Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6B

Orthogroup ID

OG0009706

Physical Location & Seq

Genomic Coordinates Reverse (-)

40320770 .. 40321739

Gene Structure 970 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6BG213500.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 768 bp

ATGCGCCTAAAGACCAACATGAGGTGCGAGCTGATTTTAACCATTGGGGAGCAGTGTATTGAAGTAGACGAGCTTCGGAATCTGCTTGAACGCAAGCCTGAACCCATCGCCTACGACGGGTTCGAACCCTCGGGCAGGATGCACATTGCTCAGGGAGTTATGAAAGCAATCAACGTGAACAAGCTCACGAAAGCCGGTTGCAGGGTGAAGATTTTGATTGCAGACTGGTTCGCGAAGATGAACAACAAAATGGGGGGTGACATGCAAAAGATTGAGATCGTGGAACACTACTTCATTGAGGTTTGGAAATCTATAGGAATGGACCTTGAAAAAGTGGAGTTTGTGTGGTCTTCGAAGGAGATTAATTCGAGGGCACATGAGTACTTGCCTCTTGTTATGGACATTGCAGGACGAAACTCGATAGAGAGGATGAAGAGATGTACACAAATTATGGGTCGAGAAGCCGGTGATAACATGCCTTTAGCACAAGCCATGTACCCATGTATGCAATGTGCAGATGTATTCTTTTTGAAGGCTGACATCTGCCAAATGGGAACGGATCAAAGCAAAGTGAACATGCTTGCGAGAGAGTACTACAATCAAATACAGAAGAAGGACAAGCCTGTGATCTTGTCGCATCAGATGCAGCCAGGCTTGAAGGAAGGGCAGAATAAGATGTCGAAAAGTGATGAGTCCTCCTCCATATTCATGGAAGATGGTGAAGCCCAAGTGAACTTGAAAATCAAGAAAGCTCACTGCGTTCCCTGA

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

255

Amino Acids

29.22

Weight (kDa)

8.05

Isoelectric Point (pI)

45.3

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
tRNA-synt_1b	PF00579	34 - 254	1e-50	tRNA synthetases class I (W and Y)

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Align Labels (Cladogram)

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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)
AccI	GTMKAC	1 cut(s)	66
AccII	CGCG	1 cut(s)	233
AclWI	GGATC	1 cut(s)	567
AfaI	GTAC	4 cut(s)	383, 442, 497, 593
AfiI	CCNNNNNNNGG	4 cut(s)	21, 117, 135, 201
AgsI	TTSAA	6 cut(s)	62, 89, 329, 532, 658, 739
AjnI	CCWGG	1 cut(s)	649
AluBI	AGCT	4 cut(s)	31, 73, 184, 752
AluI	AGCT	4 cut(s)	31, 73, 184, 752
AlwI	GGATC	1 cut(s)	567
Ama87I	CYCGRG	1 cut(s)	130
ApeKI	GCWGC	1 cut(s)	646
ArsI	GACNNNNNNTTYG	2 cut(s)	439, 471
AseI	ATTAAT	1 cut(s)	363
AspLEI	GCGC	1 cut(s)	6
AspS9I	GGNCC	1 cut(s)	322
AsuHPI	GGTGA	4 cut(s)	217, 269, 479, 731
AsuII	TTCGAA	2 cut(s)	123, 353
AvaI	CYCGRG	1 cut(s)	130
AvaII	GGWCC	1 cut(s)	322
BaeGI	GKGCMC	1 cut(s)	376
BarI	GAAGNNNNNNTAC	2 cut(s)	57, 89
BbsI	GAAGAC	1 cut(s)	342
BbvI	GCAGC	1 cut(s)	658
BccI	CCATC	2 cut(s)	113, 710
BciT130I	CCWGG	1 cut(s)	651
BfmI	CTRYAG	1 cut(s)	312
BisI	GCNGC	1 cut(s)	647
BlsI	GCNGC	1 cut(s)	648
BmcAI	AGTACT	2 cut(s)	383, 593
Bme1390I	CCNGG	1 cut(s)	651
Bme18I	GGWCC	1 cut(s)	322
BmeT110I	CYCGRG	1 cut(s)	130
BmgT120I	GGNCC	1 cut(s)	322
BmrFI	CCNGG	1 cut(s)	651
BmsI	GCATC	3 cut(s)	129, 633, 646
BpiI	GAAGAC	1 cut(s)	342
BplI	GAGNNNNNCTC	2 cut(s)	683, 715
Bpu10I	CCTNAGC	1 cut(s)	150
Bpu14I	TTCGAA	2 cut(s)	123, 353
BsaBI	GATNNNNATC	1 cut(s)	275
BsaJI	CCNNGG	1 cut(s)	129
BsaXI	ACNNNNNCTCC	2 cut(s)	329, 359
Bsc4I	CCNNNNNNNGG	4 cut(s)	21, 117, 135, 201
Bse118I	RCCGGY	2 cut(s)	194, 464
Bse1I	ACTGG	1 cut(s)	230
Bse3DI	GCAATG	3 cut(s)	144, 402, 515
Bse8I	GATNNNNATC	1 cut(s)	275
BseBI	CCWGG	1 cut(s)	651
BseDI	CCNNGG	1 cut(s)	129
BseGI	GGATG	2 cut(s)	144, 435
BseJI	GATNNNNATC	1 cut(s)	275
BseLI	CCNNNNNNNGG	4 cut(s)	21, 117, 135, 201
BseMI	GCAATG	3 cut(s)	144, 402, 515
BseMII	CTCAG	1 cut(s)	164
BseNI	ACTGG	1 cut(s)	230
BseRI	GAGGAG	1 cut(s)	688
BseSI	GKGCMC	1 cut(s)	376
BseXI	GCAGC	1 cut(s)	658
BsgI	GTGCAG	1 cut(s)	534
Bsh1236I	CGCG	1 cut(s)	233
BsiHKCI	CYCGRG	1 cut(s)	130
BsiSI	CCGG	2 cut(s)	195, 465
BslI	CCNNNNNNNGG	4 cut(s)	21, 117, 135, 201
BsoBI	CYCGRG	1 cut(s)	130
Bsp119I	TTCGAA	2 cut(s)	123, 353
Bsp1286I	GDGCHC	1 cut(s)	376
Bsp1407I	TGTACA	1 cut(s)	440
Bsp143I	GATC	3 cut(s)	276, 559, 627
Bsp68I	TCGCGA	1 cut(s)	233
BspCNI	CTCAG	1 cut(s)	163
BspFNI	CGCG	1 cut(s)	233
BspPI	GGATC	1 cut(s)	567
BspT104I	TTCGAA	2 cut(s)	123, 353
BsrDI	GCAATG	3 cut(s)	144, 402, 515
BsrFI	RCCGGY	2 cut(s)	194, 464
BsrGI	TGTACA	1 cut(s)	440
BsrI	ACTGG	1 cut(s)	230
BssAI	RCCGGY	2 cut(s)	194, 464
BssECI	CCNNGG	1 cut(s)	129
BssMI	GATC	3 cut(s)	276, 559, 627
Bst2UI	CCWGG	1 cut(s)	651
Bst6I	CTCTTC	1 cut(s)	428
BstAPI	GCANNNNNTGC	1 cut(s)	643
BstAUI	TGTACA	1 cut(s)	440
BstBI	TTCGAA	2 cut(s)	123, 353
BstC8I	GCNNGC	3 cut(s)	29, 95, 582
BstDEI	CTNAG	1 cut(s)	150
BstENI	CCTNNNNNAGG	1 cut(s)	133
BstF5I	GGATG	2 cut(s)	144, 435
BstFNI	CGCG	1 cut(s)	233
BstHHI	GCGC	1 cut(s)	6
BstKTI	GATC	3 cut(s)	279, 562, 630
BstMBI	GATC	3 cut(s)	276, 559, 627
BstMWI	GCNNNNNNNGC	1 cut(s)	643
BstNI	CCWGG	1 cut(s)	651
BstNSI	RCATGY	3 cut(s)	265, 478, 580
BstSCI	CCNGG	1 cut(s)	649
BstSFI	CTRYAG	1 cut(s)	312
BstSLI	GKGCMC	1 cut(s)	376
BstUI	CGCG	1 cut(s)	233
BstV1I	GCAGC	1 cut(s)	658
BstV2I	GAAGAC	1 cut(s)	342
BstXI	CCANNNNNNTGG	1 cut(s)	709
BtgZI	GCGATG	1 cut(s)	91
BtsCI	GGATG	2 cut(s)	144, 435
BtsI	GCAGTG	2 cut(s)	59, 754
BtsIMutI	CAGTG	2 cut(s)	59, 754
BtuMI	TCGCGA	1 cut(s)	233
Cac8I	GCNNGC	3 cut(s)	29, 95, 582
CfoI	GCGC	1 cut(s)	6
Cfr10I	RCCGGY	2 cut(s)	194, 464
Cfr13I	GGNCC	1 cut(s)	322
Csp6I	GTAC	4 cut(s)	382, 441, 496, 592
CviAII	CATG	8 cut(s)	19, 262, 377, 475, 493, 501, 577, 709
CviQI	GTAC	4 cut(s)	382, 441, 496, 592
DdeI	CTNAG	1 cut(s)	150
DpnI	GATC	3 cut(s)	278, 561, 629
DpnII	GATC	3 cut(s)	276, 559, 627
Eam1104I	CTCTTC	1 cut(s)	428
EarI	CTCTTC	1 cut(s)	428
Eco47I	GGWCC	1 cut(s)	322
Eco88I	CYCGRG	1 cut(s)	130
EcoNI	CCTNNNNNAGG	1 cut(s)	133
EcoRII	CCWGG	1 cut(s)	649
FaeI	CATG	8 cut(s)	22, 265, 380, 478, 496, 504, 580, 712
FatI	CATG	8 cut(s)	18, 261, 376, 474, 492, 500, 576, 708
FblI	GTMKAC	1 cut(s)	66
Fnu4HI	GCNGC	1 cut(s)	647
FokI	GGATG	2 cut(s)	151, 442
Fsp4HI	GCNGC	1 cut(s)	647
GlaI	GCGC	1 cut(s)	5
GluI	GCNGC	1 cut(s)	647
HapII	CCGG	2 cut(s)	195, 465
HhaI	GCGC	1 cut(s)	6
Hin1II	CATG	8 cut(s)	22, 265, 380, 478, 496, 504, 580, 712
Hin6I	GCGC	1 cut(s)	4
HinP1I	GCGC	1 cut(s)	4
HinfI	GANTC	2 cut(s)	79, 692
HpaII	CCGG	2 cut(s)	195, 465
HphI	GGTGA	4 cut(s)	217, 269, 479, 731
Hpy166II	GTNNAC	5 cut(s)	67, 178, 443, 574, 733
Hpy188I	TCNGA	2 cut(s)	78, 642
Hpy188III	TCNNGA	4 cut(s)	187, 232, 458, 745
Hpy8I	GTNNAC	5 cut(s)	67, 178, 443, 574, 733
Hpy99I	CGWCG	1 cut(s)	119
HpyAV	CCTTC	5 cut(s)	349, 526, 607, 652, 656
HpyCH4IV	ACGT	1 cut(s)	174
HpyCH4V	TGCA	8 cut(s)	142, 201, 221, 265, 407, 508, 515, 646
HpyF10VI	GCNNNNNNNGC	1 cut(s)	643
HpyF3I	CTNAG	1 cut(s)	150
HpySE526I	ACGT	1 cut(s)	174
Hsp92II	CATG	8 cut(s)	22, 265, 380, 478, 496, 504, 580, 712
HspAI	GCGC	1 cut(s)	4
Kzo9I	GATC	3 cut(s)	276, 559, 627
LmnI	GCTCC	1 cut(s)	49
Lsp1109I	GCAGC	1 cut(s)	658
LweI	GCATC	3 cut(s)	129, 633, 646
MaeII	ACGT	1 cut(s)	174
MaeIII	GTNAC	1 cut(s)	257
MalI	GATC	3 cut(s)	278, 561, 629
MboI	GATC	3 cut(s)	276, 559, 627
MboII	GAAGA	6 cut(s)	220, 247, 342, 445, 622, 725
MhlI	GDGCHC	1 cut(s)	376
MluCI	AATT	2 cut(s)	364, 447
MlyI	GAGTC	1 cut(s)	701
MnlI	CCTC	8 cut(s)	15, 139, 292, 363, 399, 420, 706, 709
MseI	TTAA	2 cut(s)	38, 363
MslI	CAYNNNNRTG	1 cut(s)	707
MspI	CCGG	2 cut(s)	195, 465
MspR9I	CCNGG	1 cut(s)	651
MvaI	CCWGG	1 cut(s)	651
MvnI	CGCG	1 cut(s)	233
MwoI	GCNNNNNNNGC	1 cut(s)	643
NdeII	GATC	3 cut(s)	276, 559, 627
NlaIII	CATG	8 cut(s)	22, 265, 380, 478, 496, 504, 580, 712
NmuCI	GTSAC	1 cut(s)	257
NruI	TCGCGA	1 cut(s)	233
NspI	RCATGY	3 cut(s)	265, 478, 580
NspV	TTCGAA	2 cut(s)	123, 353
PcsI	WCGNNNNNNNCGW	1 cut(s)	120
PfeI	GAWTC	1 cut(s)	79
PkrI	GCNGC	1 cut(s)	648
PleI	GAGTC	1 cut(s)	700
PpsI	GAGTC	1 cut(s)	700
PshBI	ATTAAT	1 cut(s)	363
Psp6I	CCWGG	1 cut(s)	649
PspGI	CCWGG	1 cut(s)	649
PspPI	GGNCC	1 cut(s)	322
RruI	TCGCGA	1 cut(s)	233
RsaI	GTAC	4 cut(s)	383, 442, 497, 593
RsaNI	GTAC	4 cut(s)	382, 441, 496, 592
RseI	CAYNNNNRTG	1 cut(s)	707
SaqAI	TTAA	2 cut(s)	38, 363
SatI	GCNGC	1 cut(s)	647
Sau3AI	GATC	3 cut(s)	276, 559, 627
Sau96I	GGNCC	1 cut(s)	322
ScaI	AGTACT	2 cut(s)	383, 593
SchI	GAGTC	1 cut(s)	701
ScrFI	CCNGG	1 cut(s)	651
SduI	GDGCHC	1 cut(s)	376
SetI	ASST	8 cut(s)	26, 33, 75, 177, 186, 303, 327, 754
SfaNI	GCATC	3 cut(s)	129, 633, 646
SfcI	CTRYAG	1 cut(s)	312
SfuI	TTCGAA	2 cut(s)	123, 353
SinI	GGWCC	1 cut(s)	322
SmiMI	CAYNNNNRTG	1 cut(s)	707
Sse9I	AATT	2 cut(s)	364, 447
StyD4I	CCNGG	1 cut(s)	649
TaiI	ACGT	1 cut(s)	177
TaqI	TCGA	6 cut(s)	123, 353, 368, 419, 457, 680
TasI	AATT	2 cut(s)	364, 447
TatI	WGTACW	3 cut(s)	381, 440, 591
TfiI	GAWTC	1 cut(s)	79
Tru1I	TTAA	2 cut(s)	38, 363
Tru9I	TTAA	2 cut(s)	38, 363
TscAI	CASTG	2 cut(s)	59, 761
TseFI	GTSAC	1 cut(s)	257
TseI	GCWGC	1 cut(s)	646
Tsp45I	GTSAC	1 cut(s)	257
TspDTI	ATGAA	5 cut(s)	176, 254, 283, 446, 697
TspGWI	ACGGA	1 cut(s)	572
TspRI	CASTG	2 cut(s)	59, 761
VpaK11BI	GGWCC	1 cut(s)	322
VspI	ATTAAT	1 cut(s)	363
XagI	CCTNNNNNAGG	1 cut(s)	133
XceI	RCATGY	3 cut(s)	265, 478, 580
XmiI	GTMKAC	1 cut(s)	66
ZrmI	AGTACT	2 cut(s)	383, 593

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