Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4D

Orthogroup ID

OG0002075

Physical Location & Seq

Genomic Coordinates Reverse (-)

40157564 .. 40157994

Gene Structure 431 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4DG207400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 300 bp

ATGAATCAGGTAGATGATTCCCTCAGGAACCAAGCTGCAGAAGTATTGCAATCCATGAATGACAGATTCTCTACATGGGACAATGTTGCATGCCAGACGGTGACATTGGTTCATGAATATATTGTTGCTTTTCACATGAGGCACAATGCTGAAACTGAAGCAGTTGACCTGTTGGTTGAGATTGGAGATCACCTTAATCTGTTAGCCGCGCATGTTGATAAGACGAATTTTAAGAAGACTTGTCTTTATCTCACAGTTCAGCAAGATACCTTCCTGCCAGACCAGACGATGCATACTTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000502 GO:0001101 GO:0002376 GO:0003674 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005737 GO:0005829 GO:0005838 GO:0005886 GO:0005911 GO:0006508 GO:0006511 GO:0006807 GO:0006950 GO:0006952 GO:0006955 GO:0008150 GO:0008152 GO:0008540 GO:0009056 GO:0009057 GO:0009506 GO:0009719 GO:0009725 GO:0009751 GO:0009987 GO:0010033 GO:0010498 GO:0014070 GO:0016020 GO:0019538 GO:0019941 GO:0022624 GO:0030054 GO:0030163 GO:0031597 GO:0032182 GO:0032991 GO:0034515 GO:0042221 GO:0042493 GO:0043130 GO:0043161 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043632 GO:0044237 GO:0044238 GO:0044248 GO:0044257 GO:0044260 GO:0044265 GO:0044267 GO:0044424 GO:0044444 GO:0044445 GO:0044464 GO:0045087 GO:0046677 GO:0050789 GO:0050794 GO:0050896 GO:0051603 GO:0051726 GO:0055044 GO:0065007 GO:0071704 GO:0071944 GO:1901564 GO:1901565 GO:1901575 GO:1901700 GO:1902494 GO:1905368 GO:1905369

KEGG Pathways

Metabolic & Signaling

ko03050 ko05169 map03050 map05169

Pfam Domains

Protein Families

PC_rep

Protein Analysis

99

Amino Acids

11.36

Weight (kDa)

4.9

Isoelectric Point (pI)

28.58

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RPN1_RPN2_N	PF17781	8 - 86	8.1e-17	RPN1 N-terminal 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)

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Publication-ready

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Orthologous Genes (Group: OG0002075)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G08140
fragaria_vesca	FvH4_2g12221 FvH4_2g12230 FvH4_5g27991 FvH4_5g28290 FvH4_6g26640 FvH4_6g26640 FvH4_6g26640 FvH4_6g26640 FvH4_6g26640 FvH4_6g26640 FvH4_6g26640 FvH4_6g26640 FvH4_6g26640 FvH4_7g05781
rosa_chinensis	RchiOBHm_Chr2g0127201 RchiOBHm_Chr6g0255941 RchiOBHm_Chr6g0255951 RchiOBHm_Chr6g0255961
rosa_laevigata	RLG00000014798 RLG00000018972
rosa_multiflora	Rmu_co8466619.1_g000001 Rmu_sc0001598.1_g000009 Rmu_sc0001598.1_g000013 Rmu_ssc0000018.1_g000063
rosa_roxburghii	Rroxscaffold_2G00116290 Rroxscaffold_5G00361030
rosa_rugosa	Rorug02G0276000 Rorug02G0276100
rosa_samantha	Rh2AG326800 Rh2BG337200 Rh2CG314300 Rh2DG354200 Rh4DG207300 Rh4DG207400 Rh6AG150800 Rh6BG073800 Rh6BG073900 Rh6BG151600 Rh6DG135700
rosa_wichuraiana	Rw2G026510 Rw2G026550 Rw6G006970 Rw6G007010

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccII	CGCG	1 cut(s)	209
AciI	CCGC	1 cut(s)	207
AcsI	RAATTY	1 cut(s)	226
AcuI	CTGAAG	1 cut(s)	177
AluBI	AGCT	1 cut(s)	35
AluI	AGCT	1 cut(s)	35
ApeKI	GCWGC	1 cut(s)	35
ApoI	RAATTY	1 cut(s)	226
AspLEI	GCGC	1 cut(s)	211
AsuHPI	GGTGA	2 cut(s)	112, 182
AxyI	CCTNAGG	1 cut(s)	23
BbsI	GAAGAC	1 cut(s)	242
BbvI	GCAGC	1 cut(s)	22
BfmI	CTRYAG	1 cut(s)	36
BisI	GCNGC	2 cut(s)	36, 207
BlsI	GCNGC	2 cut(s)	37, 208
BmiI	GGNNCC	1 cut(s)	29
BmsI	GCATC	1 cut(s)	279
BpiI	GAAGAC	1 cut(s)	242
Bse21I	CCTNAGG	1 cut(s)	23
BseMII	CTCAG	1 cut(s)	37
BseXI	GCAGC	1 cut(s)	22
Bsh1236I	CGCG	1 cut(s)	209
BslFI	GGGAC	1 cut(s)	92
BsmFI	GGGAC	1 cut(s)	92
Bsp143I	GATC	1 cut(s)	187
BspACI	CCGC	1 cut(s)	207
BspCNI	CTCAG	1 cut(s)	36
BspFNI	CGCG	1 cut(s)	209
BspHI	TCATGA	1 cut(s)	112
BspLI	GGNNCC	1 cut(s)	29
BspMAI	CTGCAG	1 cut(s)	40
BssMI	GATC	1 cut(s)	187
Bst4CI	ACNGT	2 cut(s)	100, 256
BstC8I	GCNNGC	1 cut(s)	91
BstDEI	CTNAG	2 cut(s)	23, 297
BstFNI	CGCG	1 cut(s)	209
BstHHI	GCGC	1 cut(s)	211
BstKTI	GATC	1 cut(s)	190
BstMBI	GATC	1 cut(s)	187
BstNSI	RCATGY	2 cut(s)	93, 215
BstSFI	CTRYAG	1 cut(s)	36
BstUI	CGCG	1 cut(s)	209
BstV1I	GCAGC	1 cut(s)	22
BstV2I	GAAGAC	1 cut(s)	242
Bsu36I	CCTNAGG	1 cut(s)	23
Cac8I	GCNNGC	1 cut(s)	91
CciI	TCATGA	1 cut(s)	112
CfoI	GCGC	1 cut(s)	211
CviAII	CATG	6 cut(s)	55, 75, 90, 113, 136, 212
CviJI	RGCY	2 cut(s)	35, 206
CviKI_1	RGCY	2 cut(s)	35, 206
DdeI	CTNAG	2 cut(s)	23, 297
DpnI	GATC	1 cut(s)	189
DpnII	GATC	1 cut(s)	187
Eco57I	CTGAAG	1 cut(s)	177
Eco81I	CCTNAGG	1 cut(s)	23
EcoT22I	ATGCAT	1 cut(s)	294
FaeI	CATG	6 cut(s)	58, 78, 93, 116, 139, 215
FaiI	YATR	8 cut(s)	56, 76, 91, 114, 120, 137, 213, 294
FaqI	GGGAC	1 cut(s)	92
FatI	CATG	6 cut(s)	54, 74, 89, 112, 135, 211
Fnu4HI	GCNGC	2 cut(s)	36, 207
Fsp4HI	GCNGC	2 cut(s)	36, 207
GlaI	GCGC	1 cut(s)	210
GluI	GCNGC	2 cut(s)	36, 207
HhaI	GCGC	1 cut(s)	211
Hin1II	CATG	6 cut(s)	58, 78, 93, 116, 139, 215
Hin6I	GCGC	1 cut(s)	209
HinP1I	GCGC	1 cut(s)	209
HincII	GTYRAC	1 cut(s)	166
HindII	GTYRAC	1 cut(s)	166
HinfI	GANTC	3 cut(s)	4, 17, 66
HphI	GGTGA	2 cut(s)	112, 182
Hpy166II	GTNNAC	1 cut(s)	166
Hpy188III	TCNNGA	2 cut(s)	25, 113
Hpy8I	GTNNAC	1 cut(s)	166
HpyAV	CCTTC	1 cut(s)	280
HpyCH4III	ACNGT	2 cut(s)	100, 256
HpyCH4V	TGCA	4 cut(s)	38, 49, 89, 292
HpyF3I	CTNAG	2 cut(s)	23, 297
Hsp92II	CATG	6 cut(s)	58, 78, 93, 116, 139, 215
HspAI	GCGC	1 cut(s)	209
Kzo9I	GATC	1 cut(s)	187
LpnPI	CCDG	6 cut(s)	10, 107, 182, 287, 291, 296
Lsp1109I	GCAGC	1 cut(s)	22
LweI	GCATC	1 cut(s)	279
MaeIII	GTNAC	1 cut(s)	100
MalI	GATC	1 cut(s)	189
MboI	GATC	1 cut(s)	187
MboII	GAAGA	1 cut(s)	247
MluCI	AATT	1 cut(s)	226
MnlI	CCTC	2 cut(s)	32, 132
Mph1103I	ATGCAT	1 cut(s)	294
MseI	TTAA	2 cut(s)	195, 231
MvnI	CGCG	1 cut(s)	209
NdeII	GATC	1 cut(s)	187
NlaIII	CATG	6 cut(s)	58, 78, 93, 116, 139, 215
NlaIV	GGNNCC	1 cut(s)	29
NmuCI	GTSAC	1 cut(s)	100
NsiI	ATGCAT	1 cut(s)	294
NspI	RCATGY	2 cut(s)	93, 215
PaeI	GCATGC	1 cut(s)	93
PagI	TCATGA	1 cut(s)	112
PfeI	GAWTC	3 cut(s)	4, 17, 66
PkrI	GCNGC	2 cut(s)	37, 208
PspN4I	GGNNCC	1 cut(s)	29
PstI	CTGCAG	1 cut(s)	40
SaqAI	TTAA	2 cut(s)	195, 231
SatI	GCNGC	2 cut(s)	36, 207
Sau3AI	GATC	1 cut(s)	187
SetI	ASST	5 cut(s)	12, 37, 171, 195, 272
SfaNI	GCATC	1 cut(s)	279
SfcI	CTRYAG	1 cut(s)	36
SphI	GCATGC	1 cut(s)	93
Sse9I	AATT	1 cut(s)	226
SsiI	CCGC	1 cut(s)	207
TaaI	ACNGT	2 cut(s)	100, 256
TasI	AATT	1 cut(s)	226
TauI	GCSGC	1 cut(s)	209
TfiI	GAWTC	3 cut(s)	4, 17, 66
Tru1I	TTAA	2 cut(s)	195, 231
Tru9I	TTAA	2 cut(s)	195, 231
TseFI	GTSAC	1 cut(s)	100
TseI	GCWGC	1 cut(s)	35
Tsp45I	GTSAC	1 cut(s)	100
TspDTI	ATGAA	4 cut(s)	17, 71, 101, 129
XapI	RAATTY	1 cut(s)	226
XceI	RCATGY	2 cut(s)	93, 215
Zsp2I	ATGCAT	1 cut(s)	294

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