Rh4BG210400

Catalyzes the attachment of alanine to tRNA(Ala) in a two-step reaction alanine is first activated by ATP to form Ala- AMP and then transferred to the acceptor end of tRNA(Ala). Also edits incorrectly charged tRNA(Ala) via its editing domain

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr4B
OG0017805
Physical Location & Seq
Forward (+)
36631411 .. 36639048
7638 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh4BG210400.1

Sequence Viewer

Length: 1761 bp
ATGATGGTATATAACTTGGAAGAAACCCAAATTTATGTGACTTATTTTAGAGGTGAAGCACAACATCAACTTCAATCATCAGAGGTACATAAGCTTGTTAGTCTTCCTTGTGATGTACGCACTAAATCCGCATGGGATGGTCTTTTACCAAGTCAACATGTTGTAGCTTTGGGTGCAAATGAGAATTTTTGGGAGATGGGAGAAGTTGGTCCTTGCGGTCCTTGCTCAAAGATTTATTACAACAGAGGCCATGCTAAATTGGTGGCAAATATGGAAGACTCAGATTTTGCCAATATGGAAGACTGTGACTTTGTGGAGATGGCCAACCTCGTCTTTCTTGAGTACGAAAGGGGAAAAAATGGCGTGCTTACAAAATTACTTCATGATCATGTTGATATGGGTATGGGATTAGAAAGGTTGACAGCCACACTACAAGGAAAGCTTGATAATTATAAAACTCCTATTTTCACACCCATAATTGAAGCCATTAGAATGGAAACAAAGGCTCGCCGATATTTGGGTAATGTCGGATCCGAAGATCCTGATTATATTGATACCGCATACCGAGTTATTGCTGACCATGTCAGAGGTATTTGCTTTGCCATTGCAGATGGCACCAATCCAGGCCTTCATAGCCTTAGTGGCCATGTGCTGAAAACAATTCTGGATCGTGCCGTCTCTTATGGAAGAGACTTCTTGGGAGCTAAGGAAGGGTTTCTATCAAGACTTGTTTGTAATTTGATCCCGAGTGTATTTCCAGAGTTAGCACGATACAAAGATGAAATTATGAAAAAGGTGGTGGAAGCAGAGAAACAAGTAACTAAGATTTCACTCGATGAGATTGAGGAGGCCGTTAAATTATATAATTATCTGAAAGGGGTTAGAAGAAAAGAACTCATAGATGATTTGTTCGACGAGTTTTATTTACCCAAATCAACTTTTGCTAATCACTTGAGGCTCACGCTTGAGGAGATCATACAAAAATCAATCACCACCCAGCAATTGCCTTCTTTAGTGAGGGCTTTCACTTCATTTGTACGAGGCTTTTTCACAAGTGATGTTACAAGTAGGATTCCGTTGGAGTTTCAGTTCTTTCTTGATTTCTTGGATGAGAATTGTTGCAATAAGGTTTCTATGAAGAATGCTGTCAATCATCCAATTCTTCTCAACAAGGAACAACGGATTCTTTATAGATCAGAAGTGCAATTAATGTGTGAAGATGTTGGCGACTCTGAATATGATCGTTTGTTCTTCATAAGGGCGTTATTGTATGTCATTCGTGGTAGAAATGCATCTAGTCATTGGATACGTACTGTTAATCAACGACATCCGCCATGTAATTCCAAAAATTGGATTCAAGATGCACTTTATCCAGATGAGTTTCGGGATAAAGTCGAGTACACAGATGATGCAATGTCATTTGTGAGGTTCTGCAGAAACATAAACATTCACAAGTTTCCTACATGTCAGAGGGACACTATGGAAGGGGAATTGACGCTAATTTGGCCCGGTTTTCTTTCACTGCTTCATGAGGCTGCTATTATGTGTGGAGTTCATATCAACAAACGTCCGAAAAACAGCAGATCTTTCAGACTTGCTGCTGGAATCAATGCTTCGAATTGTGATTTTGTGGGGAGCAAGACGGAAGTGGAGTTTGGAGAGGGTGATGTGGTAGAGAAGCTGATATATCAGATATGCAAGAACCCTCATCCAAATATTGTTGTTTTAACTGTTGCAGCAGGTTTGTTCAACAAAAGTTAG
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko00970 map00970
Pfam Domains
Protein Families
DHHA1 tRNA-synt_2c tRNA_SAD

Protein Analysis

586

Amino Acids

66.96

Weight (kDa)

5.98

Isoelectric Point (pI)

30.05

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
tRNA-synt_2c PF01411 3 - 272 5.2e-53 tRNA synthetases class II (A)
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Publication-ready
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Orthologous Genes (Group: OG0017805)

Species Orthologous Gene IDs
rosa_chinensis RchiOBHm_Chr4g0417271
rosa_laevigata RLG00000007920
rosa_multiflora Rmu_sc0002129.1_g000003
rosa_rugosa Rorug04G0146400 Rorug04G0146500.1
rosa_samantha Rh2CG165800 Rh4AG209900 Rh4BG210400 Rh4BG210600 Rh4CG221100 Rh4DG208000
rosa_wichuraiana Rw4G017750

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 453
Acc36I ACCTGC 1 cut(s) 1730
AccB1I GGYRCC 1 cut(s) 614
AccB7I CCANNNNNTGG 1 cut(s) 1350
AciI CCGC 4 cut(s) 129, 216, 558, 1331
AclWI GGATC 5 cut(s) 525, 533, 538, 675, 736
AcoI YGGCCR 2 cut(s) 321, 643
AcsI RAATTY 2 cut(s) 30, 184
AfaI GTAC 6 cut(s) 87, 117, 344, 1038, 1312, 1400
AfiI CCNNNNNNNGG 2 cut(s) 517, 1350
AflIII ACRYGT 2 cut(s) 157, 1463
AgsI TTSAA 4 cut(s) 74, 482, 1358, 1750
AjnI CCWGG 1 cut(s) 622
AjuI GAANNNNNNNTTGG 2 cut(s) 1638, 1670
AloI GAACNNNNNNTCC 2 cut(s) 1073, 1105
AluBI AGCT 5 cut(s) 94, 167, 442, 704, 1681
AluI AGCT 5 cut(s) 94, 167, 442, 704, 1681
Alw26I GTCTC 2 cut(s) 682, 684
AlwI GGATC 5 cut(s) 525, 533, 538, 675, 736
Ama87I CYCGRG 1 cut(s) 745
AoxI GGCC 6 cut(s) 247, 321, 625, 643, 849, 1505
ApeKI GCWGC 3 cut(s) 1535, 1598, 1736
ApoI RAATTY 2 cut(s) 30, 184
ArsI GACNNNNNNTTYG 4 cut(s) 269, 293, 301, 325
AseI ATTAAT 1 cut(s) 1208
Asp700I GAANNNNTTC 1 cut(s) 714
AspS9I GGNCC 3 cut(s) 209, 218, 1506
AsuC2I CCSGG 1 cut(s) 1509
AsuHPI GGTGA 3 cut(s) 65, 982, 1676
AsuII TTCGAA 1 cut(s) 1616
AvaI CYCGRG 1 cut(s) 745
AvaII GGWCC 2 cut(s) 209, 218
BalI TGGCCA 2 cut(s) 323, 645
BamHI GGATCC 1 cut(s) 530
BanI GGYRCC 1 cut(s) 614
BbsI GAAGAC 3 cut(s) 95, 282, 306
BbvI GCAGC 3 cut(s) 1522, 1585, 1748
BccI CCATC 4 cut(s) 131, 190, 313, 605
BceAI ACGGC 2 cut(s) 659, 836
BciT130I CCWGG 1 cut(s) 624
BciVI GTATCC 1 cut(s) 1299
BclI TGATCA 1 cut(s) 385
BcnI CCSGG 1 cut(s) 1509
BcoDI GTCTC 2 cut(s) 682, 684
BfaI CTAG 1 cut(s) 1296
BfmI CTRYAG 1 cut(s) 1432
BfuAI ACCTGC 1 cut(s) 1730
BfuI GTATCC 1 cut(s) 1299
BglI GCCNNNNNGGC 1 cut(s) 642
BglII AGATCT 1 cut(s) 1583
BisI GCNGC 3 cut(s) 1536, 1599, 1737
BlsI GCNGC 3 cut(s) 1537, 1600, 1738
Bme1390I CCNGG 2 cut(s) 624, 1509
Bme18I GGWCC 2 cut(s) 209, 218
BmeT110I CYCGRG 1 cut(s) 745
BmgT120I GGNCC 3 cut(s) 209, 218, 1506
BmiI GGNNCC 2 cut(s) 532, 616
BmrFI CCNGG 2 cut(s) 624, 1509
BmsI GCATC 3 cut(s) 1301, 1351, 1399
BpiI GAAGAC 3 cut(s) 95, 282, 306
Bpu10I CCTNAGC 1 cut(s) 705
Bpu14I TTCGAA 1 cut(s) 1616
BpuEI CTTGAG 3 cut(s) 359, 973, 986
BpuMI CCSGG 1 cut(s) 1509
BsaAI YACGTR 1 cut(s) 1310
BsaXI ACNNNNNCTCC 2 cut(s) 1073, 1103
Bsc4I CCNNNNNNNGG 2 cut(s) 517, 1350
Bse3DI GCAATG 2 cut(s) 603, 1419
BseBI CCWGG 1 cut(s) 624
BseGI GGATG 5 cut(s) 142, 1114, 1153, 1327, 1708
BseLI CCNNNNNNNGG 2 cut(s) 517, 1350
BseMI GCAATG 2 cut(s) 603, 1419
BseMII CTCAG 1 cut(s) 294
BseRI GAGGAG 2 cut(s) 860, 983
BseXI GCAGC 3 cut(s) 1522, 1585, 1748
BseYI CCCAGC 1 cut(s) 996
BshFI GGCC 6 cut(s) 249, 323, 627, 645, 851, 1507
BshNI GGYRCC 1 cut(s) 614
BsiHKCI CYCGRG 1 cut(s) 745
BsiSI CCGG 1 cut(s) 1509
BslFI GGGAC 1 cut(s) 1487
BslI CCNNNNNNNGG 2 cut(s) 517, 1350
BsmAI GTCTC 2 cut(s) 682, 684
BsmBI CGTCTC 1 cut(s) 682
BsmFI GGGAC 1 cut(s) 1487
BsmI GAATGC 1 cut(s) 1147
BsnI GGCC 6 cut(s) 249, 323, 627, 645, 851, 1507
BsoBI CYCGRG 1 cut(s) 745
Bsp119I TTCGAA 1 cut(s) 1616
Bsp143I GATC 9 cut(s) 385, 530, 538, 667, 741, 972, 1193, 1240, 1583
BspACI CCGC 4 cut(s) 129, 216, 558, 1331
BspANI GGCC 6 cut(s) 249, 323, 627, 645, 851, 1507
BspCNI CTCAG 1 cut(s) 293
BspHI TCATGA 2 cut(s) 382, 1528
BspLI GGNNCC 2 cut(s) 532, 616
BspMAI CTGCAG 1 cut(s) 1436
BspMI ACCTGC 1 cut(s) 1730
BspPI GGATC 5 cut(s) 525, 533, 538, 675, 736
BspT104I TTCGAA 1 cut(s) 1616
BspT107I GGYRCC 1 cut(s) 614
BsrDI GCAATG 2 cut(s) 603, 1419
BssMI GATC 9 cut(s) 385, 530, 538, 667, 741, 972, 1193, 1240, 1583
Bst2UI CCWGG 1 cut(s) 624
Bst4CI ACNGT 3 cut(s) 305, 1315, 1732
Bst6I CTCTTC 1 cut(s) 682
BstBAI YACGTR 1 cut(s) 1310
BstBI TTCGAA 1 cut(s) 1616
BstC8I GCNNGC 2 cut(s) 365, 508
BstDEI CTNAG 4 cut(s) 280, 638, 705, 822
BstF5I GGATG 5 cut(s) 142, 1114, 1153, 1327, 1708
BstKTI GATC 9 cut(s) 388, 533, 541, 670, 744, 975, 1196, 1243, 1586
BstMAI GTCTC 2 cut(s) 682, 684
BstMBI GATC 9 cut(s) 385, 530, 538, 667, 741, 972, 1193, 1240, 1583
BstMWI GCNNNNNNNGC 5 cut(s) 173, 222, 633, 642, 1504
BstNI CCWGG 1 cut(s) 624
BstNSI RCATGY 2 cut(s) 161, 1467
BstSCI CCNGG 2 cut(s) 622, 1507
BstSFI CTRYAG 1 cut(s) 1432
BstSNI TACGTA 1 cut(s) 1310
BstV1I GCAGC 3 cut(s) 1522, 1585, 1748
BstV2I GAAGAC 3 cut(s) 95, 282, 306
BstX2I RGATCY 3 cut(s) 530, 538, 1583
BstXI CCANNNNNNTGG 1 cut(s) 493
BstYI RGATCY 3 cut(s) 530, 538, 1583
BsuI GTATCC 1 cut(s) 1299
BsuRI GGCC 6 cut(s) 249, 323, 627, 645, 851, 1507
BtsCI GGATG 5 cut(s) 142, 1114, 1153, 1327, 1708
BtsI GCAGTG 1 cut(s) 1520
BtsIMutI CAGTG 1 cut(s) 1520
BveI ACCTGC 1 cut(s) 1730
Cac8I GCNNGC 2 cut(s) 365, 508
CciI TCATGA 2 cut(s) 382, 1528
Cfr13I GGNCC 3 cut(s) 209, 218, 1506
CseI GACGC 1 cut(s) 1504
Csp6I GTAC 6 cut(s) 86, 116, 343, 1037, 1311, 1399
CviQI GTAC 6 cut(s) 86, 116, 343, 1037, 1311, 1399
DdeI CTNAG 4 cut(s) 280, 638, 705, 822
DpnI GATC 9 cut(s) 387, 532, 540, 669, 743, 974, 1195, 1242, 1585
DpnII GATC 9 cut(s) 385, 530, 538, 667, 741, 972, 1193, 1240, 1583
EaeI YGGCCR 2 cut(s) 321, 643
Eam1104I CTCTTC 1 cut(s) 682
EarI CTCTTC 1 cut(s) 682
EciI GGCGGA 1 cut(s) 1320
Eco105I TACGTA 1 cut(s) 1310
Eco147I AGGCCT 1 cut(s) 627
Eco47I GGWCC 2 cut(s) 209, 218
Eco88I CYCGRG 1 cut(s) 745
EcoRII CCWGG 1 cut(s) 622
EcoT22I ATGCAT 1 cut(s) 1294
Esp3I CGTCTC 1 cut(s) 682
FalI AAGNNNNNCTT 4 cut(s) 426, 458, 1350, 1382
FaqI GGGAC 1 cut(s) 1487
FbaI TGATCA 1 cut(s) 385
Fnu4HI GCNGC 3 cut(s) 1536, 1599, 1737
FokI GGATG 5 cut(s) 149, 1121, 1140, 1314, 1695
Fsp4HI GCNGC 3 cut(s) 1536, 1599, 1737
FspBI CTAG 1 cut(s) 1296
GluI GCNGC 3 cut(s) 1536, 1599, 1737
GsaI CCCAGC 1 cut(s) 1000
HaeIII GGCC 6 cut(s) 249, 323, 627, 645, 851, 1507
HapII CCGG 1 cut(s) 1509
HgaI GACGC 1 cut(s) 1504
HincII GTYRAC 2 cut(s) 155, 420
HindII GTYRAC 2 cut(s) 155, 420
HindIII AAGCTT 2 cut(s) 92, 440
HinfI GANTC 6 cut(s) 278, 1072, 1183, 1229, 1354, 1605
HpaII CCGG 1 cut(s) 1509
HphI GGTGA 3 cut(s) 65, 982, 1676
Hpy166II GTNNAC 3 cut(s) 155, 420, 1401
Hpy8I GTNNAC 3 cut(s) 155, 420, 1401
Hpy99I CGWCG 1 cut(s) 917
HpyAV CCTTC 4 cut(s) 638, 704, 1017, 1478
HpyCH4III ACNGT 3 cut(s) 305, 1315, 1732
HpyCH4IV ACGT 2 cut(s) 1309, 1567
HpyF10VI GCNNNNNNNGC 5 cut(s) 173, 222, 633, 642, 1504
HpyF3I CTNAG 4 cut(s) 280, 638, 705, 822
HpySE526I ACGT 2 cut(s) 1309, 1567
Ksp22I TGATCA 1 cut(s) 385
Kzo9I GATC 9 cut(s) 385, 530, 538, 667, 741, 972, 1193, 1240, 1583
LmnI GCTCC 2 cut(s) 701, 1635
Lsp1109I GCAGC 3 cut(s) 1522, 1585, 1748
LweI GCATC 3 cut(s) 1301, 1351, 1399
MaeI CTAG 1 cut(s) 1296
MaeII ACGT 2 cut(s) 1309, 1567
MaeIII GTNAC 4 cut(s) 37, 305, 817, 1060
MalI GATC 9 cut(s) 387, 532, 540, 669, 743, 974, 1195, 1242, 1585
MboI GATC 9 cut(s) 385, 530, 538, 667, 741, 972, 1193, 1240, 1583
MfeI CAATTG 1 cut(s) 1001
MflI RGATCY 3 cut(s) 530, 538, 1583
MlsI TGGCCA 2 cut(s) 323, 645
MluNI TGGCCA 2 cut(s) 323, 645
MlyI GAGTC 2 cut(s) 272, 1223
MmeI TCCRAC 2 cut(s) 508, 1059
Mox20I TGGCCA 2 cut(s) 323, 645
Mph1103I ATGCAT 1 cut(s) 1294
MroXI GAANNNNTTC 1 cut(s) 714
MscI TGGCCA 2 cut(s) 323, 645
MseI TTAA 4 cut(s) 855, 1208, 1317, 1727
MslI CAYNNNNRTG 2 cut(s) 387, 491
Msp20I TGGCCA 2 cut(s) 323, 645
MspI CCGG 1 cut(s) 1509
MspR9I CCNGG 2 cut(s) 624, 1509
MunI CAATTG 1 cut(s) 1001
Mva1269I GAATGC 1 cut(s) 1147
MvaI CCWGG 1 cut(s) 624
MwoI GCNNNNNNNGC 5 cut(s) 173, 222, 633, 642, 1504
NciI CCSGG 1 cut(s) 1509
NdeII GATC 9 cut(s) 385, 530, 538, 667, 741, 972, 1193, 1240, 1583
NlaIV GGNNCC 2 cut(s) 532, 616
NmuCI GTSAC 2 cut(s) 37, 305
NsiI ATGCAT 1 cut(s) 1294
NspI RCATGY 2 cut(s) 161, 1467
NspV TTCGAA 1 cut(s) 1616
PagI TCATGA 2 cut(s) 382, 1528
PceI AGGCCT 1 cut(s) 627
PciI ACATGT 2 cut(s) 157, 1463
PctI GAATGC 1 cut(s) 1147
PdmI GAANNNNTTC 1 cut(s) 714
PfeI GAWTC 4 cut(s) 1072, 1183, 1354, 1605
PflFI GACNNNGTC 1 cut(s) 581
PflMI CCANNNNNTGG 1 cut(s) 1350
PkrI GCNGC 3 cut(s) 1537, 1600, 1738
PleI GAGTC 2 cut(s) 272, 1223
PpsI GAGTC 2 cut(s) 272, 1223
Ppu21I YACGTR 1 cut(s) 1310
PscI ACATGT 2 cut(s) 157, 1463
PshBI ATTAAT 1 cut(s) 1208
PsiI TTATAA 1 cut(s) 453
Psp6I CCWGG 1 cut(s) 622
PspFI CCCAGC 1 cut(s) 996
PspGI CCWGG 1 cut(s) 622
PspN4I GGNNCC 2 cut(s) 532, 616
PspPI GGNCC 3 cut(s) 209, 218, 1506
PstI CTGCAG 1 cut(s) 1436
PsuI RGATCY 3 cut(s) 530, 538, 1583
PsyI GACNNNGTC 1 cut(s) 581
RsaI GTAC 6 cut(s) 87, 117, 344, 1038, 1312, 1400
RsaNI GTAC 6 cut(s) 86, 116, 343, 1037, 1311, 1399
RseI CAYNNNNRTG 2 cut(s) 387, 491
SaqAI TTAA 4 cut(s) 855, 1208, 1317, 1727
SatI GCNGC 3 cut(s) 1536, 1599, 1737
Sau3AI GATC 9 cut(s) 385, 530, 538, 667, 741, 972, 1193, 1240, 1583
Sau96I GGNCC 3 cut(s) 209, 218, 1506
SchI GAGTC 2 cut(s) 272, 1223
ScrFI CCNGG 2 cut(s) 624, 1509
SfaNI GCATC 3 cut(s) 1301, 1351, 1399
SfcI CTRYAG 1 cut(s) 1432
SfuI TTCGAA 1 cut(s) 1616
SinI GGWCC 2 cut(s) 209, 218
SmiMI CAYNNNNRTG 2 cut(s) 387, 491
SmlI CTYRAG 3 cut(s) 338, 952, 965
SmoI CTYRAG 3 cut(s) 338, 952, 965
SnaBI TACGTA 1 cut(s) 1310
SseBI AGGCCT 1 cut(s) 627
SsiI CCGC 4 cut(s) 129, 216, 558, 1331
SspI AATATT 1 cut(s) 1717
SspMI CTAG 1 cut(s) 1296
StuI AGGCCT 1 cut(s) 627
StyD4I CCNGG 2 cut(s) 622, 1507
TaaI ACNGT 3 cut(s) 305, 1315, 1732
TaiI ACGT 2 cut(s) 1312, 1570
TaqI TCGA 4 cut(s) 834, 912, 1395, 1616
TatI WGTACW 1 cut(s) 1398
TfiI GAWTC 4 cut(s) 1072, 1183, 1354, 1605
Tru1I TTAA 4 cut(s) 855, 1208, 1317, 1727
Tru9I TTAA 4 cut(s) 855, 1208, 1317, 1727
TscAI CASTG 1 cut(s) 1527
TseFI GTSAC 2 cut(s) 37, 305
TseI GCWGC 3 cut(s) 1535, 1598, 1736
Tsp45I GTSAC 2 cut(s) 37, 305
TspDTI ATGAA 9 cut(s) 371, 620, 795, 803, 1020, 1151, 1243, 1517, 1544
TspGWI ACGGA 3 cut(s) 1065, 1195, 1658
TspRI CASTG 1 cut(s) 1527
Tth111I GACNNNGTC 1 cut(s) 581
Van91I CCANNNNNTGG 1 cut(s) 1350
VpaK11BI GGWCC 2 cut(s) 209, 218
VspI ATTAAT 1 cut(s) 1208
XapI RAATTY 2 cut(s) 30, 184
XceI RCATGY 2 cut(s) 161, 1467
XmnI GAANNNNTTC 1 cut(s) 714
XspI CTAG 1 cut(s) 1296
Zsp2I ATGCAT 1 cut(s) 1294
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.