Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1D

Orthogroup ID

OG0001659

Physical Location & Seq

Genomic Coordinates Reverse (-)

20354335 .. 20368138

Gene Structure 13804 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1DG110600.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 765 bp

ATGAAGGACAAGGTCCATGCAGAAGTGTCTTCGTGGCGTGCCGGGAAAAAATGCTCAGCGAAATTGAAAGAGAACCCAGCCAGTCAGCAGTCCAAGGCTAAAGCAGGAACCACCCGAGGAACATTCGAGGTAGATCTACCGGAGGCTGAGGCTGGAAAGGTGAAGTTGAGGTTTGCGCCGGAACCAAGTGGTTATCTTCACATTGGGCACTCGAAAGCAGCTTTACTGAATCAGTATTTTGCTCAGCGGCATAAGAAGTATGAAGGTGCTGGAGAGAAGGCAATATCATTCACAAGGAGCATATGGATAGATCGAGCTGATGCAGAGTCGATATCAGTAGATGAGGAAGTGACATTGATGGATTGGGGGAATGCCATTGTTAAGAAGATTGACAAAGACCAAGATGGTAATCTTGCGCTCACAGGGGTTTTGCATCTTGAAGGATCTGTGAAAACCACCAAACTGAAGCTTACCTGGCTGCCTGAAATAGATGAACTGGTTAAGATCTCGTTGATGGAGTTTGATTATCTGATAACAAAGAAGAAGCTTGAGGAAGGCGAGGATTTCGTTGATGTGCTTAACCCATGTACCGAAAAGGAGACAGCAGCCCTTGGGGATCCCAACATGCGAAATCTGAAGTGTGGAGATGTAGTGCAACTTGAGAGGAAAGGATACTTCAGATGTGATGTTCCCTACCTCAAGCCTTCAAAGCCTATTGTTCTCTTTGCAATCCCCGACGGCAGGCAGCAGGCTGGGTTAAAGTGA

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

254

Amino Acids

28.31

Weight (kDa)

8.19

Isoelectric Point (pI)

22.03

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
tRNA-synt_1c	PF00749	53 - 85	2.3e-12	tRNA synthetases class I (E and Q), catalytic domain
tRNA-synt_1c_C	PF03950	81 - 138	5.5e-13	tRNA synthetases class I (E and Q), anti-codon binding domain
tRNA-synt_1c_C2	PF20974	156 - 229	8.2e-16	tRNA synthetases class I (E and Q), anti-codon binding 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)
AciI	CCGC	1 cut(s)	247
AclWI	GGATC	3 cut(s)	451, 611, 624
AcuI	CTGAAG	3 cut(s)	485, 656, 661
AfaI	GTAC	1 cut(s)	589
AfiI	CCNNNNNNNGG	1 cut(s)	741
AgsI	TTSAA	3 cut(s)	67, 440, 708
AjnI	CCWGG	1 cut(s)	473
AluBI	AGCT	4 cut(s)	221, 317, 469, 547
AluI	AGCT	4 cut(s)	221, 317, 469, 547
Alw26I	GTCTC	1 cut(s)	593
AlwI	GGATC	3 cut(s)	451, 611, 624
Ama87I	CYCGRG	1 cut(s)	114
ApeKI	GCWGC	4 cut(s)	218, 478, 605, 745
AspLEI	GCGC	2 cut(s)	178, 418
AspS9I	GGNCC	1 cut(s)	13
AsuC2I	CCSGG	1 cut(s)	43
AsuHPI	GGTGA	1 cut(s)	172
AvaI	CYCGRG	1 cut(s)	114
AvaII	GGWCC	1 cut(s)	13
BaeGI	GKGCMC	1 cut(s)	210
BaeI	ACNNNNGTAYC	2 cut(s)	571, 604
BamHI	GGATCC	1 cut(s)	616
BbsI	GAAGAC	1 cut(s)	21
BbvCI	CCTCAGC	1 cut(s)	147
BbvI	GCAGC	4 cut(s)	230, 465, 617, 757
BccI	CCATC	3 cut(s)	352, 398, 508
BceAI	ACGGC	1 cut(s)	754
BciT130I	CCWGG	1 cut(s)	475
BciVI	GTATCC	1 cut(s)	665
BcnI	CCSGG	1 cut(s)	43
BcoDI	GTCTC	1 cut(s)	593
BfuI	GTATCC	1 cut(s)	665
BglII	AGATCT	2 cut(s)	133, 504
BisI	GCNGC	5 cut(s)	219, 248, 479, 606, 746
BlpI	GCTNAGC	2 cut(s)	55, 243
BlsI	GCNGC	5 cut(s)	220, 249, 480, 607, 747
Bme1390I	CCNGG	2 cut(s)	43, 475
Bme18I	GGWCC	1 cut(s)	13
BmeT110I	CYCGRG	1 cut(s)	114
BmgT120I	GGNCC	1 cut(s)	13
BmiI	GGNNCC	3 cut(s)	109, 183, 618
BmrFI	CCNGG	2 cut(s)	43, 475
BmsI	GCATC	2 cut(s)	310, 442
BpiI	GAAGAC	1 cut(s)	21
BpmI	CTGGAG	1 cut(s)	291
Bpu10I	CCTNAGC	1 cut(s)	147
Bpu1102I	GCTNAGC	2 cut(s)	55, 243
BpuEI	CTTGAG	3 cut(s)	569, 680, 683
BpuMI	CCSGG	1 cut(s)	43
BsaBI	GATNNNNATC	1 cut(s)	408
BsaJI	CCNNGG	3 cut(s)	93, 115, 610
BsaWI	WCCGGW	1 cut(s)	139
BsaXI	ACNNNNNCTCC	2 cut(s)	636, 666
Bsc4I	CCNNNNNNNGG	1 cut(s)	741
Bse1I	ACTGG	2 cut(s)	81, 501
Bse8I	GATNNNNATC	1 cut(s)	408
BseBI	CCWGG	1 cut(s)	475
BseDI	CCNNGG	3 cut(s)	93, 115, 610
BseJI	GATNNNNATC	1 cut(s)	408
BseLI	CCNNNNNNNGG	1 cut(s)	741
BseMII	CTCAG	3 cut(s)	69, 138, 257
BseNI	ACTGG	2 cut(s)	81, 501
BseSI	GKGCMC	1 cut(s)	210
BseXI	GCAGC	4 cut(s)	230, 465, 617, 757
BseYI	CCCAGC	2 cut(s)	76, 752
BsiHKCI	CYCGRG	1 cut(s)	114
BsiSI	CCGG	3 cut(s)	42, 140, 179
BslI	CCNNNNNNNGG	1 cut(s)	741
BsmAI	GTCTC	1 cut(s)	593
BsmI	GAATGC	1 cut(s)	376
BsoBI	CYCGRG	1 cut(s)	114
Bsp1286I	GDGCHC	1 cut(s)	210
Bsp143I	GATC	5 cut(s)	133, 310, 443, 504, 616
Bsp1720I	GCTNAGC	2 cut(s)	55, 243
BspACI	CCGC	1 cut(s)	247
BspCNI	CTCAG	3 cut(s)	68, 139, 256
BspLI	GGNNCC	3 cut(s)	109, 183, 618
BspPI	GGATC	3 cut(s)	451, 611, 624
BsrI	ACTGG	2 cut(s)	81, 501
BssECI	CCNNGG	3 cut(s)	93, 115, 610
BssMI	GATC	5 cut(s)	133, 310, 443, 504, 616
BssT1I	CCWWGG	2 cut(s)	93, 610
Bst2UI	CCWGG	1 cut(s)	475
BstC8I	GCNNGC	3 cut(s)	39, 743, 750
BstDEI	CTNAG	3 cut(s)	55, 147, 243
BstHHI	GCGC	2 cut(s)	178, 418
BstKTI	GATC	5 cut(s)	136, 313, 446, 507, 619
BstMAI	GTCTC	1 cut(s)	593
BstMBI	GATC	5 cut(s)	133, 310, 443, 504, 616
BstMWI	GCNNNNNNNGC	2 cut(s)	475, 709
BstNI	CCWGG	1 cut(s)	475
BstNSI	RCATGY	1 cut(s)	628
BstSCI	CCNGG	2 cut(s)	41, 473
BstSLI	GKGCMC	1 cut(s)	210
BstV1I	GCAGC	4 cut(s)	230, 465, 617, 757
BstV2I	GAAGAC	1 cut(s)	21
BstX2I	RGATCY	4 cut(s)	133, 443, 504, 616
BstYI	RGATCY	4 cut(s)	133, 443, 504, 616
BsuI	GTATCC	1 cut(s)	665
Cac8I	GCNNGC	3 cut(s)	39, 743, 750
CfoI	GCGC	2 cut(s)	178, 418
Cfr13I	GGNCC	1 cut(s)	13
Csp6I	GTAC	1 cut(s)	588
CviAII	CATG	3 cut(s)	17, 585, 625
CviQI	GTAC	1 cut(s)	588
DdeI	CTNAG	3 cut(s)	55, 147, 243
DpnI	GATC	5 cut(s)	135, 312, 445, 506, 618
DpnII	GATC	5 cut(s)	133, 310, 443, 504, 616
Eco130I	CCWWGG	2 cut(s)	93, 610
Eco32I	GATATC	1 cut(s)	333
Eco47I	GGWCC	1 cut(s)	13
Eco57I	CTGAAG	3 cut(s)	485, 656, 661
Eco88I	CYCGRG	1 cut(s)	114
EcoRII	CCWGG	1 cut(s)	473
EcoRV	GATATC	1 cut(s)	333
EcoT14I	CCWWGG	2 cut(s)	93, 610
ErhI	CCWWGG	2 cut(s)	93, 610
FaeI	CATG	3 cut(s)	20, 588, 628
FaiI	YATR	7 cut(s)	18, 252, 261, 302, 304, 586, 626
FatI	CATG	3 cut(s)	16, 584, 624
FauNDI	CATATG	1 cut(s)	302
Fnu4HI	GCNGC	5 cut(s)	219, 248, 479, 606, 746
Fsp4HI	GCNGC	5 cut(s)	219, 248, 479, 606, 746
GlaI	GCGC	2 cut(s)	177, 417
GluI	GCNGC	5 cut(s)	219, 248, 479, 606, 746
GsaI	CCCAGC	2 cut(s)	80, 756
GsuI	CTGGAG	1 cut(s)	291
HapII	CCGG	3 cut(s)	42, 140, 179
HhaI	GCGC	2 cut(s)	178, 418
Hin1II	CATG	3 cut(s)	20, 588, 628
Hin6I	GCGC	2 cut(s)	176, 416
HinP1I	GCGC	2 cut(s)	176, 416
HindIII	AAGCTT	2 cut(s)	467, 545
HinfI	GANTC	2 cut(s)	229, 326
HpaII	CCGG	3 cut(s)	42, 140, 179
HphI	GGTGA	1 cut(s)	172
Hpy188I	TCNGA	3 cut(s)	531, 636, 680
Hpy188III	TCNNGA	1 cut(s)	437
Hpy99I	CGWCG	1 cut(s)	740
HpyAV	CCTTC	5 cut(s)	257, 271, 434, 548, 714
HpyCH4V	TGCA	5 cut(s)	20, 323, 433, 655, 728
HpyF10VI	GCNNNNNNNGC	2 cut(s)	475, 709
HpyF3I	CTNAG	3 cut(s)	55, 147, 243
Hsp92II	CATG	3 cut(s)	20, 588, 628
HspAI	GCGC	2 cut(s)	176, 416
Kzo9I	GATC	5 cut(s)	133, 310, 443, 504, 616
LmnI	GCTCC	1 cut(s)	297
Lsp1109I	GCAGC	4 cut(s)	230, 465, 617, 757
LweI	GCATC	2 cut(s)	310, 442
MaeIII	GTNAC	1 cut(s)	349
MalI	GATC	5 cut(s)	135, 312, 445, 506, 618
MboI	GATC	5 cut(s)	133, 310, 443, 504, 616
MboII	GAAGA	4 cut(s)	21, 188, 397, 553
MflI	RGATCY	4 cut(s)	133, 443, 504, 616
MhlI	GDGCHC	1 cut(s)	210
MluCI	AATT	1 cut(s)	62
MlyI	GAGTC	1 cut(s)	335
MseI	TTAA	4 cut(s)	381, 501, 579, 758
MspA1I	CMGCKG	1 cut(s)	247
MspI	CCGG	3 cut(s)	42, 140, 179
MspR9I	CCNGG	2 cut(s)	43, 475
Mva1269I	GAATGC	1 cut(s)	376
MvaI	CCWGG	1 cut(s)	475
MwoI	GCNNNNNNNGC	2 cut(s)	475, 709
NciI	CCSGG	1 cut(s)	43
NdeI	CATATG	1 cut(s)	302
NdeII	GATC	5 cut(s)	133, 310, 443, 504, 616
NlaIII	CATG	3 cut(s)	20, 588, 628
NlaIV	GGNNCC	3 cut(s)	109, 183, 618
NmuCI	GTSAC	1 cut(s)	349
NspI	RCATGY	1 cut(s)	628
PctI	GAATGC	1 cut(s)	376
PfeI	GAWTC	1 cut(s)	229
PflFI	GACNNNGTC	1 cut(s)	11
PkrI	GCNGC	5 cut(s)	220, 249, 480, 607, 747
PleI	GAGTC	1 cut(s)	334
PpsI	GAGTC	1 cut(s)	334
Psp6I	CCWGG	1 cut(s)	473
PspFI	CCCAGC	2 cut(s)	76, 752
PspGI	CCWGG	1 cut(s)	473
PspN4I	GGNNCC	3 cut(s)	109, 183, 618
PspPI	GGNCC	1 cut(s)	13
PsuI	RGATCY	4 cut(s)	133, 443, 504, 616
PsyI	GACNNNGTC	1 cut(s)	11
RsaI	GTAC	1 cut(s)	589
RsaNI	GTAC	1 cut(s)	588
SaqAI	TTAA	4 cut(s)	381, 501, 579, 758
SatI	GCNGC	5 cut(s)	219, 248, 479, 606, 746
Sau3AI	GATC	5 cut(s)	133, 310, 443, 504, 616
Sau96I	GGNCC	1 cut(s)	13
SchI	GAGTC	1 cut(s)	335
ScrFI	CCNGG	2 cut(s)	43, 475
SduI	GDGCHC	1 cut(s)	210
SfaNI	GCATC	2 cut(s)	310, 442
SinI	GGWCC	1 cut(s)	13
SmlI	CTYRAG	3 cut(s)	548, 659, 698
SmoI	CTYRAG	3 cut(s)	548, 659, 698
Sse9I	AATT	1 cut(s)	62
SsiI	CCGC	1 cut(s)	247
StyD4I	CCNGG	2 cut(s)	41, 473
StyI	CCWWGG	2 cut(s)	93, 610
TaqI	TCGA	4 cut(s)	126, 212, 313, 329
TasI	AATT	1 cut(s)	62
TauI	GCSGC	1 cut(s)	250
TfiI	GAWTC	1 cut(s)	229
Tru1I	TTAA	4 cut(s)	381, 501, 579, 758
Tru9I	TTAA	4 cut(s)	381, 501, 579, 758
TseFI	GTSAC	1 cut(s)	349
TseI	GCWGC	4 cut(s)	218, 478, 605, 745
Tsp45I	GTSAC	1 cut(s)	349
TspDTI	ATGAA	3 cut(s)	17, 276, 507
Tth111I	GACNNNGTC	1 cut(s)	11
VpaK11BI	GGWCC	1 cut(s)	13
XceI	RCATGY	1 cut(s)	628

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