Basic Information

Type: gene

Biological Identity

Species

rosa_wichuraiana

Chromosome

Chr3

Orthogroup ID

OG0001148

Physical Location & Seq

Genomic Coordinates Forward (+)

38393761 .. 38398788

Gene Structure 5028 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rw3G027260.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 879 bp

ATGTTCACCAAATATTTGCAAGATGCCTTTAAGGTCCCTCTCGTTATACAACTTACCGACGATGAGAAATGTATGTGGAAAAATCTCACAGTTGAAGAAAGCCAGAGACTAGGAAGGGAAAATGCTAAAGACATCATTGCTTGTGGTTTTGACATAACAAGAACCTTTATCTTCTCCGATTTTGATTATGTTGGTGGTGCCTTCTACAAGAACATGGTGAAGGTCGGAAAGTGTGTCACCTATAATAAGGTTGTTGGCATATTTGGTTTCACCGGTGAAGATCATATAGGAAAAGTTAGTTTTCCACCTGTACAGGCGGTACCATCATTTCCAAGTTCATTTCCACATCTCTTCTCTGGCCAAGATAATCTTCGTTGTTTAATACCCTGTGCGATTGACCAGGATCCTTATTTTAGAATGACCCGAGATGTTGCTCCACGCATTGGATATCACAAGCCTGCTTTAATTGAGTCTCTATTCTTCCCTGCCCTCCAGGGAGAAACAGGAAAAATGTCGGCTAGTGATCCAAATTCTGCCATCTACGTAACTGATTCTGCAAAGGATATTAAGAGCAAGATAAACAAGTTTGCATTTTCAGGGGGACAAGATACAATAGAGAAACACAGAGAGTTGGGAGCAGATCTCGAGGTAGACATTCCCTATAAATATCTGAAATTTTTTCTGGATGATGACATTGAGCTTGCTTATATAGGAAAGGAGTATGGTGCAGGTCGAATGTTGACAGGGGAAGTGAAGCAGAGGCTCATTCAAGTTTTGACAGAAATTGTGGAGAGACATCGTAGGGCTAGAGCTGCTGTCACTGATGAGATGGTGGACGCATTTATGGCAGTGAGGCCCCTCCCAAACATGTTCAACTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003824 GO:0004812 GO:0004830 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005829 GO:0006082 GO:0006139 GO:0006399 GO:0006412 GO:0006418 GO:0006436 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

ko00970 map00970

Pfam Domains

Protein Families

tRNA-synt_1b

Protein Analysis

292

Amino Acids

33.01

Weight (kDa)

6.01

Isoelectric Point (pI)

40.63

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
tRNA-synt_1b	PF00579	122 - 262	2.5e-13	tRNA synthetases class I (W and Y)

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: OG0001148)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G04600 AT3G04600 AT3G04600
fragaria_vesca	FvH4_4g11950 FvH4_4g11950 FvH4_4g11950 FvH4_4g11950 FvH4_5g27321
malus_domestica	MD04G1236500.v1.1 MD12G1255800.v1.1
prunus_persica	Prupe.7G057000_v2.0.a1 Prupe.7G057800_v2.0.a1
pyrus_communis	pycom04g21040 pycom12g23440
rosa_chinensis	RchiOBHm_Chr3g0493481 RchiOBHm_Chr7g0219201 RchiOBHm_Chr7g0219221 RchiOBHm_Chr7g0223011
rosa_laevigata	RLG00000002003 RLG00000002302 RLG00000002303 RLG00000022713
rosa_multiflora	Rmu_sc0000868.1_g000014 Rmu_sc0006373.1_g000002 Rmu_sc0006514.1_g000024 Rmu_sc0007422.1_g000005 Rmu_sc0009785.1_g000024 Rmu_sc0039697.1_g000001
rosa_roxburghii	Rroxscaffold_3G00234440 Rroxscaffold_3G00236350 Rroxscaffold_3G00237890 Rroxscaffold_3G00237970 Rroxscaffold_3G00238030 Rroxscaffold_3G00238960 Rroxscaffold_3G00238970 Rroxscaffold_5G00377610 Rroxscaffold_6G00391570 Rroxscaffold_7G00199590 Rroxscaffold_7G00199600
rosa_rugosa	Rorug07G0177500 Rorug07G0177500 Rorug07G0212800
rosa_samantha	Rh3AG310200 Rh3BG346300 Rh3CG344200 Rh3DG345400 Rh7AG319000 Rh7AG326700 Rh7AG357900 Rh7BG310900 Rh7BG346100 Rh7CG376000 Rh7DG318100 Rh7DG318200 Rh7DG352800
rosa_wichuraiana	Rw3G027260 Rw7G027160 Rw7G030440

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	1 cut(s)	719
Acc65I	GGTACC	1 cut(s)	319
AccB1I	GGYRCC	2 cut(s)	197, 319
AccB7I	CCANNNNNTGG	1 cut(s)	443
AccI	GTMKAC	1 cut(s)	651
AciI	CCGC	1 cut(s)	317
AclWI	GGATC	3 cut(s)	398, 411, 518
AcoI	YGGCCR	1 cut(s)	358
AcsI	RAATTY	2 cut(s)	529, 674
AfaI	GTAC	2 cut(s)	312, 321
AfiI	CCNNNNNNNGG	1 cut(s)	443
AflIII	ACRYGT	1 cut(s)	867
AgeI	ACCGGT	1 cut(s)	272
AgsI	TTSAA	3 cut(s)	95, 770, 874
AjnI	CCWGG	2 cut(s)	399, 492
AjuI	GAANNNNNNNTTGG	2 cut(s)	354, 386
AluBI	AGCT	2 cut(s)	700, 812
AluI	AGCT	2 cut(s)	700, 812
Alw26I	GTCTC	3 cut(s)	100, 477, 787
AlwI	GGATC	3 cut(s)	398, 411, 518
Ama87I	CYCGRG	2 cut(s)	423, 644
AoxI	GGCC	2 cut(s)	358, 854
ApeKI	GCWGC	1 cut(s)	812
ApoI	RAATTY	2 cut(s)	529, 674
AsiGI	ACCGGT	1 cut(s)	272
Asp718I	GGTACC	1 cut(s)	319
AspS9I	GGNCC	2 cut(s)	34, 855
AsuHPI	GGTGA	4 cut(s)	229, 229, 262, 287
AvaI	CYCGRG	2 cut(s)	423, 644
AvaII	GGWCC	1 cut(s)	34
BalI	TGGCCA	1 cut(s)	360
BamHI	GGATCC	1 cut(s)	403
BanI	GGYRCC	2 cut(s)	197, 319
BbvI	GCAGC	1 cut(s)	799
BccI	CCATC	3 cut(s)	331, 545, 823
BciT130I	CCWGG	2 cut(s)	401, 494
BcoDI	GTCTC	3 cut(s)	100, 477, 787
BfaI	CTAG	3 cut(s)	110, 519, 807
BfuAI	ACCTGC	1 cut(s)	719
BglII	AGATCT	1 cut(s)	640
BisI	GCNGC	1 cut(s)	813
BlsI	GCNGC	1 cut(s)	814
Bme1390I	CCNGG	2 cut(s)	401, 494
Bme18I	GGWCC	1 cut(s)	34
BmeT110I	CYCGRG	2 cut(s)	423, 644
BmgT120I	GGNCC	2 cut(s)	34, 855
BmiI	GGNNCC	5 cut(s)	36, 199, 321, 405, 857
BmrFI	CCNGG	2 cut(s)	401, 494
BmsI	GCATC	1 cut(s)	13
BplI	GAGNNNNNCTC	2 cut(s)	627, 659
BpmI	CTGGAG	1 cut(s)	476
BsaAI	YACGTR	1 cut(s)	544
BsaJI	CCNNGG	1 cut(s)	493
BsaWI	WCCGGW	1 cut(s)	272
Bsc4I	CCNNNNNNNGG	1 cut(s)	443
Bse118I	RCCGGY	1 cut(s)	272
Bse3DI	GCAATG	1 cut(s)	135
BseBI	CCWGG	2 cut(s)	401, 494
BseDI	CCNNGG	1 cut(s)	493
BseGI	GGATG	1 cut(s)	691
BseLI	CCNNNNNNNGG	1 cut(s)	443
BseMI	GCAATG	1 cut(s)	135
BseXI	GCAGC	1 cut(s)	799
BsgI	GTGCAG	1 cut(s)	747
BshFI	GGCC	2 cut(s)	360, 856
BshNI	GGYRCC	2 cut(s)	197, 319
BshTI	ACCGGT	1 cut(s)	272
BsiHKCI	CYCGRG	2 cut(s)	423, 644
BsiSI	CCGG	1 cut(s)	273
BslFI	GGGAC	2 cut(s)	20, 615
BslI	CCNNNNNNNGG	1 cut(s)	443
BsmAI	GTCTC	3 cut(s)	100, 477, 787
BsmFI	GGGAC	2 cut(s)	20, 615
BsnI	GGCC	2 cut(s)	360, 856
BsoBI	CYCGRG	2 cut(s)	423, 644
Bsp1407I	TGTACA	1 cut(s)	310
Bsp143I	GATC	4 cut(s)	280, 403, 523, 640
BspACI	CCGC	1 cut(s)	317
BspANI	GGCC	2 cut(s)	360, 856
BspLI	GGNNCC	5 cut(s)	36, 199, 321, 405, 857
BspMI	ACCTGC	1 cut(s)	719
BspPI	GGATC	3 cut(s)	398, 411, 518
BspT107I	GGYRCC	2 cut(s)	197, 319
BsrDI	GCAATG	1 cut(s)	135
BsrFI	RCCGGY	1 cut(s)	272
BsrGI	TGTACA	1 cut(s)	310
BssAI	RCCGGY	1 cut(s)	272
BssECI	CCNNGG	1 cut(s)	493
BssMI	GATC	4 cut(s)	280, 403, 523, 640
Bst2UI	CCWGG	2 cut(s)	401, 494
Bst4CI	ACNGT	1 cut(s)	91
Bst6I	CTCTTC	1 cut(s)	356
BstAUI	TGTACA	1 cut(s)	310
BstBAI	YACGTR	1 cut(s)	544
BstC8I	GCNNGC	2 cut(s)	459, 702
BstF5I	GGATG	1 cut(s)	691
BstKTI	GATC	4 cut(s)	283, 406, 526, 643
BstMAI	GTCTC	3 cut(s)	100, 477, 787
BstMBI	GATC	4 cut(s)	280, 403, 523, 640
BstMWI	GCNNNNNNNGC	2 cut(s)	812, 845
BstNI	CCWGG	2 cut(s)	401, 494
BstNSI	RCATGY	1 cut(s)	871
BstSCI	CCNGG	2 cut(s)	399, 492
BstSNI	TACGTA	1 cut(s)	544
BstV1I	GCAGC	1 cut(s)	799
BstX2I	RGATCY	2 cut(s)	403, 640
BstYI	RGATCY	2 cut(s)	403, 640
BsuRI	GGCC	2 cut(s)	360, 856
BtsCI	GGATG	1 cut(s)	691
BtsI	GCAGTG	1 cut(s)	855
BtsIMutI	CAGTG	2 cut(s)	819, 855
BveI	ACCTGC	1 cut(s)	719
Cac8I	GCNNGC	2 cut(s)	459, 702
Cfr10I	RCCGGY	1 cut(s)	272
Cfr13I	GGNCC	2 cut(s)	34, 855
CseI	GACGC	1 cut(s)	845
Csp6I	GTAC	2 cut(s)	311, 320
CspAI	ACCGGT	1 cut(s)	272
CviAII	CATG	2 cut(s)	214, 868
CviJI	RGCY	9 cut(s)	102, 360, 457, 518, 700, 763, 806, 812, 856
CviKI_1	RGCY	9 cut(s)	102, 360, 457, 518, 700, 763, 806, 812, 856
CviQI	GTAC	2 cut(s)	311, 320
DpnI	GATC	4 cut(s)	282, 405, 525, 642
DpnII	GATC	4 cut(s)	280, 403, 523, 640
EaeI	YGGCCR	1 cut(s)	358
Eam1104I	CTCTTC	1 cut(s)	356
EarI	CTCTTC	1 cut(s)	356
Eco105I	TACGTA	1 cut(s)	544
Eco32I	GATATC	1 cut(s)	449
Eco47I	GGWCC	1 cut(s)	34
Eco88I	CYCGRG	2 cut(s)	423, 644
EcoO109I	RGGNCCY	2 cut(s)	34, 855
EcoRII	CCWGG	2 cut(s)	399, 492
EcoRV	GATATC	1 cut(s)	449
FaeI	CATG	2 cut(s)	217, 871
FalI	AAGNNNNNCTT	2 cut(s)	354, 386
FaqI	GGGAC	2 cut(s)	20, 615
FatI	CATG	2 cut(s)	213, 867
FblI	GTMKAC	1 cut(s)	651
Fnu4HI	GCNGC	1 cut(s)	813
FokI	GGATG	1 cut(s)	698
Fsp4HI	GCNGC	1 cut(s)	813
FspBI	CTAG	3 cut(s)	110, 519, 807
GluI	GCNGC	1 cut(s)	813
GsuI	CTGGAG	1 cut(s)	476
HaeIII	GGCC	2 cut(s)	360, 856
HapII	CCGG	1 cut(s)	273
HgaI	GACGC	1 cut(s)	845
Hin1II	CATG	2 cut(s)	217, 871
HincII	GTYRAC	1 cut(s)	741
HindII	GTYRAC	1 cut(s)	741
HinfI	GANTC	2 cut(s)	470, 551
HpaII	CCGG	1 cut(s)	273
HphI	GGTGA	4 cut(s)	229, 229, 262, 287
Hpy166II	GTNNAC	4 cut(s)	6, 652, 741, 835
Hpy188I	TCNGA	3 cut(s)	178, 227, 672
Hpy188III	TCNNGA	2 cut(s)	644, 683
Hpy8I	GTNNAC	4 cut(s)	6, 652, 741, 835
Hpy99I	CGWCG	1 cut(s)	62
HpyAV	CCTTC	3 cut(s)	108, 211, 214
HpyCH4III	ACNGT	1 cut(s)	91
HpyCH4IV	ACGT	1 cut(s)	543
HpyCH4V	TGCA	4 cut(s)	19, 557, 590, 728
HpyF10VI	GCNNNNNNNGC	2 cut(s)	812, 845
HpySE526I	ACGT	1 cut(s)	543
Hsp92II	CATG	2 cut(s)	217, 871
KpnI	GGTACC	1 cut(s)	323
Kzo9I	GATC	4 cut(s)	280, 403, 523, 640
LmnI	GCTCC	2 cut(s)	439, 635
Lsp1109I	GCAGC	1 cut(s)	799
LweI	GCATC	1 cut(s)	13
MaeI	CTAG	3 cut(s)	110, 519, 807
MaeII	ACGT	1 cut(s)	543
MaeIII	GTNAC	3 cut(s)	235, 544, 817
MalI	GATC	4 cut(s)	282, 405, 525, 642
MboI	GATC	4 cut(s)	280, 403, 523, 640
MboII	GAAGA	6 cut(s)	107, 163, 290, 343, 362, 472
MflI	RGATCY	2 cut(s)	403, 640
MlsI	TGGCCA	1 cut(s)	360
MluCI	AATT	4 cut(s)	465, 529, 674, 783
MluNI	TGGCCA	1 cut(s)	360
MlyI	GAGTC	1 cut(s)	479
MmeI	TCCRAC	1 cut(s)	205
MnlI	CCTC	6 cut(s)	48, 500, 640, 753, 846, 869
Mox20I	TGGCCA	1 cut(s)	360
MscI	TGGCCA	1 cut(s)	360
MseI	TTAA	4 cut(s)	30, 380, 464, 567
Msp20I	TGGCCA	1 cut(s)	360
MspI	CCGG	1 cut(s)	273
MspR9I	CCNGG	2 cut(s)	401, 494
MvaI	CCWGG	2 cut(s)	401, 494
MwoI	GCNNNNNNNGC	2 cut(s)	812, 845
NdeII	GATC	4 cut(s)	280, 403, 523, 640
NlaIII	CATG	2 cut(s)	217, 871
NlaIV	GGNNCC	5 cut(s)	36, 199, 321, 405, 857
NmuCI	GTSAC	2 cut(s)	235, 817
NspI	RCATGY	1 cut(s)	871
PaeR7I	CTCGAG	1 cut(s)	644
PciI	ACATGT	1 cut(s)	867
PfeI	GAWTC	1 cut(s)	551
PflMI	CCANNNNNTGG	1 cut(s)	443
PinAI	ACCGGT	1 cut(s)	272
PkrI	GCNGC	1 cut(s)	814
PleI	GAGTC	1 cut(s)	478
PpsI	GAGTC	1 cut(s)	478
Ppu21I	YACGTR	1 cut(s)	544
PpuMI	RGGWCCY	1 cut(s)	34
PscI	ACATGT	1 cut(s)	867
Psp5II	RGGWCCY	1 cut(s)	34
Psp6I	CCWGG	2 cut(s)	399, 492
PspGI	CCWGG	2 cut(s)	399, 492
PspN4I	GGNNCC	5 cut(s)	36, 199, 321, 405, 857
PspPI	GGNCC	2 cut(s)	34, 855
PspPPI	RGGWCCY	1 cut(s)	34
PsuI	RGATCY	2 cut(s)	403, 640
RsaI	GTAC	2 cut(s)	312, 321
RsaNI	GTAC	2 cut(s)	311, 320
SaqAI	TTAA	4 cut(s)	30, 380, 464, 567
SatI	GCNGC	1 cut(s)	813
Sau3AI	GATC	4 cut(s)	280, 403, 523, 640
Sau96I	GGNCC	2 cut(s)	34, 855
SchI	GAGTC	1 cut(s)	479
ScrFI	CCNGG	2 cut(s)	401, 494
SfaNI	GCATC	1 cut(s)	13
Sfr274I	CTCGAG	1 cut(s)	644
SgrAI	CRCCGGYG	1 cut(s)	272
SinI	GGWCC	1 cut(s)	34
SlaI	CTCGAG	1 cut(s)	644
SmlI	CTYRAG	1 cut(s)	644
SmoI	CTYRAG	1 cut(s)	644
SnaBI	TACGTA	1 cut(s)	544
Sse9I	AATT	4 cut(s)	465, 529, 674, 783
SsiI	CCGC	1 cut(s)	317
SspI	AATATT	1 cut(s)	14
SspMI	CTAG	3 cut(s)	110, 519, 807
StyD4I	CCNGG	2 cut(s)	399, 492
TaaI	ACNGT	1 cut(s)	91
TaiI	ACGT	1 cut(s)	546
TaqI	TCGA	2 cut(s)	645, 733
TasI	AATT	4 cut(s)	465, 529, 674, 783
TatI	WGTACW	1 cut(s)	310
TfiI	GAWTC	1 cut(s)	551
Tru1I	TTAA	4 cut(s)	30, 380, 464, 567
Tru9I	TTAA	4 cut(s)	30, 380, 464, 567
TscAI	CASTG	2 cut(s)	826, 855
TseFI	GTSAC	2 cut(s)	235, 817
TseI	GCWGC	1 cut(s)	812
Tsp45I	GTSAC	2 cut(s)	235, 817
TspDTI	ATGAA	1 cut(s)	327
TspRI	CASTG	2 cut(s)	826, 855
Van91I	CCANNNNNTGG	1 cut(s)	443
VpaK11BI	GGWCC	1 cut(s)	34
XapI	RAATTY	2 cut(s)	529, 674
XceI	RCATGY	1 cut(s)	871
XhoI	CTCGAG	1 cut(s)	644
XmiI	GTMKAC	1 cut(s)	651
XspI	CTAG	3 cut(s)	110, 519, 807

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