Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5C

Orthogroup ID

OG0000517

Physical Location & Seq

Genomic Coordinates Reverse (-)

55369072 .. 55371312

Gene Structure 2241 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5CG409800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 390 bp

ATGGGTAGGGGGCCTAATATGATGATAGGTTATTTTAACAACCCACAGGCCACCCAGCTAACTTTAGATAAAAATGGTTTTCAGGTAGCACCAGCTGAACTTGAAGGCCTGTTAGTTTCTCACCCTGAAATATTAGACGCCATTGTCATCCCATTTCCTGATGCTGAAGCTGGTGAGGTCCCTGTTGCATATGTTGTGCGCTCGCCAAACAGTTCACTGACCGGAGAAGATATCAAGAGTTTTATAGCGAGTCAGGCTGCATCTTTTAAAAGACTGCGACAAGTGACGTTCATAAACACTGCCCCTAAGTCGGCATCAGGAAAAATCCTCAGAAGAGAGCTTATCGAGAAAGTACGTTCCAAAATATCGAACATACTGCACTTGCTTTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003824 GO:0004321 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005777 GO:0006082 GO:0008150 GO:0008152 GO:0009058 GO:0009694 GO:0009695 GO:0009987 GO:0010817 GO:0016053 GO:0016408 GO:0016740 GO:0016746 GO:0016747 GO:0019752 GO:0032787 GO:0042445 GO:0042446 GO:0042579 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043436 GO:0044237 GO:0044249 GO:0044281 GO:0044283 GO:0044424 GO:0044444 GO:0044464 GO:0046394 GO:0065007 GO:0065008 GO:0071704 GO:0072330 GO:1901576

KEGG Pathways

Metabolic & Signaling

ko00130 ko00360 ko00940 ko01100 ko01110 map00130 map00360 map00940 map01100 map01110

Pfam Domains

Protein Families

AMP-binding AMP-binding_C

Protein Analysis

129

Amino Acids

14.07

Weight (kDa)

9.1

Isoelectric Point (pI)

48.47

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
AMP-binding_C	PF13193	33 - 108	1e-15	AMP-binding enzyme C-terminal domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

Font Size (px)

Line Width

Align Labels (Cladogram)

Image

Tree File

Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0000517)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G05160
fragaria_vesca	FvH4_3g30980 FvH4_3g30980 FvH4_3g30980 FvH4_3g30980 FvH4_3g30980 FvH4_6g16460 FvH4_6g16460 FvH4_6g16460 FvH4_6g16460 FvH4_6g16460 FvH4_6g16460 FvH4_6g16460 FvH4_6g16460 FvH4_6g16460 FvH4_6g16460 FvH4_6g16460
malus_domestica	MD00G1033000.v1.1 MD00G1033100.v1.1 MD11G1145900.v1.1
prunus_persica	Prupe.1G562500_v2.0.a1 Prupe.6G109000_v2.0.a1 Prupe.6G220600_v2.0.a1 Prupe.7G129300_v2.0.a1
pyrus_communis	pycom10g19750 pycom11g11900
rosa_chinensis	RchiOBHm_Chr4g0437371 RchiOBHm_Chr5g0057221 RchiOBHm_Chr5g0057231 RchiOBHm_Chr5g0057411 RchiOBHm_Chr5g0057421 RchiOBHm_Chr5g0057431 RchiOBHm_Chr5g0057541 RchiOBHm_Chr5g0057621 RchiOBHm_Chr5g0057631 RchiOBHm_Chr7g0218731
rosa_laevigata	RLG00000024275 RLG00000035153 RLG00000035162 RLG00000035163
rosa_multiflora	Rmu_co8225990.1_g000001 Rmu_co8293931.1_g000001 Rmu_co8305349.1_g000001 Rmu_sc0001058.1_g000006 Rmu_sc0001334.1_g000005 Rmu_sc0002486.1_g000002 Rmu_sc0002486.1_g000004 Rmu_sc0002486.1_g000006 Rmu_sc0003730.1_g000007 Rmu_sc0009763.1_g000003 Rmu_sc0012503.1_g000004 Rmu_sc0041005.1_g000001
rosa_roxburghii	Rroxscaffold_1G00022890 Rroxscaffold_1G00022900 Rroxscaffold_1G00023020 Rroxscaffold_1G00039850 Rroxscaffold_2G00089660 Rroxscaffold_6G00410920 Rroxscaffold_7G00210330
rosa_rugosa	Rorug01G0121100 Rorug05G0306100 Rorug05G0306200 Rorug05G0306700 Rorug05G0308100
rosa_samantha	Rh1AG142700 Rh1BG111300 Rh1DG148300 Rh2DG519700 Rh3DG192200 Rh5BG387400 Rh5BG387600 Rh5CG409800 Rh5CG409900 Rh5CG410000 Rh5CG411000 Rh5CG411600 Rh5CG411700 Rh5DG400500 Rh5DG400600 Rh5DG400700 Rh5DG401700 Rh5DG401800 Rh7CG338500
rosa_wichuraiana	Rw5G035330 Rw5G035540 Rw5G035550

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	1 cut(s)	143
AcuI	CTGAAG	1 cut(s)	186
AcyI	GRCGYC	1 cut(s)	138
AfaI	GTAC	1 cut(s)	354
AfiI	CCNNNNNNNGG	1 cut(s)	310
AgsI	TTSAA	1 cut(s)	104
AluBI	AGCT	4 cut(s)	58, 95, 170, 340
AluI	AGCT	4 cut(s)	58, 95, 170, 340
AoxI	GGCC	3 cut(s)	11, 48, 106
ApeKI	GCWGC	1 cut(s)	257
AspLEI	GCGC	1 cut(s)	201
AspS9I	GGNCC	2 cut(s)	11, 178
AsuHPI	GGTGA	2 cut(s)	113, 185
AvaII	GGWCC	1 cut(s)	178
BbvI	GCAGC	1 cut(s)	244
BcgI	CGANNNNNNTGC	1 cut(s)	358
BisI	GCNGC	1 cut(s)	258
BlsI	GCNGC	1 cut(s)	259
Bme18I	GGWCC	1 cut(s)	178
BmgT120I	GGNCC	2 cut(s)	11, 178
BmiI	GGNNCC	2 cut(s)	12, 180
BmsI	GCATC	3 cut(s)	151, 269, 323
BsaHI	GRCGYC	1 cut(s)	138
BsaWI	WCCGGW	1 cut(s)	221
Bsc4I	CCNNNNNNNGG	1 cut(s)	310
BseGI	GGATG	1 cut(s)	147
BseLI	CCNNNNNNNGG	1 cut(s)	310
BseMII	CTCAG	1 cut(s)	343
BseXI	GCAGC	1 cut(s)	244
BseYI	CCCAGC	1 cut(s)	54
BsgI	GTGCAG	1 cut(s)	362
BshFI	GGCC	3 cut(s)	13, 50, 108
BsiSI	CCGG	1 cut(s)	222
BslFI	GGGAC	1 cut(s)	164
BslI	CCNNNNNNNGG	1 cut(s)	310
BsmFI	GGGAC	1 cut(s)	164
BsnI	GGCC	3 cut(s)	13, 50, 108
BspANI	GGCC	3 cut(s)	13, 50, 108
BspCNI	CTCAG	1 cut(s)	342
BspLI	GGNNCC	2 cut(s)	12, 180
BssNI	GRCGYC	1 cut(s)	138
Bst4CI	ACNGT	1 cut(s)	212
Bst6I	CTCTTC	1 cut(s)	328
BstACI	GRCGYC	1 cut(s)	138
BstC8I	GCNNGC	1 cut(s)	203
BstDEI	CTNAG	2 cut(s)	306, 329
BstF5I	GGATG	1 cut(s)	147
BstHHI	GCGC	1 cut(s)	201
BstMWI	GCNNNNNNNGC	1 cut(s)	254
BstV1I	GCAGC	1 cut(s)	244
BsuRI	GGCC	3 cut(s)	13, 50, 108
BtsCI	GGATG	1 cut(s)	147
BtsI	GCAGTG	1 cut(s)	297
BtsIMutI	CAGTG	2 cut(s)	215, 297
Cac8I	GCNNGC	1 cut(s)	203
CfoI	GCGC	1 cut(s)	201
Cfr13I	GGNCC	2 cut(s)	11, 178
CseI	GACGC	1 cut(s)	146
Csp6I	GTAC	1 cut(s)	353
CviJI	RGCY	8 cut(s)	13, 50, 58, 95, 108, 170, 257, 340
CviKI_1	RGCY	8 cut(s)	13, 50, 58, 95, 108, 170, 257, 340
CviQI	GTAC	1 cut(s)	353
DdeI	CTNAG	2 cut(s)	306, 329
DraI	TTTAAA	1 cut(s)	268
DrdI	GACNNNNNNGTC	1 cut(s)	143
DseDI	GACNNNNNNGTC	1 cut(s)	143
Eam1104I	CTCTTC	1 cut(s)	328
EarI	CTCTTC	1 cut(s)	328
Eco147I	AGGCCT	1 cut(s)	108
Eco32I	GATATC	1 cut(s)	232
Eco47I	GGWCC	1 cut(s)	178
Eco57I	CTGAAG	1 cut(s)	186
EcoO109I	RGGNCCY	2 cut(s)	11, 178
EcoRV	GATATC	1 cut(s)	232
FaiI	YATR	6 cut(s)	20, 190, 192, 245, 293, 374
FaqI	GGGAC	1 cut(s)	164
FauNDI	CATATG	1 cut(s)	190
Fnu4HI	GCNGC	1 cut(s)	258
FokI	GGATG	1 cut(s)	134
Fsp4HI	GCNGC	1 cut(s)	258
GlaI	GCGC	1 cut(s)	200
GluI	GCNGC	1 cut(s)	258
GsaI	CCCAGC	1 cut(s)	58
HaeIII	GGCC	3 cut(s)	13, 50, 108
HapII	CCGG	1 cut(s)	222
HgaI	GACGC	1 cut(s)	146
HhaI	GCGC	1 cut(s)	201
Hin1I	GRCGYC	1 cut(s)	138
Hin6I	GCGC	1 cut(s)	199
HinP1I	GCGC	1 cut(s)	199
HinfI	GANTC	1 cut(s)	250
HpaII	CCGG	1 cut(s)	222
HphI	GGTGA	2 cut(s)	113, 185
Hpy166II	GTNNAC	1 cut(s)	215
Hpy188I	TCNGA	1 cut(s)	332
Hpy188III	TCNNGA	4 cut(s)	158, 235, 318, 346
Hpy8I	GTNNAC	1 cut(s)	215
HpyAV	CCTTC	1 cut(s)	98
HpyCH4III	ACNGT	1 cut(s)	212
HpyCH4IV	ACGT	2 cut(s)	287, 355
HpyCH4V	TGCA	3 cut(s)	188, 260, 379
HpyF10VI	GCNNNNNNNGC	1 cut(s)	254
HpyF3I	CTNAG	2 cut(s)	306, 329
HpySE526I	ACGT	2 cut(s)	287, 355
Hsp92I	GRCGYC	1 cut(s)	138
HspAI	GCGC	1 cut(s)	199
Lsp1109I	GCAGC	1 cut(s)	244
LweI	GCATC	3 cut(s)	151, 269, 323
MaeII	ACGT	2 cut(s)	287, 355
MaeIII	GTNAC	1 cut(s)	283
MboII	GAAGA	2 cut(s)	239, 345
MlyI	GAGTC	1 cut(s)	259
MnlI	CCTC	2 cut(s)	169, 338
MseI	TTAA	3 cut(s)	36, 267, 388
MspA1I	CMGCKG	1 cut(s)	95
MspI	CCGG	1 cut(s)	222
MwoI	GCNNNNNNNGC	1 cut(s)	254
NdeI	CATATG	1 cut(s)	190
NlaIV	GGNNCC	2 cut(s)	12, 180
NmuCI	GTSAC	1 cut(s)	283
PceI	AGGCCT	1 cut(s)	108
PkrI	GCNGC	1 cut(s)	259
PleI	GAGTC	1 cut(s)	258
PpsI	GAGTC	1 cut(s)	258
PpuMI	RGGWCCY	1 cut(s)	178
Psp5II	RGGWCCY	1 cut(s)	178
PspFI	CCCAGC	1 cut(s)	54
PspN4I	GGNNCC	2 cut(s)	12, 180
PspPI	GGNCC	2 cut(s)	11, 178
PspPPI	RGGWCCY	1 cut(s)	178
PvuII	CAGCTG	1 cut(s)	95
RsaI	GTAC	1 cut(s)	354
RsaNI	GTAC	1 cut(s)	353
SaqAI	TTAA	3 cut(s)	36, 267, 388
SatI	GCNGC	1 cut(s)	258
Sau96I	GGNCC	2 cut(s)	11, 178
SchI	GAGTC	1 cut(s)	259
SetI	ASST	9 cut(s)	31, 60, 87, 97, 172, 180, 290, 342, 358
SfaNI	GCATC	3 cut(s)	151, 269, 323
SinI	GGWCC	1 cut(s)	178
SseBI	AGGCCT	1 cut(s)	108
SspI	AATATT	1 cut(s)	132
StuI	AGGCCT	1 cut(s)	108
TaaI	ACNGT	1 cut(s)	212
TaiI	ACGT	2 cut(s)	290, 358
TaqI	TCGA	2 cut(s)	345, 368
Tru1I	TTAA	3 cut(s)	36, 267, 388
Tru9I	TTAA	3 cut(s)	36, 267, 388
TscAI	CASTG	2 cut(s)	222, 304
TseFI	GTSAC	1 cut(s)	283
TseI	GCWGC	1 cut(s)	257
Tsp45I	GTSAC	1 cut(s)	283
TspDTI	ATGAA	1 cut(s)	280
TspRI	CASTG	2 cut(s)	222, 304
VpaK11BI	GGWCC	1 cut(s)	178

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