Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5D

Orthogroup ID

OG0000517

Physical Location & Seq

Genomic Coordinates Reverse (-)

63411686 .. 63412036

Gene Structure 351 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5DG400700.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 351 bp

ATGGAGAAATCTGGGTATGCCGTGATGGCAGCGCCTCTGGTAGTACCCAGAGACCCAAATCTCACCATGGTCTGTTTGCTCTTCAAAAACTCTTGTTCTTATCCACACAAACCTGCCCTCATTGATGCCGAGTCCTCTGAAACCCTGTCCTTCTCCCAGTTCAAGTCAATGGTTATCAAGGTTGCCCATGGCTTAATCCATCTGGGTATTAAGAAAAACGATGTGGTTCTGATTTTCGCTCCCAGTTCAATCCGGTTTCCTATTTGTTTCCTTGGGAATTATTGCAATTGGTGCCATTGCAACAACTTCAGATCCTCTCTACACTGTTTCAGAGCTTTCCAAGCAAGTTAA

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

116

Amino Acids

12.97

Weight (kDa)

8.93

Isoelectric Point (pI)

35.43

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
AMP-binding	PF00501	33 - 92	1.1e-11	AMP-binding enzyme

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

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Genomic Context

Gene Family Tree

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Publication-ready

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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)
Acc36I	ACCTGC	1 cut(s)	121
AccB1I	GGYRCC	1 cut(s)	291
AclWI	GGATC	1 cut(s)	306
AcuI	CTGAAG	1 cut(s)	292
AfaI	GTAC	1 cut(s)	45
AgsI	TTSAA	3 cut(s)	85, 163, 249
AluBI	AGCT	1 cut(s)	335
AluI	AGCT	1 cut(s)	335
Alw26I	GTCTC	1 cut(s)	45
AlwI	GGATC	1 cut(s)	306
ApeKI	GCWGC	1 cut(s)	29
AspLEI	GCGC	1 cut(s)	34
AsuHPI	GGTGA	1 cut(s)	55
BanI	GGYRCC	1 cut(s)	291
BbvI	GCAGC	1 cut(s)	41
BccI	CCATC	2 cut(s)	19, 207
BceAI	ACGGC	1 cut(s)	5
BcoDI	GTCTC	1 cut(s)	45
BfoI	RGCGCY	1 cut(s)	35
BfuAI	ACCTGC	1 cut(s)	121
BglI	GCCNNNNNGGC	1 cut(s)	26
BisI	GCNGC	1 cut(s)	30
BlsI	GCNGC	1 cut(s)	31
BmiI	GGNNCC	1 cut(s)	293
BmrI	ACTGGG	2 cut(s)	151, 237
BmsI	GCATC	1 cut(s)	115
BmuI	ACTGGG	2 cut(s)	151, 237
BsaI	GGTCTC	1 cut(s)	45
BsaJI	CCNNGG	3 cut(s)	66, 187, 271
BsaWI	WCCGGW	1 cut(s)	252
Bse1I	ACTGG	2 cut(s)	157, 243
Bse3DI	GCAATG	1 cut(s)	295
BseDI	CCNNGG	3 cut(s)	66, 187, 271
BseMI	GCAATG	1 cut(s)	295
BseNI	ACTGG	2 cut(s)	157, 243
BseXI	GCAGC	1 cut(s)	41
BshNI	GGYRCC	1 cut(s)	291
BsiSI	CCGG	1 cut(s)	253
BsmAI	GTCTC	1 cut(s)	45
Bso31I	GGTCTC	1 cut(s)	45
Bsp143I	GATC	1 cut(s)	311
Bsp19I	CCATGG	2 cut(s)	66, 187
BspLI	GGNNCC	1 cut(s)	293
BspMI	ACCTGC	1 cut(s)	121
BspPI	GGATC	1 cut(s)	306
BspQI	GCTCTTC	1 cut(s)	86
BspT107I	GGYRCC	1 cut(s)	291
BspTNI	GGTCTC	1 cut(s)	45
BsrDI	GCAATG	1 cut(s)	295
BsrI	ACTGG	2 cut(s)	157, 243
BssECI	CCNNGG	3 cut(s)	66, 187, 271
BssMI	GATC	1 cut(s)	311
BssT1I	CCWWGG	3 cut(s)	66, 187, 271
Bst4CI	ACNGT	1 cut(s)	326
Bst6I	CTCTTC	1 cut(s)	86
BstAPI	GCANNNNNTGC	1 cut(s)	291
BstDSI	CCRYGG	2 cut(s)	66, 187
BstH2I	RGCGCY	1 cut(s)	35
BstHHI	GCGC	1 cut(s)	34
BstKTI	GATC	1 cut(s)	314
BstMAI	GTCTC	1 cut(s)	45
BstMBI	GATC	1 cut(s)	311
BstMWI	GCNNNNNNNGC	3 cut(s)	26, 291, 341
BstV1I	GCAGC	1 cut(s)	41
BstX2I	RGATCY	1 cut(s)	311
BstYI	RGATCY	1 cut(s)	311
BtgI	CCRYGG	2 cut(s)	66, 187
BtsIMutI	CAGTG	1 cut(s)	322
BveI	ACCTGC	1 cut(s)	121
CfoI	GCGC	1 cut(s)	34
Csp6I	GTAC	1 cut(s)	44
CviAII	CATG	2 cut(s)	67, 188
CviJI	RGCY	2 cut(s)	192, 335
CviKI_1	RGCY	2 cut(s)	192, 335
CviQI	GTAC	1 cut(s)	44
DpnI	GATC	1 cut(s)	313
DpnII	GATC	1 cut(s)	311
Eam1104I	CTCTTC	1 cut(s)	86
EarI	CTCTTC	1 cut(s)	86
Eco130I	CCWWGG	3 cut(s)	66, 187, 271
Eco31I	GGTCTC	1 cut(s)	45
Eco57I	CTGAAG	1 cut(s)	292
EcoT14I	CCWWGG	3 cut(s)	66, 187, 271
ErhI	CCWWGG	3 cut(s)	66, 187, 271
FaeI	CATG	2 cut(s)	70, 191
FaiI	YATR	3 cut(s)	18, 68, 189
FatI	CATG	2 cut(s)	66, 187
Fnu4HI	GCNGC	1 cut(s)	30
Fsp4HI	GCNGC	1 cut(s)	30
GlaI	GCGC	1 cut(s)	33
GluI	GCNGC	1 cut(s)	30
HaeII	RGCGCY	1 cut(s)	35
HapII	CCGG	1 cut(s)	253
HhaI	GCGC	1 cut(s)	34
Hin1II	CATG	2 cut(s)	70, 191
Hin6I	GCGC	1 cut(s)	32
HinP1I	GCGC	1 cut(s)	32
HinfI	GANTC	1 cut(s)	131
HpaII	CCGG	1 cut(s)	253
HphI	GGTGA	1 cut(s)	55
Hpy188I	TCNGA	4 cut(s)	139, 231, 311, 332
HpyAV	CCTTC	1 cut(s)	160
HpyCH4III	ACNGT	1 cut(s)	326
HpyCH4V	TGCA	2 cut(s)	285, 300
HpyF10VI	GCNNNNNNNGC	3 cut(s)	26, 291, 341
Hsp92II	CATG	2 cut(s)	70, 191
HspAI	GCGC	1 cut(s)	32
Kzo9I	GATC	1 cut(s)	311
LguI	GCTCTTC	1 cut(s)	86
LmnI	GCTCC	1 cut(s)	244
LpnPI	CCDG	8 cut(s)	23, 61, 126, 158, 170, 188, 256, 266
Lsp1109I	GCAGC	1 cut(s)	41
LweI	GCATC	1 cut(s)	115
MalI	GATC	1 cut(s)	313
MboI	GATC	1 cut(s)	311
MboII	GAAGA	1 cut(s)	73
MfeI	CAATTG	1 cut(s)	286
MflI	RGATCY	1 cut(s)	311
MluCI	AATT	2 cut(s)	277, 286
MlyI	GAGTC	1 cut(s)	140
MnlI	CCTC	4 cut(s)	45, 128, 145, 325
MseI	TTAA	3 cut(s)	194, 210, 349
MspI	CCGG	1 cut(s)	253
MunI	CAATTG	1 cut(s)	286
MwoI	GCNNNNNNNGC	3 cut(s)	26, 291, 341
NcoI	CCATGG	2 cut(s)	66, 187
NdeII	GATC	1 cut(s)	311
NlaIII	CATG	2 cut(s)	70, 191
NlaIV	GGNNCC	1 cut(s)	293
NmeAIII	GCCGAG	1 cut(s)	154
PciSI	GCTCTTC	1 cut(s)	86
PkrI	GCNGC	1 cut(s)	31
PleI	GAGTC	1 cut(s)	139
PpsI	GAGTC	1 cut(s)	139
PspN4I	GGNNCC	1 cut(s)	293
PsuI	RGATCY	1 cut(s)	311
RsaI	GTAC	1 cut(s)	45
RsaNI	GTAC	1 cut(s)	44
SapI	GCTCTTC	1 cut(s)	86
SaqAI	TTAA	3 cut(s)	194, 210, 349
SatI	GCNGC	1 cut(s)	30
Sau3AI	GATC	1 cut(s)	311
SchI	GAGTC	1 cut(s)	140
SetI	ASST	3 cut(s)	115, 183, 337
SfaNI	GCATC	1 cut(s)	115
Sse9I	AATT	2 cut(s)	277, 286
StyI	CCWWGG	3 cut(s)	66, 187, 271
TaaI	ACNGT	1 cut(s)	326
TasI	AATT	2 cut(s)	277, 286
Tru1I	TTAA	3 cut(s)	194, 210, 349
Tru9I	TTAA	3 cut(s)	194, 210, 349
TscAI	CASTG	1 cut(s)	329
TseI	GCWGC	1 cut(s)	29
TspRI	CASTG	1 cut(s)	329

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