Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3D

Orthogroup ID

OG0001528

Physical Location & Seq

Genomic Coordinates Reverse (-)

4162721 .. 4163439

Gene Structure 719 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3DG062300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 633 bp

ATGTTTTTCAAGGCAGCTACTGAGCTACGCTTGCAGACTCGCTCTTCTGATGATGTGGTTCGATTGGTTGATTTACTTGATGAAGCCAAGAGCCGAAGCAAAACAAGTCTTGTCGAGCGTGGTAAGCGTGAAGACTGGACTGAAGAGGAGCTTGAGCAAACTGCAGTGGCCGTTGGTTATGGCGCTGTGAAGTATACTGATCTGAAGAACAACAGATTGTCCAATTACACCTTTGATTTCAATCAGTTGCTAAATGATAAGGGAAACACTGCTGTCTACTTGCTATACATGCTTGCTCGGATCTGTTCAATCATTAGGAAATCTGGTAAAGACGTTAACGAATTGAAAAAAAGGGGGGAAATTGTGTTGGGTCATGCCGGTGAGCGTAAATTGGCGCTTCACTTATTAAGGTTTCCTGAGACCGTGGAGGAGGCTTGCACGAATCTGTTGCCAAGTGTTTTATGTGAATACCTCTATAATCTATCAGAAATCTACAGCAGAAAGTTCTATTCCAATTGCCAGGTTATTGGGTCGGCAGAGGAAACGAGCAGACTCTTGCTTTCTGAAGCAACAGGCGTAGTCATGAGGAAATGCTTTCATCTTCTCGGAATTGAAGCAGTGTGCAAGATGTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0003006 GO:0003674 GO:0003824 GO:0004812 GO:0004814 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005739 GO:0006082 GO:0006139 GO:0006399 GO:0006412 GO:0006418 GO:0006420 GO:0006518 GO:0006520 GO:0006725 GO:0006807 GO:0007275 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009507 GO:0009532 GO:0009536 GO:0009570 GO:0009790 GO:0009791 GO:0009793 GO:0009987 GO:0010154 GO:0010467 GO:0016070 GO:0016874 GO:0016875 GO:0019538 GO:0019752 GO:0022414 GO:0032501 GO:0032502 GO:0034641 GO:0034645 GO:0034660 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:0044434 GO:0044435 GO:0044444 GO:0044446 GO:0044464 GO:0046483 GO:0048316 GO:0048608 GO:0048731 GO:0048856 GO:0061458 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

Arg_tRNA_synt_N DALR_1 tRNA-synt_1d

Protein Analysis

210

Amino Acids

23.9

Weight (kDa)

7.57

Isoelectric Point (pI)

39.44

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
tRNA-synt_1d	PF00750	11 - 80	3.2e-15	tRNA synthetases class I (R), catalytic domain
DALR_1	PF05746	94 - 210	3.3e-29	DALR anticodon 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)

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Publication-ready

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Orthologous Genes (Group: OG0001528)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G66530 AT4G26300 AT4G26300 AT4G26300 AT4G26300 AT4G26300
fragaria_vesca	FvH4_1g06400 FvH4_1g06400 FvH4_1g06400 FvH4_1g06400 FvH4_1g06400 FvH4_1g06400
malus_domestica	MD02G1067300.v1.1 MD15G1198200.v1.1 MD15G1199100.v1.1
prunus_persica	Prupe.7G218100_v2.0.a1 Prupe.7G218100_v2.0.a1 Prupe.7G218100_v2.0.a1 Prupe.7G218100_v2.0.a1
pyrus_communis	pycom02g05330 pycom15g17660
rosa_chinensis	RchiOBHm_Chr2g0092141 RchiOBHm_Chr3g0454631 RchiOBHm_Chr3g0454641 RchiOBHm_Chr7g0215671
rosa_laevigata	RLG00000016278 RLG00000025428
rosa_multiflora	Rmu_co8501171.1_g000001 Rmu_sc0000898.1_g000026 Rmu_sc0001792.1_g000032 Rmu_sc0001792.1_g000033 Rmu_sc0013552.1_g000004
rosa_roxburghii	Rroxscaffold_2G00149440 Rroxscaffold_3G00243930
rosa_rugosa	Rorug02G0023000 Rorug02G0023100 Rorug02G0023200 Rorug03G0000700 Rorug03G0000800 Rorug07G0156100
rosa_samantha	Rh2AG068800 Rh2BG068100 Rh2CG069300 Rh2DG067400 Rh3DG062300 Rh7AG292900 Rh7BG285300 Rh7CG313000 Rh7DG296400
rosa_wichuraiana	Rw2G006350 Rw7G024930

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccI	GTMKAC	2 cut(s)	194, 276
AclWI	GGATC	1 cut(s)	308
AcoI	YGGCCR	1 cut(s)	168
AcuI	CTGAAG	3 cut(s)	162, 224, 585
AgsI	TTSAA	5 cut(s)	10, 241, 309, 346, 614
AjnI	CCWGG	1 cut(s)	519
AluBI	AGCT	3 cut(s)	17, 25, 151
AluI	AGCT	3 cut(s)	17, 25, 151
Alw26I	GTCTC	1 cut(s)	413
AlwI	GGATC	1 cut(s)	308
AlwNI	CAGNNNCTG	1 cut(s)	20
AoxI	GGCC	1 cut(s)	168
ApeKI	GCWGC	1 cut(s)	14
AspLEI	GCGC	2 cut(s)	185, 397
AsuHPI	GGTGA	1 cut(s)	392
BbsI	GAAGAC	1 cut(s)	138
BbvI	GCAGC	1 cut(s)	26
BceAI	ACGGC	1 cut(s)	155
BcgI	CGANNNNNNTGC	2 cut(s)	430, 464
BciT130I	CCWGG	1 cut(s)	521
BcoDI	GTCTC	1 cut(s)	413
BfmI	CTRYAG	2 cut(s)	162, 493
BfoI	RGCGCY	2 cut(s)	186, 398
BisI	GCNGC	1 cut(s)	15
BlsI	GCNGC	1 cut(s)	16
Bme1390I	CCNGG	1 cut(s)	521
BmrFI	CCNGG	1 cut(s)	521
BpiI	GAAGAC	1 cut(s)	138
BpuEI	CTTGAG	1 cut(s)	173
BsaBI	GATNNNNATC	1 cut(s)	240
BsaI	GGTCTC	1 cut(s)	413
BsaJI	CCNNGG	1 cut(s)	423
Bse118I	RCCGGY	1 cut(s)	377
Bse1I	ACTGG	1 cut(s)	140
Bse8I	GATNNNNATC	1 cut(s)	240
BseBI	CCWGG	1 cut(s)	521
BseDI	CCNNGG	1 cut(s)	423
BseJI	GATNNNNATC	1 cut(s)	240
BseMII	CTCAG	2 cut(s)	12, 408
BseNI	ACTGG	1 cut(s)	140
BseRI	GAGGAG	2 cut(s)	161, 443
BseXI	GCAGC	1 cut(s)	26
BshFI	GGCC	1 cut(s)	170
BsiSI	CCGG	1 cut(s)	378
BsmAI	GTCTC	1 cut(s)	413
BsnI	GGCC	1 cut(s)	170
Bso31I	GGTCTC	1 cut(s)	413
Bsp143I	GATC	2 cut(s)	199, 300
BspANI	GGCC	1 cut(s)	170
BspCNI	CTCAG	2 cut(s)	13, 409
BspHI	TCATGA	1 cut(s)	582
BspMAI	CTGCAG	1 cut(s)	166
BspPI	GGATC	1 cut(s)	308
BspQI	GCTCTTC	1 cut(s)	49
BspTNI	GGTCTC	1 cut(s)	413
BsrFI	RCCGGY	1 cut(s)	377
BsrI	ACTGG	1 cut(s)	140
BssAI	RCCGGY	1 cut(s)	377
BssECI	CCNNGG	1 cut(s)	423
BssMI	GATC	2 cut(s)	199, 300
BssNAI	GTATAC	1 cut(s)	195
Bst1107I	GTATAC	1 cut(s)	195
Bst2UI	CCWGG	1 cut(s)	521
Bst4CI	ACNGT	1 cut(s)	424
Bst6I	CTCTTC	2 cut(s)	49, 138
BstC8I	GCNNGC	3 cut(s)	32, 294, 436
BstDEI	CTNAG	2 cut(s)	21, 417
BstDSI	CCRYGG	1 cut(s)	423
BstH2I	RGCGCY	2 cut(s)	186, 398
BstHHI	GCGC	2 cut(s)	185, 397
BstKTI	GATC	2 cut(s)	202, 303
BstMAI	GTCTC	1 cut(s)	413
BstMBI	GATC	2 cut(s)	199, 300
BstMWI	GCNNNNNNNGC	3 cut(s)	31, 124, 289
BstNI	CCWGG	1 cut(s)	521
BstNSI	RCATGY	1 cut(s)	292
BstSCI	CCNGG	1 cut(s)	519
BstSFI	CTRYAG	2 cut(s)	162, 493
BstV1I	GCAGC	1 cut(s)	26
BstV2I	GAAGAC	1 cut(s)	138
BstX2I	RGATCY	1 cut(s)	300
BstXI	CCANNNNNNTGG	1 cut(s)	527
BstYI	RGATCY	1 cut(s)	300
BstZ17I	GTATAC	1 cut(s)	195
BsuRI	GGCC	1 cut(s)	170
BtgI	CCRYGG	1 cut(s)	423
BtsI	GCAGTG	3 cut(s)	171, 267, 624
BtsIMutI	CAGTG	3 cut(s)	171, 267, 624
Cac8I	GCNNGC	3 cut(s)	32, 294, 436
CaiI	CAGNNNCTG	1 cut(s)	20
CciI	TCATGA	1 cut(s)	582
CfoI	GCGC	2 cut(s)	185, 397
Cfr10I	RCCGGY	1 cut(s)	377
CviAII	CATG	3 cut(s)	289, 374, 583
CviJI	RGCY	7 cut(s)	17, 25, 86, 93, 151, 170, 434
CviKI_1	RGCY	7 cut(s)	17, 25, 86, 93, 151, 170, 434
DdeI	CTNAG	2 cut(s)	21, 417
DpnI	GATC	2 cut(s)	201, 302
DpnII	GATC	2 cut(s)	199, 300
EaeI	YGGCCR	1 cut(s)	168
Eam1104I	CTCTTC	2 cut(s)	49, 138
EarI	CTCTTC	2 cut(s)	49, 138
Eco31I	GGTCTC	1 cut(s)	413
Eco57I	CTGAAG	3 cut(s)	162, 224, 585
EcoRII	CCWGG	1 cut(s)	519
FaeI	CATG	3 cut(s)	292, 377, 586
FaiI	YATR	8 cut(s)	180, 195, 286, 290, 375, 463, 477, 584
FalI	AAGNNNNNCTT	2 cut(s)	135, 167
FatI	CATG	3 cut(s)	288, 373, 582
FblI	GTMKAC	2 cut(s)	194, 276
Fnu4HI	GCNGC	1 cut(s)	15
Fsp4HI	GCNGC	1 cut(s)	15
GlaI	GCGC	2 cut(s)	184, 396
GluI	GCNGC	1 cut(s)	15
HaeII	RGCGCY	2 cut(s)	186, 398
HaeIII	GGCC	1 cut(s)	170
HapII	CCGG	1 cut(s)	378
HhaI	GCGC	2 cut(s)	185, 397
Hin1II	CATG	3 cut(s)	292, 377, 586
Hin6I	GCGC	2 cut(s)	183, 395
HinP1I	GCGC	2 cut(s)	183, 395
HincII	GTYRAC	1 cut(s)	337
HindII	GTYRAC	1 cut(s)	337
HinfI	GANTC	3 cut(s)	37, 442, 552
HpaI	GTTAAC	1 cut(s)	337
HpaII	CCGG	1 cut(s)	378
HphI	GGTGA	1 cut(s)	392
Hpy166II	GTNNAC	3 cut(s)	195, 277, 337
Hpy188I	TCNGA	6 cut(s)	49, 204, 300, 487, 565, 608
Hpy188III	TCNNGA	2 cut(s)	416, 583
Hpy8I	GTNNAC	3 cut(s)	195, 277, 337
HpyCH4III	ACNGT	1 cut(s)	424
HpyCH4IV	ACGT	1 cut(s)	333
HpyCH4V	TGCA	4 cut(s)	34, 164, 438, 624
HpyF10VI	GCNNNNNNNGC	3 cut(s)	31, 124, 289
HpyF3I	CTNAG	2 cut(s)	21, 417
HpySE526I	ACGT	1 cut(s)	333
Hsp92II	CATG	3 cut(s)	292, 377, 586
HspAI	GCGC	2 cut(s)	183, 395
KspAI	GTTAAC	1 cut(s)	337
Kzo9I	GATC	2 cut(s)	199, 300
LguI	GCTCTTC	1 cut(s)	49
LmnI	GCTCC	1 cut(s)	148
LpnPI	CCDG	7 cut(s)	121, 309, 391, 429, 506, 533, 558
Lsp1109I	GCAGC	1 cut(s)	26
MaeII	ACGT	1 cut(s)	333
MalI	GATC	2 cut(s)	201, 302
MboI	GATC	2 cut(s)	199, 300
MboII	GAAGA	5 cut(s)	36, 143, 155, 217, 593
MfeI	CAATTG	1 cut(s)	514
MflI	RGATCY	1 cut(s)	300
MluCI	AATT	6 cut(s)	223, 341, 360, 389, 514, 609
MlyI	GAGTC	2 cut(s)	31, 546
MnlI	CCTC	6 cut(s)	139, 421, 424, 482, 532, 579
MseI	TTAA	2 cut(s)	336, 407
MslI	CAYNNNNRTG	1 cut(s)	378
MspI	CCGG	1 cut(s)	378
MspR9I	CCNGG	1 cut(s)	521
MunI	CAATTG	1 cut(s)	514
MvaI	CCWGG	1 cut(s)	521
MwoI	GCNNNNNNNGC	3 cut(s)	31, 124, 289
NdeII	GATC	2 cut(s)	199, 300
NlaIII	CATG	3 cut(s)	292, 377, 586
NspI	RCATGY	1 cut(s)	292
PagI	TCATGA	1 cut(s)	582
PciSI	GCTCTTC	1 cut(s)	49
PfeI	GAWTC	1 cut(s)	442
PkrI	GCNGC	1 cut(s)	16
PleI	GAGTC	2 cut(s)	31, 546
PpsI	GAGTC	2 cut(s)	31, 546
Psp6I	CCWGG	1 cut(s)	519
PspGI	CCWGG	1 cut(s)	519
PstI	CTGCAG	1 cut(s)	166
PstNI	CAGNNNCTG	1 cut(s)	20
PsuI	RGATCY	1 cut(s)	300
RseI	CAYNNNNRTG	1 cut(s)	378
SapI	GCTCTTC	1 cut(s)	49
SaqAI	TTAA	2 cut(s)	336, 407
SatI	GCNGC	1 cut(s)	15
Sau3AI	GATC	2 cut(s)	199, 300
SchI	GAGTC	2 cut(s)	31, 546
ScrFI	CCNGG	1 cut(s)	521
SetI	ASST	8 cut(s)	19, 27, 153, 233, 336, 413, 474, 525
SfcI	CTRYAG	2 cut(s)	162, 493
SmiMI	CAYNNNNRTG	1 cut(s)	378
SmlI	CTYRAG	1 cut(s)	152
SmoI	CTYRAG	1 cut(s)	152
Sse9I	AATT	6 cut(s)	223, 341, 360, 389, 514, 609
StyD4I	CCNGG	1 cut(s)	519
TaaI	ACNGT	1 cut(s)	424
TaiI	ACGT	1 cut(s)	336
TaqI	TCGA	2 cut(s)	61, 114
TasI	AATT	6 cut(s)	223, 341, 360, 389, 514, 609
TfiI	GAWTC	1 cut(s)	442
Tru1I	TTAA	2 cut(s)	336, 407
Tru9I	TTAA	2 cut(s)	336, 407
TscAI	CASTG	3 cut(s)	171, 274, 624
TseI	GCWGC	1 cut(s)	14
TspDTI	ATGAA	2 cut(s)	96, 587
TspRI	CASTG	3 cut(s)	171, 274, 624
XceI	RCATGY	1 cut(s)	292
XmiI	GTMKAC	2 cut(s)	194, 276

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