Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4B

Orthogroup ID

OG0004146

Physical Location & Seq

Genomic Coordinates Forward (+)

46333651 .. 46334862

Gene Structure 1212 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4BG290800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 657 bp

ATGGACATTTACTATGACAATGGGTGCAAGCTGCCTTTTGCTGTTGCTCAAGTTGGCCAGGCTTTTCGAAACGAGATATCTCCTCGCCAAGGCCTGTTGAGAGTCCGTGAGTTCACACTCGCGGAGATTGAGCACTTTGTTGATCCTGAAGACAAATCTCACCTGAAATTCCCCAGCGTTGAGAAGTTGGAACTTCTGATGTTCCCAAGGGATGAACAAAAGCCTGGGCAATCTGCAAGATTAATCTCAGTGGGTGAAGCAGTGCATTCTAAGATTGTGGAGAATGAAACTCTTGGCTACTTCATTGGGAGAGTATATCTCTTCCTCACTCGTCTGGGTATAGACAAGAACCGTTTGAGGTTCAGGCAACACCTTGCTAAAGAAATGGATCACTATGCTGCTGACTGCTGGGATGCTGAGATTGAGACTTCCTATGGCTGGATTGAGTGCGTCGATATTGCAGGTAGATCTGCATATGACTTGAAGGCTCATTCGGGGAAAAGTCGTCTTGAGGCACATGAACAACTTTCAGAACCAAGAGACGTGGAGAAATTGGTTATATCTCCGGTAAAGAAACAGATTGGCCCTGCTTTCGGGAAGAAGCAAAAGAATGTACTTGAAGCTTTGGAGGTTATGAATGAAGAAGAAATTTCATAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000959 GO:0003674 GO:0003824 GO:0004812 GO:0004820 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005739 GO:0005768 GO:0005794 GO:0005802 GO:0005829 GO:0006082 GO:0006139 GO:0006399 GO:0006412 GO:0006418 GO:0006426 GO:0006518 GO:0006520 GO:0006725 GO:0006753 GO:0006793 GO:0006796 GO:0006807 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009117 GO:0009165 GO:0009987 GO:0010035 GO:0010038 GO:0010467 GO:0012505 GO:0015959 GO:0015960 GO:0015965 GO:0015966 GO:0016070 GO:0016874 GO:0016875 GO:0018130 GO:0019438 GO:0019538 GO:0019637 GO:0019752 GO:0031410 GO:0031982 GO:0031984 GO:0032543 GO:0034641 GO:0034645 GO:0034654 GO:0034660 GO:0042221 GO:0043038 GO:0043039 GO:0043043 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043436 GO:0043603 GO:0043604 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044267 GO:0044271 GO:0044281 GO:0044422 GO:0044424 GO:0044431 GO:0044444 GO:0044446 GO:0044464 GO:0046483 GO:0046686 GO:0046983 GO:0050896 GO:0055086 GO:0070127 GO:0070150 GO:0071704 GO:0090304 GO:0090407 GO:0097708 GO:0098791 GO:0140053 GO:0140098 GO:0140101 GO:1901293 GO:1901360 GO:1901362 GO:1901564 GO:1901566 GO:1901576

KEGG Pathways

Metabolic & Signaling

ko00970 map00970

Pfam Domains

Protein Families

HGTP_anticodon WHEP-TRS tRNA-synt_2b

Protein Analysis

218

Amino Acids

24.98

Weight (kDa)

5.71

Isoelectric Point (pI)

45.46

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
tRNA-synt_2b	PF00587	10 - 53	2.2e-07	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

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: OG0004146)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G44740 AT3G44740 AT3G44740 AT3G44740 AT3G44740
fragaria_vesca	FvH4_4g22610
pyrus_communis	pycom13g12520
rosa_chinensis	RchiOBHm_Chr6g0269311 RchiOBHm_Chr6g0269321
rosa_laevigata	RLG00000013857 RLG00000015502 RLG00000016357 RLG00000020769 RLG00000027693 RLG00000034245
rosa_multiflora	Rmu_co8414589.1_g000001 Rmu_sc0003673.1_g000011 Rmu_ssc0000291.1_g000006 Rmu_ssc0000291.1_g000008
rosa_roxburghii	Rroxscaffold_2G00113850 Rroxscaffold_7G00198810 Rroxscaffold_7G00198830
rosa_rugosa	Rorug03G0065500
rosa_samantha	Rh3CG264600 Rh3DG260500 Rh4AG284800 Rh4BG290800 Rh4CG306800 Rh6AG167500 Rh6AG167600 Rh6BG172700 Rh6CG166700 Rh6DG158400

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	1 cut(s)	452
AccII	CGCG	1 cut(s)	122
AciI	CCGC	1 cut(s)	122
AclWI	GGATC	2 cut(s)	137, 396
AcoI	YGGCCR	1 cut(s)	55
AcsI	RAATTY	2 cut(s)	167, 648
AcuI	CTGAAG	1 cut(s)	168
AfaI	GTAC	1 cut(s)	615
AfiI	CCNNNNNNNGG	3 cut(s)	89, 438, 593
AgsI	TTSAA	2 cut(s)	484, 620
AjiI	CACGTC	1 cut(s)	544
AjnI	CCWGG	2 cut(s)	57, 223
AluBI	AGCT	2 cut(s)	31, 623
AluI	AGCT	2 cut(s)	31, 623
Alw21I	GWGCWC	1 cut(s)	135
Alw26I	GTCTC	2 cut(s)	419, 534
AlwI	GGATC	2 cut(s)	137, 396
AoxI	GGCC	3 cut(s)	55, 91, 583
ApeKI	GCWGC	2 cut(s)	31, 398
ApoI	RAATTY	2 cut(s)	167, 648
AseI	ATTAAT	1 cut(s)	242
AspS9I	GGNCC	1 cut(s)	584
AsuHPI	GGTGA	2 cut(s)	152, 266
AsuII	TTCGAA	1 cut(s)	67
BalI	TGGCCA	1 cut(s)	57
BbsI	GAAGAC	1 cut(s)	156
Bbv12I	GWGCWC	1 cut(s)	135
BbvI	GCAGC	2 cut(s)	18, 385
BciT130I	CCWGG	2 cut(s)	59, 225
BcoDI	GTCTC	2 cut(s)	419, 534
BfuAI	ACCTGC	1 cut(s)	452
BglII	AGATCT	1 cut(s)	467
BisI	GCNGC	2 cut(s)	32, 399
BlsI	GCNGC	2 cut(s)	33, 400
Bme1390I	CCNGG	2 cut(s)	59, 225
BmgBI	CACGTC	1 cut(s)	544
BmgT120I	GGNCC	1 cut(s)	584
BmrFI	CCNGG	2 cut(s)	59, 225
BmsI	GCATC	1 cut(s)	403
BpiI	GAAGAC	1 cut(s)	156
BplI	GAGNNNNNCTC	2 cut(s)	303, 335
Bpu14I	TTCGAA	1 cut(s)	67
BpuEI	CTTGAG	2 cut(s)	33, 530
BsaJI	CCNNGG	3 cut(s)	88, 206, 224
BsaWI	WCCGGW	1 cut(s)	565
Bsc4I	CCNNNNNNNGG	3 cut(s)	89, 438, 593
BseBI	CCWGG	2 cut(s)	59, 225
BseDI	CCNNGG	3 cut(s)	88, 206, 224
BseGI	GGATG	2 cut(s)	217, 418
BseLI	CCNNNNNNNGG	3 cut(s)	89, 438, 593
BseMII	CTCAG	2 cut(s)	261, 408
BseRI	GAGGAG	1 cut(s)	72
BseXI	GCAGC	2 cut(s)	18, 385
BseYI	CCCAGC	2 cut(s)	173, 408
Bsh1236I	CGCG	1 cut(s)	122
BshFI	GGCC	3 cut(s)	57, 93, 585
BsiHKAI	GWGCWC	1 cut(s)	135
BsiSI	CCGG	1 cut(s)	566
BslI	CCNNNNNNNGG	3 cut(s)	89, 438, 593
BsmAI	GTCTC	2 cut(s)	419, 534
BsmBI	CGTCTC	1 cut(s)	534
BsmI	GAATGC	1 cut(s)	265
BsnI	GGCC	3 cut(s)	57, 93, 585
Bsp119I	TTCGAA	1 cut(s)	67
Bsp1286I	GDGCHC	1 cut(s)	135
Bsp143I	GATC	3 cut(s)	142, 388, 467
BspACI	CCGC	1 cut(s)	122
BspANI	GGCC	3 cut(s)	57, 93, 585
BspCNI	CTCAG	2 cut(s)	260, 409
BspFNI	CGCG	1 cut(s)	122
BspMI	ACCTGC	1 cut(s)	452
BspPI	GGATC	2 cut(s)	137, 396
BspT104I	TTCGAA	1 cut(s)	67
BssECI	CCNNGG	3 cut(s)	88, 206, 224
BssMI	GATC	3 cut(s)	142, 388, 467
BssT1I	CCWWGG	2 cut(s)	88, 206
Bst2UI	CCWGG	2 cut(s)	59, 225
Bst4CI	ACNGT	1 cut(s)	353
Bst6I	CTCTTC	1 cut(s)	326
BstBI	TTCGAA	1 cut(s)	67
BstC8I	GCNNGC	1 cut(s)	29
BstDEI	CTNAG	3 cut(s)	247, 270, 417
BstENI	CCTNNNNNAGG	1 cut(s)	87
BstF5I	GGATG	2 cut(s)	217, 418
BstFNI	CGCG	1 cut(s)	122
BstKTI	GATC	3 cut(s)	145, 391, 470
BstMAI	GTCTC	2 cut(s)	419, 534
BstMBI	GATC	3 cut(s)	142, 388, 467
BstNI	CCWGG	2 cut(s)	59, 225
BstSCI	CCNGG	2 cut(s)	57, 223
BstUI	CGCG	1 cut(s)	122
BstV1I	GCAGC	2 cut(s)	18, 385
BstV2I	GAAGAC	1 cut(s)	156
BstX2I	RGATCY	1 cut(s)	467
BstYI	RGATCY	1 cut(s)	467
BsuRI	GGCC	3 cut(s)	57, 93, 585
BtrI	CACGTC	1 cut(s)	544
BtsCI	GGATG	2 cut(s)	217, 418
BtsI	GCAGTG	1 cut(s)	267
BtsIMutI	CAGTG	2 cut(s)	255, 267
BveI	ACCTGC	1 cut(s)	452
Cac8I	GCNNGC	1 cut(s)	29
Cfr13I	GGNCC	1 cut(s)	584
CseI	GACGC	1 cut(s)	439
Csp6I	GTAC	1 cut(s)	614
CspCI	CAANNNNNGTGG	2 cut(s)	525, 560
CviAII	CATG	1 cut(s)	518
CviQI	GTAC	1 cut(s)	614
DdeI	CTNAG	3 cut(s)	247, 270, 417
DpnI	GATC	3 cut(s)	144, 390, 469
DpnII	GATC	3 cut(s)	142, 388, 467
EaeI	YGGCCR	1 cut(s)	55
Eam1104I	CTCTTC	1 cut(s)	326
EarI	CTCTTC	1 cut(s)	326
Eco130I	CCWWGG	2 cut(s)	88, 206
Eco147I	AGGCCT	1 cut(s)	93
Eco32I	GATATC	1 cut(s)	78
Eco57I	CTGAAG	1 cut(s)	168
EcoNI	CCTNNNNNAGG	1 cut(s)	87
EcoRII	CCWGG	2 cut(s)	57, 223
EcoRV	GATATC	1 cut(s)	78
EcoT14I	CCWWGG	2 cut(s)	88, 206
ErhI	CCWWGG	2 cut(s)	88, 206
Esp3I	CGTCTC	1 cut(s)	534
FaeI	CATG	1 cut(s)	521
FatI	CATG	1 cut(s)	517
FauNDI	CATATG	1 cut(s)	475
Fnu4HI	GCNGC	2 cut(s)	32, 399
FokI	GGATG	2 cut(s)	224, 425
Fsp4HI	GCNGC	2 cut(s)	32, 399
GluI	GCNGC	2 cut(s)	32, 399
GsaI	CCCAGC	2 cut(s)	177, 412
HaeIII	GGCC	3 cut(s)	57, 93, 585
HapII	CCGG	1 cut(s)	566
HgaI	GACGC	1 cut(s)	439
Hin1II	CATG	1 cut(s)	521
HindIII	AAGCTT	1 cut(s)	621
HinfI	GANTC	1 cut(s)	102
HpaII	CCGG	1 cut(s)	566
HphI	GGTGA	2 cut(s)	152, 266
Hpy166II	GTNNAC	1 cut(s)	114
Hpy188I	TCNGA	2 cut(s)	198, 532
Hpy188III	TCNNGA	3 cut(s)	146, 509, 595
Hpy8I	GTNNAC	1 cut(s)	114
Hpy99I	CGWCG	1 cut(s)	455
HpyAV	CCTTC	1 cut(s)	478
HpyCH4III	ACNGT	1 cut(s)	353
HpyCH4IV	ACGT	1 cut(s)	543
HpyCH4V	TGCA	5 cut(s)	27, 236, 265, 461, 473
HpyF3I	CTNAG	3 cut(s)	247, 270, 417
HpySE526I	ACGT	1 cut(s)	543
Hsp92II	CATG	1 cut(s)	521
Kzo9I	GATC	3 cut(s)	142, 388, 467
Lsp1109I	GCAGC	2 cut(s)	18, 385
LweI	GCATC	1 cut(s)	403
MaeII	ACGT	1 cut(s)	543
MalI	GATC	3 cut(s)	144, 390, 469
MboI	GATC	3 cut(s)	142, 388, 467
MboII	GAAGA	5 cut(s)	161, 313, 610, 653, 656
MflI	RGATCY	1 cut(s)	467
MhlI	GDGCHC	1 cut(s)	135
MlsI	TGGCCA	1 cut(s)	57
MluCI	AATT	3 cut(s)	167, 551, 648
MluNI	TGGCCA	1 cut(s)	57
MlyI	GAGTC	1 cut(s)	111
MmeI	TCCRAC	1 cut(s)	168
MnlI	CCTC	5 cut(s)	93, 335, 351, 505, 622
Mox20I	TGGCCA	1 cut(s)	57
MscI	TGGCCA	1 cut(s)	57
MseI	TTAA	1 cut(s)	242
Msp20I	TGGCCA	1 cut(s)	57
MspI	CCGG	1 cut(s)	566
MspR9I	CCNGG	2 cut(s)	59, 225
Mva1269I	GAATGC	1 cut(s)	265
MvaI	CCWGG	2 cut(s)	59, 225
MvnI	CGCG	1 cut(s)	122
NdeI	CATATG	1 cut(s)	475
NdeII	GATC	3 cut(s)	142, 388, 467
NlaIII	CATG	1 cut(s)	521
NspV	TTCGAA	1 cut(s)	67
PceI	AGGCCT	1 cut(s)	93
PctI	GAATGC	1 cut(s)	265
PkrI	GCNGC	2 cut(s)	33, 400
PleI	GAGTC	1 cut(s)	110
PpsI	GAGTC	1 cut(s)	110
PshBI	ATTAAT	1 cut(s)	242
Psp6I	CCWGG	2 cut(s)	57, 223
PspFI	CCCAGC	2 cut(s)	173, 408
PspGI	CCWGG	2 cut(s)	57, 223
PspPI	GGNCC	1 cut(s)	584
PsuI	RGATCY	1 cut(s)	467
RsaI	GTAC	1 cut(s)	615
RsaNI	GTAC	1 cut(s)	614
SaqAI	TTAA	1 cut(s)	242
SatI	GCNGC	2 cut(s)	32, 399
Sau3AI	GATC	3 cut(s)	142, 388, 467
Sau96I	GGNCC	1 cut(s)	584
SchI	GAGTC	1 cut(s)	111
ScrFI	CCNGG	2 cut(s)	59, 225
SduI	GDGCHC	1 cut(s)	135
SetI	ASST	8 cut(s)	33, 165, 362, 375, 466, 546, 625, 633
SfaNI	GCATC	1 cut(s)	403
SfuI	TTCGAA	1 cut(s)	67
SmlI	CTYRAG	2 cut(s)	48, 509
SmoI	CTYRAG	2 cut(s)	48, 509
Sse9I	AATT	3 cut(s)	167, 551, 648
SseBI	AGGCCT	1 cut(s)	93
SsiI	CCGC	1 cut(s)	122
StuI	AGGCCT	1 cut(s)	93
StyD4I	CCNGG	2 cut(s)	57, 223
StyI	CCWWGG	2 cut(s)	88, 206
TaaI	ACNGT	1 cut(s)	353
TaiI	ACGT	1 cut(s)	546
TaqI	TCGA	2 cut(s)	67, 453
TasI	AATT	3 cut(s)	167, 551, 648
TatI	WGTACW	1 cut(s)	613
Tru1I	TTAA	1 cut(s)	242
Tru9I	TTAA	1 cut(s)	242
TscAI	CASTG	2 cut(s)	255, 267
TseI	GCWGC	2 cut(s)	31, 398
TspDTI	ATGAA	7 cut(s)	228, 292, 300, 534, 642, 650, 654
TspGWI	ACGGA	1 cut(s)	95
TspRI	CASTG	2 cut(s)	255, 267
VspI	ATTAAT	1 cut(s)	242
XagI	CCTNNNNNAGG	1 cut(s)	87
XapI	RAATTY	2 cut(s)	167, 648

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