Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1D

Orthogroup ID

OG0001659

Physical Location & Seq

Genomic Coordinates Forward (+)

10842090 .. 10849511

Gene Structure 7422 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1DG061700.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 411 bp

ATGGTCTATACACTCCTCAGCAAGCGCAAGCTATTGTTGTTTGTTCAAAATGAGAAGGTCAATGGATGGGATGATCCTCGATTTCCAAATGTTCAAGGAATTGTGCGTCGAAGTCTCAAAGTTGAAGCATTGATACAGTTCATTCTTGAACAGCTTGAGGAAGACAAGAATTTTCTTGATGTGCTTAACCCATGTACCGAAAAGGAGACAGCAGCTCTTGGGGATCCCAAAATGCGAAATCTGAAGCGTGGAGAGGTATTGCAACTTGAGAGGAAAGGATATCACAACTTAAATGTTCCCTACCTCAGGCTTTCAAAGCCTATTGTTCTCTTTTTTATCAATCCCCGATGGCAGGCAGCAGGCTGGGTTAAAGTAAGAACTTCGTCAAGAATATTTGGCTTCAGAATGTGA

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

136

Amino Acids

15.99

Weight (kDa)

10.0

Isoelectric Point (pI)

37.43

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
tRNA-synt_1c	PF00749	3 - 51	1.1e-07	tRNA synthetases class I (E and Q), catalytic domain
tRNA-synt_1c_C2	PF20974	54 - 96	1.5e-07	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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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
AcuI	CTGAAG	2 cut(s)	263, 385
AfaI	GTAC	1 cut(s)	196
AfiI	CCNNNNNNNGG	2 cut(s)	306, 352
AgsI	TTSAA	5 cut(s)	47, 95, 125, 149, 315
AluBI	AGCT	3 cut(s)	31, 154, 215
AluI	AGCT	3 cut(s)	31, 154, 215
Alw26I	GTCTC	2 cut(s)	119, 200
AlwI	GGATC	3 cut(s)	68, 218, 231
ApeKI	GCWGC	2 cut(s)	212, 356
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
BbsI	GAAGAC	1 cut(s)	168
BbvCI	CCTCAGC	1 cut(s)	17
BbvI	GCAGC	2 cut(s)	224, 368
BccI	CCATC	2 cut(s)	60, 342
BcoDI	GTCTC	2 cut(s)	119, 200
BisI	GCNGC	2 cut(s)	213, 357
BlsI	GCNGC	2 cut(s)	214, 358
BmiI	GGNNCC	1 cut(s)	225
BpiI	GAAGAC	1 cut(s)	168
Bpu10I	CCTNAGC	1 cut(s)	17
BpuEI	CTTGAG	2 cut(s)	176, 287
Bsc4I	CCNNNNNNNGG	2 cut(s)	306, 352
Bse21I	CCTNAGG	1 cut(s)	305
BseGI	GGATG	2 cut(s)	71, 76
BseLI	CCNNNNNNNGG	2 cut(s)	306, 352
BseMII	CTCAG	2 cut(s)	31, 319
BseRI	GAGGAG	1 cut(s)	5
BseXI	GCAGC	2 cut(s)	224, 368
BseYI	CCCAGC	1 cut(s)	363
BslI	CCNNNNNNNGG	2 cut(s)	306, 352
BsmAI	GTCTC	2 cut(s)	119, 200
Bsp143I	GATC	2 cut(s)	73, 223
BspCNI	CTCAG	2 cut(s)	30, 318
BspLI	GGNNCC	1 cut(s)	225
BspPI	GGATC	3 cut(s)	68, 218, 231
BssMI	GATC	2 cut(s)	73, 223
Bst4CI	ACNGT	1 cut(s)	138
BstC8I	GCNNGC	4 cut(s)	23, 29, 354, 361
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	1 cut(s)	316
BstV1I	GCAGC	2 cut(s)	224, 368
BstV2I	GAAGAC	1 cut(s)	168
BstX2I	RGATCY	1 cut(s)	223
BstYI	RGATCY	1 cut(s)	223
Bsu36I	CCTNAGG	1 cut(s)	305
BtsCI	GGATG	2 cut(s)	71, 76
Cac8I	GCNNGC	4 cut(s)	23, 29, 354, 361
CfoI	GCGC	1 cut(s)	27
CseI	GACGC	1 cut(s)	95
Csp6I	GTAC	1 cut(s)	195
CviAII	CATG	1 cut(s)	192
CviJI	RGCY	7 cut(s)	31, 154, 215, 310, 319, 363, 399
CviKI_1	RGCY	7 cut(s)	31, 154, 215, 310, 319, 363, 399
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
Eco32I	GATATC	1 cut(s)	281
Eco57I	CTGAAG	2 cut(s)	263, 385
Eco81I	CCTNAGG	1 cut(s)	305
EcoNI	CCTNNNNNAGG	1 cut(s)	304
EcoRV	GATATC	1 cut(s)	281
FaeI	CATG	1 cut(s)	195
FaiI	YATR	2 cut(s)	9, 193
FatI	CATG	1 cut(s)	191
Fnu4HI	GCNGC	2 cut(s)	213, 357
FokI	GGATG	2 cut(s)	78, 83
Fsp4HI	GCNGC	2 cut(s)	213, 357
GlaI	GCGC	1 cut(s)	26
GluI	GCNGC	2 cut(s)	213, 357
GsaI	CCCAGC	1 cut(s)	367
HgaI	GACGC	1 cut(s)	95
HhaI	GCGC	1 cut(s)	27
Hin1II	CATG	1 cut(s)	195
Hin6I	GCGC	1 cut(s)	25
HinP1I	GCGC	1 cut(s)	25
Hpy188I	TCNGA	2 cut(s)	243, 404
Hpy188III	TCNNGA	3 cut(s)	146, 176, 387
Hpy99I	CGWCG	1 cut(s)	111
HpyAV	CCTTC	1 cut(s)	49
HpyCH4III	ACNGT	1 cut(s)	138
HpyCH4V	TGCA	1 cut(s)	262
HpyF10VI	GCNNNNNNNGC	1 cut(s)	316
HpyF3I	CTNAG	2 cut(s)	17, 305
Hsp92II	CATG	1 cut(s)	195
HspAI	GCGC	1 cut(s)	25
Kzo9I	GATC	2 cut(s)	73, 223
LpnPI	CCDG	4 cut(s)	292, 338, 345, 349
Lsp1109I	GCAGC	2 cut(s)	224, 368
MalI	GATC	2 cut(s)	75, 225
MboI	GATC	2 cut(s)	73, 223
MboII	GAAGA	1 cut(s)	173
MflI	RGATCY	1 cut(s)	223
MluCI	AATT	2 cut(s)	99, 169
MnlI	CCTC	6 cut(s)	26, 87, 151, 247, 264, 314
MseI	TTAA	3 cut(s)	186, 290, 369
MwoI	GCNNNNNNNGC	1 cut(s)	316
NdeII	GATC	2 cut(s)	73, 223
NlaIII	CATG	1 cut(s)	195
NlaIV	GGNNCC	1 cut(s)	225
PkrI	GCNGC	2 cut(s)	214, 358
PspFI	CCCAGC	1 cut(s)	363
PspN4I	GGNNCC	1 cut(s)	225
PsuI	RGATCY	1 cut(s)	223
RsaI	GTAC	1 cut(s)	196
RsaNI	GTAC	1 cut(s)	195
SaqAI	TTAA	3 cut(s)	186, 290, 369
SatI	GCNGC	2 cut(s)	213, 357
Sau3AI	GATC	2 cut(s)	73, 223
SetI	ASST	6 cut(s)	33, 60, 156, 217, 258, 306
SmlI	CTYRAG	2 cut(s)	155, 266
SmoI	CTYRAG	2 cut(s)	155, 266
Sse9I	AATT	2 cut(s)	99, 169
SspI	AATATT	1 cut(s)	393
TaaI	ACNGT	1 cut(s)	138
TaqI	TCGA	2 cut(s)	79, 109
TasI	AATT	2 cut(s)	99, 169
Tru1I	TTAA	3 cut(s)	186, 290, 369
Tru9I	TTAA	3 cut(s)	186, 290, 369
TseI	GCWGC	2 cut(s)	212, 356
TspDTI	ATGAA	1 cut(s)	130
XagI	CCTNNNNNAGG	1 cut(s)	304
XapI	RAATTY	1 cut(s)	169

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