RGATCY 1 cut(s) 258
PvuII CAGCTG 1 cut(s) 43
RsaI GTAC 3 cut(s) 514, 593, 1321
RsaNI GTAC 3 cut(s) 513, 592, 1320
RseI CAYNNNNRTG 1 cut(s) 654
SacI GAGCTC 1 cut(s) 1118
SapI GCTCTTC 1 cut(s) 105
SaqAI TTAA 4 cut(s) 368, 396, 483, 561
SatI GCNGC 4 cut(s) 44, 228, 660, 1077
Sau3AI GATC 3 cut(s) 258, 749, 1258
Sau96I GGNCC 2 cut(s) 250, 1123
ScaI AGTACT 1 cut(s) 593
SchI GAGTC 2 cut(s) 655, 707
ScrFI CCNGG 3 cut(s) 425, 1064, 1170
SduI GDGCHC 2 cut(s) 181, 1118
SfaNI GCATC 4 cut(s) 64, 70, 142, 751
SfcI CTRYAG 3 cut(s) 417, 765, 992
Sfr274I CTCGAG 1 cut(s) 804
SinI GGWCC 1 cut(s) 1123
SlaI CTCGAG 1 cut(s) 804
SmiMI CAYNNNNRTG 1 cut(s) 654
SmlI CTYRAG 4 cut(s) 254, 435, 804, 1095
SmoI CTYRAG 4 cut(s) 254, 435, 804, 1095
Sse9I AATT 5 cut(s) 91, 241, 917, 976, 1241
SseBI AGGCCT 1 cut(s) 491
SsiI CCGC 1 cut(s) 1076
SspI AATATT 1 cut(s) 684
SspMI CTAG 1 cut(s) 167
SstI GAGCTC 1 cut(s) 1118
StuI AGGCCT 1 cut(s) 491
StyD4I CCNGG 3 cut(s) 423, 1062, 1168
StyI CCWWGG 1 cut(s) 573
TaaI ACNGT 2 cut(s) 472, 1324
TaiI ACGT 3 cut(s) 402, 873, 1358
TaqI TCGA 3 cut(s) 122, 805, 1001
TasI AATT 5 cut(s) 91, 241, 917, 976, 1241
TatI WGTACW 2 cut(s) 512, 591
TauI GCSGC 1 cut(s) 1079
TfiI GAWTC 4 cut(s) 599, 800, 910, 1330
Tru1I TTAA 4 cut(s) 368, 396, 483, 561
Tru9I TTAA 4 cut(s) 368, 396, 483, 561
TscAI CASTG 6 cut(s) 361, 475, 714, 759, 996, 1294
TseFI GTSAC 7 cut(s) 446, 526, 820, 871, 948, 1105, 1289
TseI GCWGC 3 cut(s) 43, 227, 659
Tsp45I GTSAC 7 cut(s) 446, 526, 820, 871, 948, 1105, 1289
TspDTI ATGAA 5 cut(s) 92, 209, 320, 549, 1254
TspGWI ACGGA 1 cut(s) 314
TspRI CASTG 6 cut(s) 361, 475, 714, 759, 996, 1294
VpaK11BI GGWCC 1 cut(s) 1123
XagI CCTNNNNNAGG 1 cut(s) 1035
XapI RAATTY 3 cut(s) 91, 976, 1241
XbaI TCTAGA 1 cut(s) 166
XceI RCATGY 1 cut(s) 1083
XhoI CTCGAG 1 cut(s) 804
XmnI GAANNNNTTC 1 cut(s) 1304
XspI CTAG 1 cut(s) 167
ZrmI AGTACT 1 cut(s) 593
Zsp2I ATGCAT 1 cut(s) 6
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.