Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1A

Orthogroup ID

OG0001659

Physical Location & Seq

Genomic Coordinates Reverse (-)

18567128 .. 18567592

Gene Structure 465 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1AG106800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 465 bp

ATGAAAGCAGGTTCAGAGAGGGGTCTGCATTGTTGTGTTAGAGGGAAGCTGGACATGCAGGACCCTAATAAATCACTCAGAGATCCAGTTTATTATCGTTGCAATCCAATGCCACATCATAGGAAAGAGATAGGGTCCAATTACAAGGTCTACCCAACTTATGATTTTGCTTGTCCATTTGTTGATTCCATTCAAGGTATAACTCATGCCCTTCGATCTAGTGAATACCACGATCGCAACGCCCAGTACTATAGGATTCAAGAGGATATGGGACTGAGAAAAGTCCATGTGTATGAGTTCAGTAGGTTGAACATGGTCTGTACACTCCTCAGCAAGCGGAAGCTTTTGTGGTTTGTTCAAAATGACAAGGTCAATGGATGGGATGATCCTCGATTCCCAACTGTTCAAGGAATCGTGCGTAGAGGTCTCAAAGTTGAAGCATTGATACAGTTCATTCTTGAGTAG

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

154

Amino Acids

18.15

Weight (kDa)

9.24

Isoelectric Point (pI)

38.65

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
tRNA-synt_1c	PF00749	1 - 152	1.1e-43	tRNA synthetases class I (E and Q), catalytic domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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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)
AccI	GTMKAC	1 cut(s)	150
AciI	CCGC	1 cut(s)	337
AclWI	GGATC	2 cut(s)	77, 380
AfaI	GTAC	2 cut(s)	248, 322
AgsI	TTSAA	6 cut(s)	194, 260, 310, 359, 407, 437
AluBI	AGCT	2 cut(s)	49, 343
AluI	AGCT	2 cut(s)	49, 343
Alw26I	GTCTC	1 cut(s)	431
AlwI	GGATC	2 cut(s)	77, 380
AspS9I	GGNCC	2 cut(s)	61, 135
AvaII	GGWCC	2 cut(s)	61, 135
BarI	GAAGNNNNNNTAC	2 cut(s)	429, 461
BbvCI	CCTCAGC	1 cut(s)	329
BccI	CCATC	1 cut(s)	372
BcoDI	GTCTC	1 cut(s)	431
BfaI	CTAG	1 cut(s)	219
BfmI	CTRYAG	1 cut(s)	250
BmcAI	AGTACT	1 cut(s)	248
Bme18I	GGWCC	2 cut(s)	61, 135
BmgT120I	GGNCC	2 cut(s)	61, 135
BmiI	GGNNCC	2 cut(s)	63, 136
BmrI	ACTGGG	1 cut(s)	238
BmuI	ACTGGG	1 cut(s)	238
Bpu10I	CCTNAGC	1 cut(s)	329
BsaI	GGTCTC	1 cut(s)	431
Bse1I	ACTGG	2 cut(s)	86, 244
BseGI	GGATG	2 cut(s)	383, 388
BseMII	CTCAG	3 cut(s)	91, 266, 343
BseNI	ACTGG	2 cut(s)	86, 244
BseRI	GAGGAG	1 cut(s)	317
Bsh1285I	CGRYCG	1 cut(s)	235
BsiEI	CGRYCG	1 cut(s)	235
BslFI	GGGAC	1 cut(s)	285
BsmAI	GTCTC	1 cut(s)	431
BsmFI	GGGAC	1 cut(s)	285
Bso31I	GGTCTC	1 cut(s)	431
Bsp1407I	TGTACA	1 cut(s)	320
Bsp143I	GATC	4 cut(s)	82, 215, 232, 385
BspACI	CCGC	1 cut(s)	337
BspCNI	CTCAG	3 cut(s)	90, 267, 342
BspLI	GGNNCC	2 cut(s)	63, 136
BspPI	GGATC	2 cut(s)	77, 380
BspTNI	GGTCTC	1 cut(s)	431
BsrGI	TGTACA	1 cut(s)	320
BsrI	ACTGG	2 cut(s)	86, 244
BssMI	GATC	4 cut(s)	82, 215, 232, 385
Bst4CI	ACNGT	2 cut(s)	403, 450
BstAUI	TGTACA	1 cut(s)	320
BstC8I	GCNNGC	1 cut(s)	335
BstDEI	CTNAG	3 cut(s)	77, 275, 329
BstF5I	GGATG	2 cut(s)	383, 388
BstKTI	GATC	4 cut(s)	85, 218, 235, 388
BstMAI	GTCTC	1 cut(s)	431
BstMBI	GATC	4 cut(s)	82, 215, 232, 385
BstMCI	CGRYCG	1 cut(s)	235
BstMWI	GCNNNNNNNGC	1 cut(s)	55
BstNSI	RCATGY	1 cut(s)	58
BstSFI	CTRYAG	1 cut(s)	250
BstX2I	RGATCY	1 cut(s)	82
BstYI	RGATCY	1 cut(s)	82
BtsCI	GGATG	2 cut(s)	383, 388
Cac8I	GCNNGC	1 cut(s)	335
Cfr13I	GGNCC	2 cut(s)	61, 135
Csp6I	GTAC	2 cut(s)	247, 321
CviAII	CATG	4 cut(s)	55, 206, 287, 313
CviJI	RGCY	2 cut(s)	49, 343
CviKI_1	RGCY	2 cut(s)	49, 343
CviQI	GTAC	2 cut(s)	247, 321
DdeI	CTNAG	3 cut(s)	77, 275, 329
DpnI	GATC	4 cut(s)	84, 217, 234, 387
DpnII	GATC	4 cut(s)	82, 215, 232, 385
Eco31I	GGTCTC	1 cut(s)	431
Eco47I	GGWCC	2 cut(s)	61, 135
EcoO109I	RGGNCCY	1 cut(s)	61
FaeI	CATG	4 cut(s)	58, 209, 290, 316
FaqI	GGGAC	1 cut(s)	285
FatI	CATG	4 cut(s)	54, 205, 286, 312
FblI	GTMKAC	1 cut(s)	150
FokI	GGATG	2 cut(s)	390, 395
FspBI	CTAG	1 cut(s)	219
Hin1II	CATG	4 cut(s)	58, 209, 290, 316
HindIII	AAGCTT	1 cut(s)	341
HinfI	GANTC	4 cut(s)	185, 256, 393, 411
Hpy166II	GTNNAC	2 cut(s)	151, 323
Hpy188I	TCNGA	2 cut(s)	16, 80
Hpy188III	TCNNGA	2 cut(s)	260, 458
Hpy8I	GTNNAC	2 cut(s)	151, 323
HpyAV	CCTTC	1 cut(s)	221
HpyCH4III	ACNGT	2 cut(s)	403, 450
HpyCH4V	TGCA	3 cut(s)	28, 58, 102
HpyF10VI	GCNNNNNNNGC	1 cut(s)	55
HpyF3I	CTNAG	3 cut(s)	77, 275, 329
Hsp92II	CATG	4 cut(s)	58, 209, 290, 316
Kzo9I	GATC	4 cut(s)	82, 215, 232, 385
LpnPI	CCDG	4 cut(s)	35, 44, 99, 257
MaeI	CTAG	1 cut(s)	219
MalI	GATC	4 cut(s)	84, 217, 234, 387
MboI	GATC	4 cut(s)	82, 215, 232, 385
MflI	RGATCY	1 cut(s)	82
MluCI	AATT	1 cut(s)	139
MnlI	CCTC	6 cut(s)	12, 35, 256, 338, 399, 416
MslI	CAYNNNNRTG	2 cut(s)	33, 291
MwoI	GCNNNNNNNGC	1 cut(s)	55
NdeII	GATC	4 cut(s)	82, 215, 232, 385
NlaIII	CATG	4 cut(s)	58, 209, 290, 316
NlaIV	GGNNCC	2 cut(s)	63, 136
NspI	RCATGY	1 cut(s)	58
PfeI	GAWTC	4 cut(s)	185, 256, 393, 411
PflFI	GACNNNGTC	1 cut(s)	368
Ple19I	CGATCG	1 cut(s)	235
PpuMI	RGGWCCY	1 cut(s)	61
Psp5II	RGGWCCY	1 cut(s)	61
PspN4I	GGNNCC	2 cut(s)	63, 136
PspPI	GGNCC	2 cut(s)	61, 135
PspPPI	RGGWCCY	1 cut(s)	61
PsuI	RGATCY	1 cut(s)	82
PsyI	GACNNNGTC	1 cut(s)	368
PvuI	CGATCG	1 cut(s)	235
RsaI	GTAC	2 cut(s)	248, 322
RsaNI	GTAC	2 cut(s)	247, 321
RseI	CAYNNNNRTG	2 cut(s)	33, 291
Sau3AI	GATC	4 cut(s)	82, 215, 232, 385
Sau96I	GGNCC	2 cut(s)	61, 135
ScaI	AGTACT	1 cut(s)	248
SetI	ASST	8 cut(s)	13, 51, 150, 199, 308, 345, 372, 427
SfcI	CTRYAG	1 cut(s)	250
SinI	GGWCC	2 cut(s)	61, 135
SmiMI	CAYNNNNRTG	2 cut(s)	33, 291
SmlI	CTYRAG	1 cut(s)	458
SmoI	CTYRAG	1 cut(s)	458
Sse9I	AATT	1 cut(s)	139
SsiI	CCGC	1 cut(s)	337
SspMI	CTAG	1 cut(s)	219
TaaI	ACNGT	2 cut(s)	403, 450
TaqI	TCGA	2 cut(s)	214, 391
TasI	AATT	1 cut(s)	139
TatI	WGTACW	2 cut(s)	246, 320
TfiI	GAWTC	4 cut(s)	185, 256, 393, 411
TspDTI	ATGAA	2 cut(s)	17, 442
Tth111I	GACNNNGTC	1 cut(s)	368
VpaK11BI	GGWCC	2 cut(s)	61, 135
XceI	RCATGY	1 cut(s)	58
XmiI	GTMKAC	1 cut(s)	150
XspI	CTAG	1 cut(s)	219
ZrmI	AGTACT	1 cut(s)	248

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