Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6D

Orthogroup ID

OG0001418

Physical Location & Seq

Genomic Coordinates Reverse (-)

13619742 .. 13620692

Gene Structure 951 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6DG106400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 387 bp

ATGTCTTCTGTAATGTTCTCTCTTCAGGCCTTGATCCATGGGTTAAATCGTCATTATTACTCCATAGCAATTAATTACCGGAAGAATGAACTCGAGGAGAAAATGTTGCTTAACCTTCACAAGAAGAAATGGACAGATGGGCCGACACTAAAGCGATTTGACACTCATTCAAAAACAAATGAGCAAACAGTTCAGGAGATGTTAAATCTAGCTGTTAAATACAACAAGGCAGTGCAGGAGGAGAATGAGCTGCCACCAGAGAAGCTTGCAATTGCAAATGTGGGAAGACAAGATGCTAAGAAGCACCTTGAAGAGCATGTCTCCAACTTAATGTCCTCAAACATTGTCCAGACCTTGGGCACAATGCTTGATACTGTGGTGTTCTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000502 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005737 GO:0005829 GO:0006807 GO:0006950 GO:0006970 GO:0008150 GO:0008152 GO:0009056 GO:0009057 GO:0009628 GO:0009651 GO:0019538 GO:0030163 GO:0032991 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044238 GO:0044424 GO:0044444 GO:0044464 GO:0050896 GO:0071704 GO:1901564 GO:1901565 GO:1901575 GO:1902494 GO:1905368 GO:1905369

KEGG Pathways

Metabolic & Signaling

ko03050 ko05169 map03050 map05169

Pfam Domains

Protein Families

JAB MitMem_reg

Protein Analysis

128

Amino Acids

14.77

Weight (kDa)

7.99

Isoelectric Point (pI)

50.97

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RPN11_C	PF23594	49 - 126	2.4e-34	26S proteasome regulatory subunit RPN11 C-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: OG0001418)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G27607
fragaria_vesca	FvH4_2g08370 FvH4_2g34670 FvH4_2g34751 FvH4_2g34752
prunus_persica	Prupe.5G147900_v2.0.a1
rosa_chinensis	RchiOBHm_Chr5g0029831 RchiOBHm_Chr6g0263981 RchiOBHm_Chr6g0263991 RchiOBHm_Chr7g0209141 RchiOBHm_Chr7g0241551 RchiOBHm_Chr7g0241561
rosa_laevigata	RLG00000000567 RLG00000003163 RLG00000014345
rosa_multiflora	Rmu_sc0000565.1_g000018 Rmu_sc0000821.1_g000027 Rmu_sc0003785.1_g000020 Rmu_sc0003785.1_g000021 Rmu_sc0016758.1_g000001 Rmu_sc0038305.1_g000002
rosa_roxburghii	Rroxscaffold_176G00431080 Rroxscaffold_6G00393170 Rroxscaffold_7G00161020 Rroxscaffold_7G00204470
rosa_rugosa	Rorug06G0005100
rosa_samantha	Rh1AG408300 Rh1AG409100 Rh4AG241200 Rh4BG244500 Rh5DG211200 Rh6AG124400 Rh6AG124500 Rh6AG314100 Rh6BG119800 Rh6BG120100 Rh6CG117900 Rh6CG118000 Rh6DG106400 Rh6DG106500 Rh7AG243700 Rh7AG243800 Rh7BG238900 Rh7BG239000 Rh7BG273300 Rh7CG259200 Rh7CG259300 Rh7DG484400
rosa_wichuraiana	Rw1G010210 Rw1G015980 Rw6G010680 Rw6G010830

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB7I	CCANNNNNTGG	1 cut(s)	355
AclWI	GGATC	1 cut(s)	28
AcuI	CTGAAG	1 cut(s)	8
AfiI	CCNNNNNNNGG	1 cut(s)	355
AgsI	TTSAA	2 cut(s)	171, 311
AluBI	AGCT	3 cut(s)	212, 250, 265
AluI	AGCT	3 cut(s)	212, 250, 265
Alw26I	GTCTC	1 cut(s)	325
AlwI	GGATC	1 cut(s)	28
Ama87I	CYCGRG	1 cut(s)	92
AoxI	GGCC	2 cut(s)	27, 140
ApeKI	GCWGC	1 cut(s)	250
AseI	ATTAAT	1 cut(s)	72
AspS9I	GGNCC	1 cut(s)	140
AvaI	CYCGRG	1 cut(s)	92
BaeGI	GKGCMC	1 cut(s)	362
BaeI	ACNNNNGTAYC	1 cut(s)	363
BbsI	GAAGAC	1 cut(s)	292
BbvI	GCAGC	1 cut(s)	237
BccI	CCATC	1 cut(s)	131
BcoDI	GTCTC	1 cut(s)	325
BfaI	CTAG	2 cut(s)	209, 385
BisI	GCNGC	1 cut(s)	251
BlsI	GCNGC	1 cut(s)	252
BmeT110I	CYCGRG	1 cut(s)	92
BmgT120I	GGNCC	1 cut(s)	140
BmsI	GCATC	1 cut(s)	283
BpiI	GAAGAC	1 cut(s)	292
BplI	GAGNNNNNCTC	2 cut(s)	305, 337
BsaJI	CCNNGG	2 cut(s)	37, 354
BsaWI	WCCGGW	1 cut(s)	78
BsaXI	ACNNNNNCTCC	2 cut(s)	89, 119
Bsc4I	CCNNNNNNNGG	1 cut(s)	355
BseDI	CCNNGG	2 cut(s)	37, 354
BseLI	CCNNNNNNNGG	1 cut(s)	355
BseRI	GAGGAG	2 cut(s)	110, 254
BseSI	GKGCMC	1 cut(s)	362
BseXI	GCAGC	1 cut(s)	237
BsgI	GTGCAG	1 cut(s)	254
BshFI	GGCC	2 cut(s)	29, 142
BsiHKCI	CYCGRG	1 cut(s)	92
BsiSI	CCGG	1 cut(s)	79
BslI	CCNNNNNNNGG	1 cut(s)	355
BsmAI	GTCTC	1 cut(s)	325
BsnI	GGCC	2 cut(s)	29, 142
BsoBI	CYCGRG	1 cut(s)	92
Bsp1286I	GDGCHC	1 cut(s)	362
Bsp143I	GATC	1 cut(s)	33
Bsp19I	CCATGG	1 cut(s)	37
BspANI	GGCC	2 cut(s)	29, 142
BspPI	GGATC	1 cut(s)	28
BspQI	GCTCTTC	1 cut(s)	306
BssECI	CCNNGG	2 cut(s)	37, 354
BssMI	GATC	1 cut(s)	33
BssT1I	CCWWGG	2 cut(s)	37, 354
Bst4CI	ACNGT	2 cut(s)	190, 376
Bst6I	CTCTTC	2 cut(s)	27, 306
BstC8I	GCNNGC	1 cut(s)	267
BstDEI	CTNAG	1 cut(s)	297
BstDSI	CCRYGG	1 cut(s)	37
BstKTI	GATC	1 cut(s)	36
BstMAI	GTCTC	1 cut(s)	325
BstMBI	GATC	1 cut(s)	33
BstNSI	RCATGY	1 cut(s)	320
BstSLI	GKGCMC	1 cut(s)	362
BstV1I	GCAGC	1 cut(s)	237
BstV2I	GAAGAC	1 cut(s)	292
BsuRI	GGCC	2 cut(s)	29, 142
BtgI	CCRYGG	1 cut(s)	37
BtsI	GCAGTG	1 cut(s)	237
BtsIMutI	CAGTG	1 cut(s)	237
Cac8I	GCNNGC	1 cut(s)	267
Cfr13I	GGNCC	1 cut(s)	140
CviAII	CATG	2 cut(s)	38, 317
CviJI	RGCY	5 cut(s)	29, 142, 212, 250, 265
CviKI_1	RGCY	5 cut(s)	29, 142, 212, 250, 265
DdeI	CTNAG	1 cut(s)	297
DpnI	GATC	1 cut(s)	35
DpnII	GATC	1 cut(s)	33
Eam1104I	CTCTTC	2 cut(s)	27, 306
EarI	CTCTTC	2 cut(s)	27, 306
Eco130I	CCWWGG	2 cut(s)	37, 354
Eco147I	AGGCCT	1 cut(s)	29
Eco57I	CTGAAG	1 cut(s)	8
Eco88I	CYCGRG	1 cut(s)	92
EcoT14I	CCWWGG	2 cut(s)	37, 354
ErhI	CCWWGG	2 cut(s)	37, 354
FaeI	CATG	2 cut(s)	41, 320
FaiI	YATR	3 cut(s)	39, 65, 318
FatI	CATG	2 cut(s)	37, 316
Fnu4HI	GCNGC	1 cut(s)	251
Fsp4HI	GCNGC	1 cut(s)	251
FspBI	CTAG	2 cut(s)	209, 385
GluI	GCNGC	1 cut(s)	251
HaeIII	GGCC	2 cut(s)	29, 142
HapII	CCGG	1 cut(s)	79
Hin1II	CATG	2 cut(s)	41, 320
HindIII	AAGCTT	1 cut(s)	263
HpaII	CCGG	1 cut(s)	79
Hpy188III	TCNNGA	2 cut(s)	194, 349
HpyAV	CCTTC	1 cut(s)	125
HpyCH4III	ACNGT	2 cut(s)	190, 376
HpyCH4V	TGCA	3 cut(s)	235, 269, 275
HpyF3I	CTNAG	1 cut(s)	297
Hsp92II	CATG	2 cut(s)	41, 320
Kzo9I	GATC	1 cut(s)	33
LguI	GCTCTTC	1 cut(s)	306
LpnPI	CCDG	6 cut(s)	11, 92, 179, 221, 270, 362
Lsp1109I	GCAGC	1 cut(s)	237
LweI	GCATC	1 cut(s)	283
MaeI	CTAG	2 cut(s)	209, 385
MalI	GATC	1 cut(s)	35
MboI	GATC	1 cut(s)	33
MboII	GAAGA	5 cut(s)	14, 94, 136, 297, 323
MfeI	CAATTG	1 cut(s)	270
MhlI	GDGCHC	1 cut(s)	362
MluCI	AATT	3 cut(s)	69, 73, 270
MmeI	TCCRAC	1 cut(s)	348
MnlI	CCTC	3 cut(s)	88, 232, 346
MseI	TTAA	6 cut(s)	44, 72, 111, 203, 216, 329
MspI	CCGG	1 cut(s)	79
MunI	CAATTG	1 cut(s)	270
NcoI	CCATGG	1 cut(s)	37
NdeII	GATC	1 cut(s)	33
NlaIII	CATG	2 cut(s)	41, 320
NspI	RCATGY	1 cut(s)	320
PaeR7I	CTCGAG	1 cut(s)	92
PceI	AGGCCT	1 cut(s)	29
PciSI	GCTCTTC	1 cut(s)	306
PflMI	CCANNNNNTGG	1 cut(s)	355
PkrI	GCNGC	1 cut(s)	252
PshBI	ATTAAT	1 cut(s)	72
PspPI	GGNCC	1 cut(s)	140
PspXI	VCTCGAGB	1 cut(s)	92
SapI	GCTCTTC	1 cut(s)	306
SaqAI	TTAA	6 cut(s)	44, 72, 111, 203, 216, 329
SatI	GCNGC	1 cut(s)	251
Sau3AI	GATC	1 cut(s)	33
Sau96I	GGNCC	1 cut(s)	140
SduI	GDGCHC	1 cut(s)	362
SetI	ASST	6 cut(s)	117, 214, 252, 267, 309, 356
SfaNI	GCATC	1 cut(s)	283
Sfr274I	CTCGAG	1 cut(s)	92
SlaI	CTCGAG	1 cut(s)	92
SmlI	CTYRAG	1 cut(s)	92
SmoI	CTYRAG	1 cut(s)	92
Sse9I	AATT	3 cut(s)	69, 73, 270
SseBI	AGGCCT	1 cut(s)	29
SspMI	CTAG	2 cut(s)	209, 385
StuI	AGGCCT	1 cut(s)	29
StyI	CCWWGG	2 cut(s)	37, 354
TaaI	ACNGT	2 cut(s)	190, 376
TaqI	TCGA	1 cut(s)	93
TasI	AATT	3 cut(s)	69, 73, 270
Tru1I	TTAA	6 cut(s)	44, 72, 111, 203, 216, 329
Tru9I	TTAA	6 cut(s)	44, 72, 111, 203, 216, 329
TscAI	CASTG	1 cut(s)	237
TseI	GCWGC	1 cut(s)	250
TspDTI	ATGAA	1 cut(s)	102
TspRI	CASTG	1 cut(s)	237
Van91I	CCANNNNNTGG	1 cut(s)	355
VspI	ATTAAT	1 cut(s)	72
XceI	RCATGY	1 cut(s)	320
XhoI	CTCGAG	1 cut(s)	92
XspI	CTAG	2 cut(s)	209, 385

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