Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1D

Orthogroup ID

OG0001659

Physical Location & Seq

Genomic Coordinates Forward (+)

10543844 .. 10545151

Gene Structure 1308 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1DG060600.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 372 bp

ATGGTCTATACACTCCTCAGCAAGCGCAAGCTATTGTTGTTTGTTCAAAATGAGAAGGTCAATGGATGGGATGATCCTCGATTTCCAACTGTTCAAGGAATTGTGCGTCGAGGTCTCAAAGTTGAAGCATTGATACAGTTCATTCTTGAGCAGCTTGAGGAAGGCGAGAATTTTCTTGATGTGCTTAACCCATGTACCGAAAGGGAGACAGCAGCTCTTGGGGATCCCAACATGCGAAATCTGCAGCGTGGAGATGTATTGCAACTTGAGAGGAAAGGATACTTAAGCTGTGATGTTACCTACCTCAGGCTTTCAAAGCCTATTGTTCTCTTTTCAATCCCCGATGGCAGGCAGCAGGCTGGGTTAAAGTGA

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

123

Amino Acids

14.09

Weight (kDa)

7.74

Isoelectric Point (pI)

27.53

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
tRNA-synt_1c	PF00749	3 - 50	8.4e-10	tRNA synthetases class I (E and Q), catalytic domain
tRNA-synt_1c_C2	PF20974	53 - 98	6.5e-08	tRNA synthetases class I (E and Q), anti-codon 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)

Image

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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)
AclWI	GGATC	3 cut(s)	68, 218, 231
AcsI	RAATTY	1 cut(s)	169
AfaI	GTAC	1 cut(s)	196
AfiI	CCNNNNNNNGG	2 cut(s)	306, 348
AflII	CTTAAG	1 cut(s)	283
AgsI	TTSAA	5 cut(s)	47, 95, 125, 315, 336
AluBI	AGCT	4 cut(s)	31, 154, 215, 288
AluI	AGCT	4 cut(s)	31, 154, 215, 288
Alw26I	GTCTC	2 cut(s)	119, 200
AlwI	GGATC	3 cut(s)	68, 218, 231
ApeKI	GCWGC	4 cut(s)	151, 212, 244, 352
ApoI	RAATTY	1 cut(s)	169
AspLEI	GCGC	1 cut(s)	27
AxyI	CCTNAGG	1 cut(s)	305
BaeI	ACNNNNGTAYC	2 cut(s)	178, 211
BamHI	GGATCC	1 cut(s)	223
BarI	GAAGNNNNNNTAC	2 cut(s)	117, 149
BbvCI	CCTCAGC	1 cut(s)	17
BbvI	GCAGC	4 cut(s)	163, 224, 256, 364
BccI	CCATC	2 cut(s)	60, 338
BciVI	GTATCC	1 cut(s)	272
BcoDI	GTCTC	2 cut(s)	119, 200
BfmI	CTRYAG	1 cut(s)	242
BfrI	CTTAAG	1 cut(s)	283
BfuI	GTATCC	1 cut(s)	272
BisI	GCNGC	4 cut(s)	152, 213, 245, 353
BlsI	GCNGC	4 cut(s)	153, 214, 246, 354
BmiI	GGNNCC	1 cut(s)	225
Bpu10I	CCTNAGC	1 cut(s)	17
BpuEI	CTTGAG	3 cut(s)	167, 176, 287
BsaI	GGTCTC	1 cut(s)	119
Bsc4I	CCNNNNNNNGG	2 cut(s)	306, 348
Bse21I	CCTNAGG	1 cut(s)	305
BseGI	GGATG	2 cut(s)	71, 76
BseLI	CCNNNNNNNGG	2 cut(s)	306, 348
BseMII	CTCAG	2 cut(s)	31, 319
BseRI	GAGGAG	1 cut(s)	5
BseXI	GCAGC	4 cut(s)	163, 224, 256, 364
BseYI	CCCAGC	1 cut(s)	359
BslI	CCNNNNNNNGG	2 cut(s)	306, 348
BsmAI	GTCTC	2 cut(s)	119, 200
Bso31I	GGTCTC	1 cut(s)	119
Bsp143I	GATC	2 cut(s)	73, 223
BspCNI	CTCAG	2 cut(s)	30, 318
BspLI	GGNNCC	1 cut(s)	225
BspMAI	CTGCAG	1 cut(s)	246
BspPI	GGATC	3 cut(s)	68, 218, 231
BspTI	CTTAAG	1 cut(s)	283
BspTNI	GGTCTC	1 cut(s)	119
BssMI	GATC	2 cut(s)	73, 223
Bst4CI	ACNGT	2 cut(s)	91, 138
BstAFI	CTTAAG	1 cut(s)	283
BstC8I	GCNNGC	4 cut(s)	23, 29, 350, 357
BstDEI	CTNAG	2 cut(s)	17, 305
BstENI	CCTNNNNNAGG	1 cut(s)	304
BstF5I	GGATG	2 cut(s)	71, 76
BstHHI	GCGC	1 cut(s)	27
BstKTI	GATC	2 cut(s)	76, 226
BstMAI	GTCTC	2 cut(s)	119, 200
BstMBI	GATC	2 cut(s)	73, 223
BstMWI	GCNNNNNNNGC	2 cut(s)	241, 316
BstNSI	RCATGY	1 cut(s)	235
BstSFI	CTRYAG	1 cut(s)	242
BstV1I	GCAGC	4 cut(s)	163, 224, 256, 364
BstX2I	RGATCY	1 cut(s)	223
BstYI	RGATCY	1 cut(s)	223
Bsu36I	CCTNAGG	1 cut(s)	305
BsuI	GTATCC	1 cut(s)	272
BtsCI	GGATG	2 cut(s)	71, 76
Cac8I	GCNNGC	4 cut(s)	23, 29, 350, 357
CfoI	GCGC	1 cut(s)	27
CseI	GACGC	1 cut(s)	95
Csp6I	GTAC	1 cut(s)	195
CviAII	CATG	2 cut(s)	192, 232
CviJI	RGCY	7 cut(s)	31, 154, 215, 288, 310, 319, 359
CviKI_1	RGCY	7 cut(s)	31, 154, 215, 288, 310, 319, 359
CviQI	GTAC	1 cut(s)	195
DdeI	CTNAG	2 cut(s)	17, 305
DpnI	GATC	2 cut(s)	75, 225
DpnII	GATC	2 cut(s)	73, 223
Eco31I	GGTCTC	1 cut(s)	119
Eco81I	CCTNAGG	1 cut(s)	305
EcoNI	CCTNNNNNAGG	1 cut(s)	304
FaeI	CATG	2 cut(s)	195, 235
FaiI	YATR	3 cut(s)	9, 193, 233
FatI	CATG	2 cut(s)	191, 231
Fnu4HI	GCNGC	4 cut(s)	152, 213, 245, 353
FokI	GGATG	2 cut(s)	78, 83
Fsp4HI	GCNGC	4 cut(s)	152, 213, 245, 353
GlaI	GCGC	1 cut(s)	26
GluI	GCNGC	4 cut(s)	152, 213, 245, 353
GsaI	CCCAGC	1 cut(s)	363
HgaI	GACGC	1 cut(s)	95
HhaI	GCGC	1 cut(s)	27
Hin1II	CATG	2 cut(s)	195, 235
Hin6I	GCGC	1 cut(s)	25
HinP1I	GCGC	1 cut(s)	25
Hpy188III	TCNNGA	2 cut(s)	146, 176
Hpy99I	CGWCG	1 cut(s)	111
HpyAV	CCTTC	2 cut(s)	49, 155
HpyCH4III	ACNGT	2 cut(s)	91, 138
HpyCH4V	TGCA	2 cut(s)	244, 262
HpyF10VI	GCNNNNNNNGC	2 cut(s)	241, 316
HpyF3I	CTNAG	2 cut(s)	17, 305
Hsp92II	CATG	2 cut(s)	195, 235
HspAI	GCGC	1 cut(s)	25
Kzo9I	GATC	2 cut(s)	73, 223
LpnPI	CCDG	4 cut(s)	292, 334, 341, 345
Lsp1109I	GCAGC	4 cut(s)	163, 224, 256, 364
MaeIII	GTNAC	1 cut(s)	295
MalI	GATC	2 cut(s)	75, 225
MboI	GATC	2 cut(s)	73, 223
MflI	RGATCY	1 cut(s)	223
MluCI	AATT	2 cut(s)	99, 169
MmeI	TCCRAC	1 cut(s)	110
MnlI	CCTC	6 cut(s)	26, 87, 104, 151, 264, 314
MseI	TTAA	3 cut(s)	186, 284, 365
MspCI	CTTAAG	1 cut(s)	283
MwoI	GCNNNNNNNGC	2 cut(s)	241, 316
NdeII	GATC	2 cut(s)	73, 223
NlaIII	CATG	2 cut(s)	195, 235
NlaIV	GGNNCC	1 cut(s)	225
NspI	RCATGY	1 cut(s)	235
PkrI	GCNGC	4 cut(s)	153, 214, 246, 354
PspFI	CCCAGC	1 cut(s)	359
PspN4I	GGNNCC	1 cut(s)	225
PstI	CTGCAG	1 cut(s)	246
PsuI	RGATCY	1 cut(s)	223
RsaI	GTAC	1 cut(s)	196
RsaNI	GTAC	1 cut(s)	195
SaqAI	TTAA	3 cut(s)	186, 284, 365
SatI	GCNGC	4 cut(s)	152, 213, 245, 353
Sau3AI	GATC	2 cut(s)	73, 223
SetI	ASST	8 cut(s)	33, 60, 115, 156, 217, 290, 302, 306
SfcI	CTRYAG	1 cut(s)	242
SmlI	CTYRAG	4 cut(s)	146, 155, 266, 283
SmoI	CTYRAG	4 cut(s)	146, 155, 266, 283
Sse9I	AATT	2 cut(s)	99, 169
TaaI	ACNGT	2 cut(s)	91, 138
TaqI	TCGA	2 cut(s)	79, 109
TasI	AATT	2 cut(s)	99, 169
Tru1I	TTAA	3 cut(s)	186, 284, 365
Tru9I	TTAA	3 cut(s)	186, 284, 365
TseI	GCWGC	4 cut(s)	151, 212, 244, 352
TspDTI	ATGAA	1 cut(s)	130
Vha464I	CTTAAG	1 cut(s)	283
XagI	CCTNNNNNAGG	1 cut(s)	304
XapI	RAATTY	1 cut(s)	169
XceI	RCATGY	1 cut(s)	235

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