Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr4

Orthogroup ID

OG0004327

Physical Location & Seq

Genomic Coordinates Forward (+)

52151724 .. 52153788

Gene Structure 2065 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000019452

Sequence Viewer

CDS Protein Promoter (2k)

Length: 813 bp

ATGTTGCCCTCCTCGAGGTCGTCCTTCCTCTCTGTTCAACCTATGGGTTGTGGCATCCATTCCTTGTTGAATTGCCTCTCGAATTGCAGCGGTGTTCGAGGGAAGTTTGGTCCGGGCTTGAAGATCTCTCGCCGGAGGAGGCTATTCTCATATATGGGTCTGTGTGAGGCGATTCTCGTTTGGGACCCTGGACCTGTCTCTTCTCTTTTTTGGGGCAAAAAGAGTTACTCTGATGGAGCTGGAGACGGAAGAGGATGGCAACTGAAGGCTTTCGTCATTAGCTGGAGGCTGGATCCTATCCGGCTTGCTAGGGTTCATCAGTTTGAAAAAGTTGAACAGTTTTGTATGACAAGCCCAAATGGCCAGGACTCTTGGGAAATGCTCGAGGAAATGATCAAGAACTCTGAGGAATTTTATCAGCAGCTCAAACTTCCTTATCGTCTTGTGTCCATCGTTTCTGGTGCTTTGAATGATGCGGCAGCAAAGAAGTATGATCTGGTAGGGTGGTTTCCTGCATCTCAGACATACAGGGAGCTCGTCTCATGTTCAAACTGTACAGACTACCAATCAAGAAAATTAGGAATTCGATTTGGGCAGAAAAAGAGCAATAAGCAGACGAAGCAGTACGTTCACTTGTTAAACTCCACTCTTACAGCAACTGAGAGAACCATTTACTGCATTCTTGAAAACTATCAGAGGGAAGGTGGTGTTGAGGTACCAGAAGTCTTACGAAACTACATGGGTGGAGTGTCCTTCCTACCATTCAAGAACAAACCAGCCCCTGAAGTCCAAGGGAAGAAATCAAAGGCCTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003824 GO:0004812 GO:0004828 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005829 GO:0006082 GO:0006139 GO:0006399 GO:0006412 GO:0006418 GO:0006434 GO:0006518 GO:0006520 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009987 GO:0010035 GO:0010038 GO:0010467 GO:0016070 GO:0016874 GO:0016875 GO:0019538 GO:0019752 GO:0034641 GO:0034645 GO:0034660 GO:0042221 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:0046686 GO:0050896 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

Seryl_tRNA_N tRNA-synt_2b

Protein Analysis

271

Amino Acids

30.52

Weight (kDa)

9.46

Isoelectric Point (pI)

50.26

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
tRNA-synt_2b	PF00587	102 - 231	4.4e-24	tRNA synthetase class II core domain (G, H, P, S and T)

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0004327)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G27470
fragaria_vesca	FvH4_3g37770 FvH4_6g05710
malus_domestica	MD04G1206100.v1.1 MD04G1206400.v1.1 MD12G1220200.v1.1
prunus_persica	Prupe.6G327000_v2.0.a1
pyrus_communis	pycom04g18250 pycom12g20570
rosa_chinensis	RchiOBHm_Chr2g0115881 RchiOBHm_Chr3g0454601
rosa_laevigata	RLG00000018221 RLG00000019452 RLG00000025430 RLG00000031813
rosa_multiflora	Rmu_co8405619.1_g000001 Rmu_sc0001792.1_g000036 Rmu_ssc0000197.1_g000016
rosa_roxburghii	Rroxscaffold_1G00065260 Rroxscaffold_6G00424940
rosa_rugosa	Rorug02G0200700 Rorug03G0000500 Rorug04G0455300 Rorug05G0211400
rosa_samantha	Rh2BG268600 Rh2CG264100 Rh3AG060400 Rh3BG062500 Rh3CG061300 Rh3DG062100
rosa_wichuraiana	Rw2G020190 Rw3G004700

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AbsI	CCTCGAGG	1 cut(s)	13
Acc65I	GGTACC	1 cut(s)	715
AccB1I	GGYRCC	1 cut(s)	715
AciI	CCGC	2 cut(s)	90, 476
AclWI	GGATC	2 cut(s)	287, 300
AcoI	YGGCCR	1 cut(s)	361
AcsI	RAATTY	2 cut(s)	410, 582
AcuI	CTGAAG	2 cut(s)	284, 804
AfaI	GTAC	3 cut(s)	556, 626, 717
AfiI	CCNNNNNNNGG	1 cut(s)	15
AgsI	TTSAA	9 cut(s)	38, 70, 121, 326, 335, 469, 549, 686, 766
AjnI	CCWGG	2 cut(s)	187, 363
AluBI	AGCT	4 cut(s)	239, 282, 424, 535
AluI	AGCT	4 cut(s)	239, 282, 424, 535
Alw21I	GWGCWC	1 cut(s)	537
Alw26I	GTCTC	3 cut(s)	202, 237, 544
AlwI	GGATC	2 cut(s)	287, 300
AlwNI	CAGNNNCTG	2 cut(s)	659, 782
Ama87I	CYCGRG	2 cut(s)	13, 383
AoxI	GGCC	2 cut(s)	361, 807
ApeKI	GCWGC	3 cut(s)	87, 421, 479
ApoI	RAATTY	2 cut(s)	410, 582
Asp700I	GAANNNNTTC	1 cut(s)	269
Asp718I	GGTACC	1 cut(s)	715
AspS9I	GGNCC	3 cut(s)	110, 184, 191
AsuC2I	CCSGG	1 cut(s)	114
AvaI	CYCGRG	2 cut(s)	13, 383
AvaII	GGWCC	3 cut(s)	110, 184, 191
BalI	TGGCCA	1 cut(s)	363
BamHI	GGATCC	1 cut(s)	292
BanI	GGYRCC	1 cut(s)	715
BanII	GRGCYC	1 cut(s)	537
Bbv12I	GWGCWC	1 cut(s)	537
BbvI	GCAGC	3 cut(s)	99, 433, 491
BccI	CCATC	3 cut(s)	227, 249, 458
BciT130I	CCWGG	2 cut(s)	189, 365
BclI	TGATCA	1 cut(s)	393
BcnI	CCSGG	1 cut(s)	114
BcoDI	GTCTC	3 cut(s)	202, 237, 544
BfaI	CTAG	1 cut(s)	309
BglI	GCCNNNNNGGC	1 cut(s)	360
BglII	AGATCT	1 cut(s)	123
BisI	GCNGC	4 cut(s)	88, 422, 477, 480
BlsI	GCNGC	4 cut(s)	89, 423, 478, 481
Bme1390I	CCNGG	3 cut(s)	114, 189, 365
Bme18I	GGWCC	3 cut(s)	110, 184, 191
BmeT110I	CYCGRG	2 cut(s)	13, 383
BmgT120I	GGNCC	3 cut(s)	110, 184, 191
BmiI	GGNNCC	4 cut(s)	185, 186, 294, 717
BmrFI	CCNGG	3 cut(s)	114, 189, 365
BmsI	GCATC	3 cut(s)	63, 463, 524
BplI	GAGNNNNNCTC	2 cut(s)	524, 556
BpmI	CTGGAG	2 cut(s)	261, 304
BpuMI	CCSGG	1 cut(s)	114
BsaJI	CCNNGG	2 cut(s)	187, 790
Bsc4I	CCNNNNNNNGG	1 cut(s)	15
BseBI	CCWGG	2 cut(s)	189, 365
BseDI	CCNNGG	2 cut(s)	187, 790
BseGI	GGATG	2 cut(s)	54, 260
BseLI	CCNNNNNNNGG	1 cut(s)	15
BseMII	CTCAG	3 cut(s)	396, 533, 651
BseRI	GAGGAG	1 cut(s)	151
BseXI	GCAGC	3 cut(s)	99, 433, 491
BshFI	GGCC	2 cut(s)	363, 809
BshNI	GGYRCC	1 cut(s)	715
BsiHKAI	GWGCWC	1 cut(s)	537
BsiHKCI	CYCGRG	2 cut(s)	13, 383
BsiSI	CCGG	3 cut(s)	113, 133, 301
BslFI	GGGAC	1 cut(s)	197
BslI	CCNNNNNNNGG	1 cut(s)	15
BsmAI	GTCTC	3 cut(s)	202, 237, 544
BsmBI	CGTCTC	2 cut(s)	237, 544
BsmFI	GGGAC	1 cut(s)	197
BsmI	GAATGC	1 cut(s)	678
BsnI	GGCC	2 cut(s)	363, 809
BsoBI	CYCGRG	2 cut(s)	13, 383
Bsp1286I	GDGCHC	1 cut(s)	537
Bsp1407I	TGTACA	1 cut(s)	554
Bsp143I	GATC	4 cut(s)	123, 292, 393, 493
BspACI	CCGC	2 cut(s)	90, 476
BspANI	GGCC	2 cut(s)	363, 809
BspCNI	CTCAG	3 cut(s)	397, 532, 652
BspLI	GGNNCC	4 cut(s)	185, 186, 294, 717
BspPI	GGATC	2 cut(s)	287, 300
BspT107I	GGYRCC	1 cut(s)	715
BsrGI	TGTACA	1 cut(s)	554
BssECI	CCNNGG	2 cut(s)	187, 790
BssMI	GATC	4 cut(s)	123, 292, 393, 493
BssT1I	CCWWGG	1 cut(s)	790
Bst2UI	CCWGG	2 cut(s)	189, 365
Bst4CI	ACNGT	2 cut(s)	339, 554
Bst6I	CTCTTC	2 cut(s)	205, 244
BstAUI	TGTACA	1 cut(s)	554
BstC8I	GCNNGC	1 cut(s)	306
BstDEI	CTNAG	3 cut(s)	405, 519, 660
BstENI	CCTNNNNNAGG	1 cut(s)	13
BstF5I	GGATG	2 cut(s)	54, 260
BstKTI	GATC	4 cut(s)	126, 295, 396, 496
BstMAI	GTCTC	3 cut(s)	202, 237, 544
BstMBI	GATC	4 cut(s)	123, 292, 393, 493
BstMWI	GCNNNNNNNGC	2 cut(s)	360, 619
BstNI	CCWGG	2 cut(s)	189, 365
BstSCI	CCNGG	3 cut(s)	112, 187, 363
BstV1I	GCAGC	3 cut(s)	99, 433, 491
BstX2I	RGATCY	2 cut(s)	123, 292
BstYI	RGATCY	2 cut(s)	123, 292
BsuRI	GGCC	2 cut(s)	363, 809
BtsCI	GGATG	2 cut(s)	54, 260
Cac8I	GCNNGC	1 cut(s)	306
CaiI	CAGNNNCTG	2 cut(s)	659, 782
Cfr13I	GGNCC	3 cut(s)	110, 184, 191
Csp6I	GTAC	3 cut(s)	555, 625, 716
CviAII	CATG	2 cut(s)	543, 739
CviQI	GTAC	3 cut(s)	555, 625, 716
DdeI	CTNAG	3 cut(s)	405, 519, 660
DpnI	GATC	4 cut(s)	125, 294, 395, 495
DpnII	GATC	4 cut(s)	123, 292, 393, 493
EaeI	YGGCCR	1 cut(s)	361
Eam1104I	CTCTTC	2 cut(s)	205, 244
EarI	CTCTTC	2 cut(s)	205, 244
Ecl136II	GAGCTC	1 cut(s)	535
Eco130I	CCWWGG	1 cut(s)	790
Eco147I	AGGCCT	1 cut(s)	809
Eco24I	GRGCYC	1 cut(s)	537
Eco47I	GGWCC	3 cut(s)	110, 184, 191
Eco53kI	GAGCTC	1 cut(s)	535
Eco57I	CTGAAG	2 cut(s)	284, 804
Eco88I	CYCGRG	2 cut(s)	13, 383
EcoICRI	GAGCTC	1 cut(s)	535
EcoNI	CCTNNNNNAGG	1 cut(s)	13
EcoO109I	RGGNCCY	1 cut(s)	184
EcoRI	GAATTC	1 cut(s)	582
EcoRII	CCWGG	2 cut(s)	187, 363
EcoT14I	CCWWGG	1 cut(s)	790
EcoT38I	GRGCYC	1 cut(s)	537
ErhI	CCWWGG	1 cut(s)	790
Esp3I	CGTCTC	2 cut(s)	237, 544
FaeI	CATG	2 cut(s)	546, 742
FaiI	YATR	9 cut(s)	44, 151, 153, 155, 347, 492, 526, 544, 740
FaqI	GGGAC	1 cut(s)	197
FatI	CATG	2 cut(s)	542, 738
FbaI	TGATCA	1 cut(s)	393
Fnu4HI	GCNGC	4 cut(s)	88, 422, 477, 480
FokI	GGATG	2 cut(s)	41, 267
FriOI	GRGCYC	1 cut(s)	537
Fsp4HI	GCNGC	4 cut(s)	88, 422, 477, 480
FspBI	CTAG	1 cut(s)	309
GluI	GCNGC	4 cut(s)	88, 422, 477, 480
GsuI	CTGGAG	2 cut(s)	261, 304
HaeIII	GGCC	2 cut(s)	363, 809
HapII	CCGG	3 cut(s)	113, 133, 301
Hin1II	CATG	2 cut(s)	546, 742
HinfI	GANTC	2 cut(s)	172, 368
HpaII	CCGG	3 cut(s)	113, 133, 301
Hpy166II	GTNNAC	1 cut(s)	631
Hpy188I	TCNGA	4 cut(s)	232, 406, 522, 696
Hpy188III	TCNNGA	5 cut(s)	79, 397, 570, 683, 766
Hpy8I	GTNNAC	1 cut(s)	631
HpyAV	CCTTC	4 cut(s)	34, 259, 695, 763
HpyCH4III	ACNGT	2 cut(s)	339, 554
HpyCH4IV	ACGT	1 cut(s)	627
HpyCH4V	TGCA	3 cut(s)	87, 515, 678
HpyF10VI	GCNNNNNNNGC	2 cut(s)	360, 619
HpyF3I	CTNAG	3 cut(s)	405, 519, 660
HpySE526I	ACGT	1 cut(s)	627
Hsp92II	CATG	2 cut(s)	546, 742
KflI	GGGWCCC	1 cut(s)	184
KpnI	GGTACC	1 cut(s)	719
Ksp22I	TGATCA	1 cut(s)	393
Kzo9I	GATC	4 cut(s)	123, 292, 393, 493
LmnI	GCTCC	2 cut(s)	236, 532
Lsp1109I	GCAGC	3 cut(s)	99, 433, 491
LweI	GCATC	3 cut(s)	63, 463, 524
MaeI	CTAG	1 cut(s)	309
MaeII	ACGT	1 cut(s)	627
MaeIII	GTNAC	1 cut(s)	224
MalI	GATC	4 cut(s)	125, 294, 395, 495
MboI	GATC	4 cut(s)	123, 292, 393, 493
MboII	GAAGA	4 cut(s)	133, 192, 261, 808
MflI	RGATCY	2 cut(s)	123, 292
MhlI	GDGCHC	1 cut(s)	537
MlsI	TGGCCA	1 cut(s)	363
MluCI	AATT	5 cut(s)	70, 82, 410, 575, 582
MluNI	TGGCCA	1 cut(s)	363
MlyI	GAGTC	1 cut(s)	362
Mox20I	TGGCCA	1 cut(s)	363
MroXI	GAANNNNTTC	1 cut(s)	269
MscI	TGGCCA	1 cut(s)	363
MseI	TTAA	1 cut(s)	638
Msp20I	TGGCCA	1 cut(s)	363
MspA1I	CMGCKG	1 cut(s)	90
MspI	CCGG	3 cut(s)	113, 133, 301
MspR9I	CCNGG	3 cut(s)	114, 189, 365
Mva1269I	GAATGC	1 cut(s)	678
MvaI	CCWGG	2 cut(s)	189, 365
MwoI	GCNNNNNNNGC	2 cut(s)	360, 619
NciI	CCSGG	1 cut(s)	114
NdeII	GATC	4 cut(s)	123, 292, 393, 493
NlaIII	CATG	2 cut(s)	546, 742
NlaIV	GGNNCC	4 cut(s)	185, 186, 294, 717
PaeR7I	CTCGAG	2 cut(s)	13, 383
PceI	AGGCCT	1 cut(s)	809
PctI	GAATGC	1 cut(s)	678
PdmI	GAANNNNTTC	1 cut(s)	269
PfeI	GAWTC	1 cut(s)	172
PkrI	GCNGC	4 cut(s)	89, 423, 478, 481
PleI	GAGTC	1 cut(s)	362
PpsI	GAGTC	1 cut(s)	362
PpuMI	RGGWCCY	1 cut(s)	184
Psp124BI	GAGCTC	1 cut(s)	537
Psp5II	RGGWCCY	1 cut(s)	184
Psp6I	CCWGG	2 cut(s)	187, 363
PspGI	CCWGG	2 cut(s)	187, 363
PspN4I	GGNNCC	4 cut(s)	185, 186, 294, 717
PspPI	GGNCC	3 cut(s)	110, 184, 191
PspPPI	RGGWCCY	1 cut(s)	184
PspXI	VCTCGAGB	2 cut(s)	13, 383
PstNI	CAGNNNCTG	2 cut(s)	659, 782
PsuI	RGATCY	2 cut(s)	123, 292
RsaI	GTAC	3 cut(s)	556, 626, 717
RsaNI	GTAC	3 cut(s)	555, 625, 716
SacI	GAGCTC	1 cut(s)	537
SaqAI	TTAA	1 cut(s)	638
SatI	GCNGC	4 cut(s)	88, 422, 477, 480
Sau3AI	GATC	4 cut(s)	123, 292, 393, 493
Sau96I	GGNCC	3 cut(s)	110, 184, 191
SchI	GAGTC	1 cut(s)	362
ScrFI	CCNGG	3 cut(s)	114, 189, 365
SduI	GDGCHC	1 cut(s)	537
SfaNI	GCATC	3 cut(s)	63, 463, 524
Sfr274I	CTCGAG	2 cut(s)	13, 383
SinI	GGWCC	3 cut(s)	110, 184, 191
SlaI	CTCGAG	2 cut(s)	13, 383
SmlI	CTYRAG	2 cut(s)	13, 383
SmoI	CTYRAG	2 cut(s)	13, 383
Sse9I	AATT	5 cut(s)	70, 82, 410, 575, 582
SseBI	AGGCCT	1 cut(s)	809
SsiI	CCGC	2 cut(s)	90, 476
SspMI	CTAG	1 cut(s)	309
SstI	GAGCTC	1 cut(s)	537
StuI	AGGCCT	1 cut(s)	809
StyD4I	CCNGG	3 cut(s)	112, 187, 363
StyI	CCWWGG	1 cut(s)	790
TaaI	ACNGT	2 cut(s)	339, 554
TaiI	ACGT	1 cut(s)	630
TaqI	TCGA	5 cut(s)	14, 80, 97, 384, 586
TasI	AATT	5 cut(s)	70, 82, 410, 575, 582
TatI	WGTACW	1 cut(s)	554
TauI	GCSGC	1 cut(s)	479
TfiI	GAWTC	1 cut(s)	172
Tru1I	TTAA	1 cut(s)	638
Tru9I	TTAA	1 cut(s)	638
TseI	GCWGC	3 cut(s)	87, 421, 479
TspDTI	ATGAA	1 cut(s)	305
TspGWI	ACGGA	1 cut(s)	261
VpaK11BI	GGWCC	3 cut(s)	110, 184, 191
XagI	CCTNNNNNAGG	1 cut(s)	13
XapI	RAATTY	2 cut(s)	410, 582
XhoI	CTCGAG	2 cut(s)	13, 383
XmnI	GAANNNNTTC	1 cut(s)	269
XspI	CTAG	1 cut(s)	309

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