Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4A

Orthogroup ID

OG0009706

Physical Location & Seq

Genomic Coordinates Reverse (-)

47093327 .. 47094387

Gene Structure 1061 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4AG189900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 897 bp

ATGAAAGCAATCAACGTGAACAAGCTCACGAAAGCCGGCTGCAGGGTGAAGATTTTGATTGCAGACTGGTTCGCGAAGATGAACAACAAAATGGGGGGTGACATGCAAAAGATTGAGACCGTGGGACACTACTTCATTGAGGTTTGGAAATCTATAGGAATGGACCTTGAAAAAGTGGAGTTTGTGTGGTCTTCGAAGGAGATTAATTCGAGGGCACATGAGTACTTGCCTCTTGTTATGGACATTGCAGGACGAAACTCGATAGAGAGGATGAAGAGATGTACACAAATTATGGGTCGAGAAGCCGGTGATAACATGCCTTTAGCACAAGCCATGTACCCATGTATGCAATTTGCAGATGTATTCTTTTTGAAGGCTGACATCTGCCAAATGGGAACGGATCAACTCAAAGTGAACATGCTTGCGAGAGAGTACTGCAATCAAATAGAGAAGAAGGACAAGCCTGTGATCTTGTCGCATCGGATGCTGCCCGGCTTGAAGGAAGGGCAGAATAAGATGTCGAAAAGTGATGAGTCCTCCGCCATATTCATGGAAGATGATGAAGCCCAAGTGAACTTGAAAATCAAGAAAGCTTACTGCGTTCCCGGAGAGGTCAAGGGCAATCCGTGTTTGGAGTATGTGCAGCACCTGATTTTCCCATGGTTTAATGAGTTTGTTGTGGAGCGAAGCGAAAAAAATGGCGGAGACATCACTTTCACAAAGTTTGAAGATCTGAGTAAGGCTTATGCAAGCGGCCAGCTTCATCCTGGCGACCTGAAACCGGCATTGGCGAAATCCTTGAACAAAATGTTGGAGCCGGTAAGATCACACTTTAAGAATGACCCGACTGCAAAGCAACTACTACGAAGTGTGAAGAGCTTCAGAGTCACCAGGTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000166 GO:0003674 GO:0003824 GO:0004812 GO:0004831 GO:0005488 GO:0005515 GO:0005524 GO:0006082 GO:0006139 GO:0006399 GO:0006412 GO:0006418 GO:0006437 GO:0006518 GO:0006520 GO:0006725 GO:0006807 GO:0008144 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009987 GO:0010467 GO:0016070 GO:0016597 GO:0016874 GO:0016875 GO:0017076 GO:0019538 GO:0019752 GO:0030554 GO:0031406 GO:0032553 GO:0032555 GO:0032559 GO:0034641 GO:0034645 GO:0034660 GO:0035639 GO:0036094 GO:0042802 GO:0042803 GO:0043038 GO:0043039 GO:0043043 GO:0043167 GO:0043168 GO:0043169 GO:0043170 GO:0043177 GO:0043436 GO:0043603 GO:0043604 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044267 GO:0044271 GO:0044281 GO:0046483 GO:0046983 GO:0071704 GO:0072545 GO:0090304 GO:0097159 GO:0097367 GO:0140098 GO:0140101 GO:1901265 GO:1901360 GO:1901363 GO:1901564 GO:1901566 GO:1901576

KEGG Pathways

Metabolic & Signaling

ko00970 map00970

Pfam Domains

Protein Families

tRNA-synt_1b

Protein Analysis

298

Amino Acids

34.04

Weight (kDa)

9.0

Isoelectric Point (pI)

41.43

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
tRNA-synt_1b	PF00579	5 - 272	1.3e-53	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: OG0009706)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_6g47320 FvH4_6g47330
pyrus_communis	pycom06g08020
rosa_chinensis	RchiOBHm_Chr5g0057211 RchiOBHm_Chr6g0257261 RchiOBHm_Chr6g0275951
rosa_laevigata	RLG00000019640
rosa_multiflora	Rmu_sc0004043.1_g000002 Rmu_sc0009253.1_g000002 Rmu_sc0009253.1_g000003
rosa_roxburghii	Rroxscaffold_2G00106350
rosa_rugosa	Rorug02G0522500
rosa_samantha	Rh2AG397200 Rh2CG383800 Rh4AG189900 Rh4DG188700 Rh6AG209300 Rh6BG213500 Rh6CG216500 Rh6DG205600
rosa_wichuraiana	Rw4G016200 Rw6G018240

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccII	CGCG	1 cut(s)	74
AciI	CCGC	3 cut(s)	540, 702, 753
AclWI	GGATC	1 cut(s)	408
AcoI	YGGCCR	1 cut(s)	754
AcuI	CTGAAG	1 cut(s)	865
AdeI	CACNNNGTG	1 cut(s)	894
AfaI	GTAC	4 cut(s)	224, 283, 338, 434
AfiI	CCNNNNNNNGG	2 cut(s)	42, 781
AgsI	TTSAA	6 cut(s)	170, 373, 499, 580, 728, 802
AjnI	CCWGG	2 cut(s)	766, 890
AjuI	GAANNNNNNNTTGG	4 cut(s)	770, 794, 802, 826
AluBI	AGCT	4 cut(s)	25, 593, 760, 879
AluI	AGCT	4 cut(s)	25, 593, 760, 879
Alw26I	GTCTC	2 cut(s)	110, 699
AlwI	GGATC	1 cut(s)	408
AlwNI	CAGNNNCTG	1 cut(s)	649
AoxI	GGCC	1 cut(s)	754
ApeKI	GCWGC	3 cut(s)	39, 487, 643
ArsI	GACNNNNNNTTYG	2 cut(s)	280, 312
AseI	ATTAAT	1 cut(s)	204
Asp700I	GAANNNNTTC	1 cut(s)	878
AspS9I	GGNCC	1 cut(s)	163
AsuC2I	CCSGG	2 cut(s)	492, 606
AsuHPI	GGTGA	4 cut(s)	58, 110, 320, 880
AsuII	TTCGAA	1 cut(s)	194
AvaII	GGWCC	1 cut(s)	163
BaeGI	GKGCMC	1 cut(s)	217
BbsI	GAAGAC	1 cut(s)	183
BbvI	GCAGC	3 cut(s)	26, 474, 655
BciT130I	CCWGG	2 cut(s)	768, 892
BcnI	CCSGG	2 cut(s)	492, 606
BcoDI	GTCTC	2 cut(s)	110, 699
BfmI	CTRYAG	2 cut(s)	40, 153
BglII	AGATCT	1 cut(s)	730
BisI	GCNGC	4 cut(s)	40, 488, 644, 754
BlsI	GCNGC	4 cut(s)	41, 489, 645, 755
BmcAI	AGTACT	2 cut(s)	224, 434
Bme1390I	CCNGG	4 cut(s)	492, 606, 768, 892
Bme18I	GGWCC	1 cut(s)	163
BmgT120I	GGNCC	1 cut(s)	163
BmiI	GGNNCC	1 cut(s)	816
BmrFI	CCNGG	4 cut(s)	492, 606, 768, 892
BmsI	GCATC	2 cut(s)	474, 487
BpiI	GAAGAC	1 cut(s)	183
Bpu14I	TTCGAA	1 cut(s)	194
BpuMI	CCSGG	2 cut(s)	492, 606
BsaI	GGTCTC	1 cut(s)	110
BsaJI	CCNNGG	2 cut(s)	120, 659
BsaXI	ACNNNNNCTCC	2 cut(s)	170, 200
Bsc4I	CCNNNNNNNGG	2 cut(s)	42, 781
Bse118I	RCCGGY	4 cut(s)	35, 305, 781, 817
Bse1I	ACTGG	1 cut(s)	71
Bse3DI	GCAATG	1 cut(s)	243
BseBI	CCWGG	2 cut(s)	768, 892
BseDI	CCNNGG	2 cut(s)	120, 659
BseGI	GGATG	3 cut(s)	276, 489, 763
BseLI	CCNNNNNNNGG	2 cut(s)	42, 781
BseMI	GCAATG	1 cut(s)	243
BseMII	CTCAG	1 cut(s)	725
BseNI	ACTGG	1 cut(s)	71
BseSI	GKGCMC	1 cut(s)	217
BseXI	GCAGC	3 cut(s)	26, 474, 655
BsgI	GTGCAG	1 cut(s)	662
Bsh1236I	CGCG	1 cut(s)	74
BshFI	GGCC	1 cut(s)	756
BsiSI	CCGG	6 cut(s)	36, 306, 492, 606, 782, 818
BslFI	GGGAC	1 cut(s)	138
BslI	CCNNNNNNNGG	2 cut(s)	42, 781
BsmAI	GTCTC	2 cut(s)	110, 699
BsmFI	GGGAC	1 cut(s)	138
BsnI	GGCC	1 cut(s)	756
Bso31I	GGTCTC	1 cut(s)	110
Bsp119I	TTCGAA	1 cut(s)	194
Bsp1286I	GDGCHC	1 cut(s)	217
Bsp1407I	TGTACA	1 cut(s)	281
Bsp143I	GATC	4 cut(s)	400, 468, 730, 824
Bsp19I	CCATGG	1 cut(s)	659
Bsp68I	TCGCGA	1 cut(s)	74
BspACI	CCGC	3 cut(s)	540, 702, 753
BspANI	GGCC	1 cut(s)	756
BspCNI	CTCAG	1 cut(s)	726
BspFNI	CGCG	1 cut(s)	74
BspLI	GGNNCC	1 cut(s)	816
BspMAI	CTGCAG	1 cut(s)	44
BspPI	GGATC	1 cut(s)	408
BspQI	GCTCTTC	1 cut(s)	869
BspT104I	TTCGAA	1 cut(s)	194
BspTNI	GGTCTC	1 cut(s)	110
BsrDI	GCAATG	1 cut(s)	243
BsrFI	RCCGGY	4 cut(s)	35, 305, 781, 817
BsrGI	TGTACA	1 cut(s)	281
BsrI	ACTGG	1 cut(s)	71
BssAI	RCCGGY	4 cut(s)	35, 305, 781, 817
BssECI	CCNNGG	2 cut(s)	120, 659
BssMI	GATC	4 cut(s)	400, 468, 730, 824
BssT1I	CCWWGG	1 cut(s)	659
Bst2UI	CCWGG	2 cut(s)	768, 892
Bst4CI	ACNGT	1 cut(s)	121
Bst6I	CTCTTC	2 cut(s)	269, 869
BstAPI	GCANNNNNTGC	1 cut(s)	484
BstAUI	TGTACA	1 cut(s)	281
BstBI	TTCGAA	1 cut(s)	194
BstC8I	GCNNGC	4 cut(s)	37, 423, 751, 758
BstDEI	CTNAG	1 cut(s)	734
BstDSI	CCRYGG	2 cut(s)	120, 659
BstF5I	GGATG	3 cut(s)	276, 489, 763
BstFNI	CGCG	1 cut(s)	74
BstKTI	GATC	4 cut(s)	403, 471, 733, 827
BstMAI	GTCTC	2 cut(s)	110, 699
BstMBI	GATC	4 cut(s)	400, 468, 730, 824
BstMWI	GCNNNNNNNGC	1 cut(s)	484
BstNI	CCWGG	2 cut(s)	768, 892
BstNSI	RCATGY	3 cut(s)	106, 319, 421
BstSCI	CCNGG	4 cut(s)	490, 604, 766, 890
BstSFI	CTRYAG	2 cut(s)	40, 153
BstSLI	GKGCMC	1 cut(s)	217
BstUI	CGCG	1 cut(s)	74
BstV1I	GCAGC	3 cut(s)	26, 474, 655
BstV2I	GAAGAC	1 cut(s)	183
BstX2I	RGATCY	1 cut(s)	730
BstXI	CCANNNNNNTGG	1 cut(s)	550
BstYI	RGATCY	1 cut(s)	730
BsuRI	GGCC	1 cut(s)	756
BtgI	CCRYGG	2 cut(s)	120, 659
BtsCI	GGATG	3 cut(s)	276, 489, 763
BtuMI	TCGCGA	1 cut(s)	74
Cac8I	GCNNGC	4 cut(s)	37, 423, 751, 758
CaiI	CAGNNNCTG	1 cut(s)	649
Cfr10I	RCCGGY	4 cut(s)	35, 305, 781, 817
Cfr13I	GGNCC	1 cut(s)	163
CsiI	ACCWGGT	1 cut(s)	890
Csp6I	GTAC	4 cut(s)	223, 282, 337, 433
CviAII	CATG	8 cut(s)	103, 218, 316, 334, 342, 418, 550, 660
CviQI	GTAC	4 cut(s)	223, 282, 337, 433
DdeI	CTNAG	1 cut(s)	734
DpnI	GATC	4 cut(s)	402, 470, 732, 826
DpnII	GATC	4 cut(s)	400, 468, 730, 824
DraIII	CACNNNGTG	1 cut(s)	894
EaeI	YGGCCR	1 cut(s)	754
Eam1104I	CTCTTC	2 cut(s)	269, 869
EarI	CTCTTC	2 cut(s)	269, 869
EciI	GGCGGA	2 cut(s)	529, 717
Eco130I	CCWWGG	1 cut(s)	659
Eco31I	GGTCTC	1 cut(s)	110
Eco47I	GGWCC	1 cut(s)	163
Eco57I	CTGAAG	1 cut(s)	865
EcoRII	CCWGG	2 cut(s)	766, 890
EcoT14I	CCWWGG	1 cut(s)	659
ErhI	CCWWGG	1 cut(s)	659
FaeI	CATG	8 cut(s)	106, 221, 319, 337, 345, 421, 553, 663
FaqI	GGGAC	1 cut(s)	138
FatI	CATG	8 cut(s)	102, 217, 315, 333, 341, 417, 549, 659
Fnu4HI	GCNGC	4 cut(s)	40, 488, 644, 754
FokI	GGATG	3 cut(s)	283, 496, 750
Fsp4HI	GCNGC	4 cut(s)	40, 488, 644, 754
GluI	GCNGC	4 cut(s)	40, 488, 644, 754
HaeIII	GGCC	1 cut(s)	756
HapII	CCGG	6 cut(s)	36, 306, 492, 606, 782, 818
Hin1II	CATG	8 cut(s)	106, 221, 319, 337, 345, 421, 553, 663
HindIII	AAGCTT	1 cut(s)	591
HinfI	GANTC	2 cut(s)	533, 885
HpaII	CCGG	6 cut(s)	36, 306, 492, 606, 782, 818
HphI	GGTGA	4 cut(s)	58, 110, 320, 880
Hpy166II	GTNNAC	4 cut(s)	19, 284, 415, 574
Hpy188I	TCNGA	3 cut(s)	483, 735, 884
Hpy188III	TCNNGA	4 cut(s)	28, 73, 299, 586
Hpy8I	GTNNAC	4 cut(s)	19, 284, 415, 574
HpyAV	CCTTC	5 cut(s)	190, 367, 448, 493, 497
HpyCH4III	ACNGT	1 cut(s)	121
HpyCH4IV	ACGT	1 cut(s)	15
HpyF10VI	GCNNNNNNNGC	1 cut(s)	484
HpyF3I	CTNAG	1 cut(s)	734
HpySE526I	ACGT	1 cut(s)	15
Hsp92II	CATG	8 cut(s)	106, 221, 319, 337, 345, 421, 553, 663
KroI	GCCGGC	1 cut(s)	35
KroNI	GCCGGC	1 cut(s)	37
Kzo9I	GATC	4 cut(s)	400, 468, 730, 824
LguI	GCTCTTC	1 cut(s)	869
LmnI	GCTCC	2 cut(s)	682, 814
Lsp1109I	GCAGC	3 cut(s)	26, 474, 655
LweI	GCATC	2 cut(s)	474, 487
MabI	ACCWGGT	1 cut(s)	890
MaeII	ACGT	1 cut(s)	15
MaeIII	GTNAC	2 cut(s)	98, 886
MalI	GATC	4 cut(s)	402, 470, 732, 826
MboI	GATC	4 cut(s)	400, 468, 730, 824
MboII	GAAGA	8 cut(s)	61, 88, 183, 286, 463, 566, 740, 886
MflI	RGATCY	1 cut(s)	730
MhlI	GDGCHC	1 cut(s)	217
MluCI	AATT	3 cut(s)	205, 288, 350
MlyI	GAGTC	2 cut(s)	542, 894
MmeI	TCCRAC	1 cut(s)	792
MnlI	CCTC	6 cut(s)	133, 204, 240, 261, 547, 604
MroNI	GCCGGC	1 cut(s)	35
MroXI	GAANNNNTTC	1 cut(s)	878
MseI	TTAA	3 cut(s)	204, 666, 834
MslI	CAYNNNNRTG	1 cut(s)	548
MspI	CCGG	6 cut(s)	36, 306, 492, 606, 782, 818
MspR9I	CCNGG	4 cut(s)	492, 606, 768, 892
MvaI	CCWGG	2 cut(s)	768, 892
MvnI	CGCG	1 cut(s)	74
MwoI	GCNNNNNNNGC	1 cut(s)	484
NaeI	GCCGGC	1 cut(s)	37
NciI	CCSGG	2 cut(s)	492, 606
NcoI	CCATGG	1 cut(s)	659
NdeII	GATC	4 cut(s)	400, 468, 730, 824
NgoMIV	GCCGGC	1 cut(s)	35
NlaIII	CATG	8 cut(s)	106, 221, 319, 337, 345, 421, 553, 663
NlaIV	GGNNCC	1 cut(s)	816
NmuCI	GTSAC	2 cut(s)	98, 886
NruI	TCGCGA	1 cut(s)	74
NspI	RCATGY	3 cut(s)	106, 319, 421
NspV	TTCGAA	1 cut(s)	194
PciSI	GCTCTTC	1 cut(s)	869
PdiI	GCCGGC	1 cut(s)	37
PdmI	GAANNNNTTC	1 cut(s)	878
PfoI	TCCNGGA	1 cut(s)	604
PkrI	GCNGC	4 cut(s)	41, 489, 645, 755
PleI	GAGTC	2 cut(s)	541, 893
PpsI	GAGTC	2 cut(s)	541, 893
PshBI	ATTAAT	1 cut(s)	204
Psp6I	CCWGG	2 cut(s)	766, 890
PspGI	CCWGG	2 cut(s)	766, 890
PspN4I	GGNNCC	1 cut(s)	816
PspPI	GGNCC	1 cut(s)	163
PstI	CTGCAG	1 cut(s)	44
PstNI	CAGNNNCTG	1 cut(s)	649
PsuI	RGATCY	1 cut(s)	730
RruI	TCGCGA	1 cut(s)	74
RsaI	GTAC	4 cut(s)	224, 283, 338, 434
RsaNI	GTAC	4 cut(s)	223, 282, 337, 433
RseI	CAYNNNNRTG	1 cut(s)	548
SapI	GCTCTTC	1 cut(s)	869
SaqAI	TTAA	3 cut(s)	204, 666, 834
SatI	GCNGC	4 cut(s)	40, 488, 644, 754
Sau3AI	GATC	4 cut(s)	400, 468, 730, 824
Sau96I	GGNCC	1 cut(s)	163
ScaI	AGTACT	2 cut(s)	224, 434
SchI	GAGTC	2 cut(s)	542, 894
ScrFI	CCNGG	4 cut(s)	492, 606, 768, 892
SduI	GDGCHC	1 cut(s)	217
SexAI	ACCWGGT	1 cut(s)	890
SfaNI	GCATC	2 cut(s)	474, 487
SfcI	CTRYAG	2 cut(s)	40, 153
SfuI	TTCGAA	1 cut(s)	194
SinI	GGWCC	1 cut(s)	163
SmiMI	CAYNNNNRTG	1 cut(s)	548
Sse9I	AATT	3 cut(s)	205, 288, 350
SsiI	CCGC	3 cut(s)	540, 702, 753
StyD4I	CCNGG	4 cut(s)	490, 604, 766, 890
StyI	CCWWGG	1 cut(s)	659
TaaI	ACNGT	1 cut(s)	121
TaiI	ACGT	1 cut(s)	18
TaqI	TCGA	5 cut(s)	194, 209, 260, 298, 521
TasI	AATT	3 cut(s)	205, 288, 350
TatI	WGTACW	3 cut(s)	222, 281, 432
TauI	GCSGC	1 cut(s)	756
Tru1I	TTAA	3 cut(s)	204, 666, 834
Tru9I	TTAA	3 cut(s)	204, 666, 834
TseFI	GTSAC	2 cut(s)	98, 886
TseI	GCWGC	3 cut(s)	39, 487, 643
Tsp45I	GTSAC	2 cut(s)	98, 886
TspDTI	ATGAA	7 cut(s)	17, 95, 124, 287, 538, 576, 752
TspGWI	ACGGA	2 cut(s)	413, 615
VpaK11BI	GGWCC	1 cut(s)	163
VspI	ATTAAT	1 cut(s)	204
XceI	RCATGY	3 cut(s)	106, 319, 421
XcmI	CCANNNNNNNNNTGG	1 cut(s)	764
XmnI	GAANNNNTTC	1 cut(s)	878
ZrmI	AGTACT	2 cut(s)	224, 434

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