Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3B

Orthogroup ID

OG0002166

Physical Location & Seq

Genomic Coordinates Reverse (-)

19973596 .. 19976560

Gene Structure 2965 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3BG221100.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 378 bp

ATGAGAAATGCAACCCTAGCCAAAGCTTATAAAACCCGGAGGATCGCATTTGAGGCTCCCACAAACAAGAGCCGCCGCAAGATGCAGATTTTCGTGAAAACCCTAACGGGGAAGACCATCACTCTCGAGGTCGAGAGCAGCGACACCATCGACAATGTCAAGGCCAAGATCCAAGACAAGGAAGGCATTCCTCCGGACCAGCAGCGTTTGATTTTCGCCGGAAAGCAGCTCGAAGACGGCCGCACCTTGGCCGACTACAACATCCAGAAAGAGTCGACTCTTCATCTGGTGCTGAGGCTCCGTGGAGGTATCATCGAGCCTTCCTTGATGGCCTTGGCTCGCAAGTACAATCAGGAGAAGATGATTTGCAGAAAGTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

ko03010 map03010

Pfam Domains

Protein Families

Ribosomal_L40e ubiquitin

Protein Analysis

125

Amino Acids

14.3

Weight (kDa)

10.05

Isoelectric Point (pI)

48.03

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Rad60-SLD	PF11976	28 - 98	8.4e-18	Ubiquitin-2 like Rad60 SUMO-like
ubiquitin	PF00240	30 - 101	1e-32	Ubiquitin family
Ribosomal_L40e	PF01020	105 - 125	2.5e-08	Ribosomal L40e family

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)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0002166)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G36170 AT3G52590
fragaria_vesca	FvH4_6g19302 FvH4_6g19302 FvH4_7g32551
malus_domestica	MD01G1226400.v1.1 MD07G1296800.v1.1 MD12G1028600.v1.1 MD14G1028800.v1.1
prunus_persica	Prupe.2G316400_v2.0.a1 Prupe.7G102800_v2.0.a1
pyrus_communis	pycom01g23500 pycom07g26950 pycom12g02740 pycom14g02690
rosa_chinensis	RchiOBHm_Chr1g0336321 RchiOBHm_Chr1g0382401 RchiOBHm_Chr2g0129851 RchiOBHm_Chr2g0148571 RchiOBHm_Chr2g0162391 RchiOBHm_Chr3g0474431 RchiOBHm_Chr3g0474471 RchiOBHm_Chr3g0485451 RchiOBHm_Chr4g0402971
rosa_multiflora	Rmu_sc0000048.1_g000015 Rmu_sc0009916.1_g000009
rosa_roxburghii	Rroxscaffold_1G00002380 Rroxscaffold_4G00278130
rosa_rugosa	Rorug01G0434100 Rorug03G0140900
rosa_samantha	Rh1AG458800 Rh1BG415100 Rh1CG429200 Rh1DG447200 Rh2BG576000 Rh3AG191600 Rh3AG267800 Rh3BG221100 Rh3BG221300 Rh4CG124000
rosa_wichuraiana	Rw1G041220 Rw3G017490 Rw6G010860

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	30
AccI	GTMKAC	1 cut(s)	275
AccIII	TCCGGA	1 cut(s)	193
AciI	CCGC	3 cut(s)	73, 76, 241
AclWI	GGATC	2 cut(s)	50, 163
AcoI	YGGCCR	2 cut(s)	238, 249
AfaI	GTAC	1 cut(s)	347
AfiI	CCNNNNNNNGG	3 cut(s)	108, 178, 247
AluBI	AGCT	2 cut(s)	26, 229
AluI	AGCT	2 cut(s)	26, 229
AlwI	GGATC	2 cut(s)	50, 163
Ama87I	CYCGRG	1 cut(s)	125
Aor13HI	TCCGGA	1 cut(s)	193
AoxI	GGCC	4 cut(s)	162, 238, 249, 330
ApeKI	GCWGC	3 cut(s)	138, 202, 226
Asp700I	GAANNNNTTC	1 cut(s)	186
AspS9I	GGNCC	1 cut(s)	196
AsuC2I	CCSGG	1 cut(s)	37
AvaI	CYCGRG	1 cut(s)	125
AvaII	GGWCC	1 cut(s)	196
BbsI	GAAGAC	2 cut(s)	119, 240
BbvCI	CCTCAGC	1 cut(s)	293
BbvI	GCAGC	3 cut(s)	150, 214, 238
BccI	CCATC	3 cut(s)	125, 155, 322
BceAI	ACGGC	1 cut(s)	253
BcnI	CCSGG	1 cut(s)	37
BfaI	CTAG	1 cut(s)	17
BisI	GCNGC	6 cut(s)	73, 76, 139, 203, 227, 241
BlsI	GCNGC	6 cut(s)	74, 77, 140, 204, 228, 242
Bme1390I	CCNGG	1 cut(s)	37
Bme18I	GGWCC	1 cut(s)	196
BmeT110I	CYCGRG	1 cut(s)	125
BmgT120I	GGNCC	1 cut(s)	196
BmiI	GGNNCC	2 cut(s)	57, 299
BmrFI	CCNGG	1 cut(s)	37
BmsI	GCATC	1 cut(s)	72
BpiI	GAAGAC	2 cut(s)	119, 240
Bpu10I	CCTNAGC	1 cut(s)	293
BpuMI	CCSGG	1 cut(s)	37
BsaJI	CCNNGG	3 cut(s)	246, 301, 333
BsaWI	WCCGGW	1 cut(s)	193
Bsc4I	CCNNNNNNNGG	3 cut(s)	108, 178, 247
BseAI	TCCGGA	1 cut(s)	193
BseDI	CCNNGG	3 cut(s)	246, 301, 333
BseGI	GGATG	1 cut(s)	261
BseLI	CCNNNNNNNGG	3 cut(s)	108, 178, 247
BseMII	CTCAG	1 cut(s)	284
BseX3I	CGGCCG	1 cut(s)	238
BseXI	GCAGC	3 cut(s)	150, 214, 238
Bsh1285I	CGRYCG	1 cut(s)	241
BshFI	GGCC	4 cut(s)	164, 240, 251, 332
BsiEI	CGRYCG	1 cut(s)	241
BsiHKCI	CYCGRG	1 cut(s)	125
BsiSI	CCGG	3 cut(s)	37, 194, 219
BslI	CCNNNNNNNGG	3 cut(s)	108, 178, 247
BsmI	GAATGC	1 cut(s)	186
BsnI	GGCC	4 cut(s)	164, 240, 251, 332
BsoBI	CYCGRG	1 cut(s)	125
Bsp13I	TCCGGA	1 cut(s)	193
Bsp143I	GATC	2 cut(s)	42, 168
BspACI	CCGC	3 cut(s)	73, 76, 241
BspANI	GGCC	4 cut(s)	164, 240, 251, 332
BspCNI	CTCAG	1 cut(s)	285
BspEI	TCCGGA	1 cut(s)	193
BspLI	GGNNCC	2 cut(s)	57, 299
BspPI	GGATC	2 cut(s)	50, 163
BssECI	CCNNGG	3 cut(s)	246, 301, 333
BssMI	GATC	2 cut(s)	42, 168
BssT1I	CCWWGG	2 cut(s)	246, 333
Bst6I	CTCTTC	1 cut(s)	285
BstC8I	GCNNGC	1 cut(s)	340
BstDEI	CTNAG	1 cut(s)	293
BstDSI	CCRYGG	1 cut(s)	301
BstF5I	GGATG	1 cut(s)	261
BstKTI	GATC	2 cut(s)	45, 171
BstMBI	GATC	2 cut(s)	42, 168
BstMCI	CGRYCG	1 cut(s)	241
BstMWI	GCNNNNNNNGC	2 cut(s)	17, 53
BstSCI	CCNGG	1 cut(s)	35
BstV1I	GCAGC	3 cut(s)	150, 214, 238
BstV2I	GAAGAC	2 cut(s)	119, 240
BstX2I	RGATCY	1 cut(s)	168
BstYI	RGATCY	1 cut(s)	168
BstZI	CGGCCG	1 cut(s)	238
BsuRI	GGCC	4 cut(s)	164, 240, 251, 332
BtgI	CCRYGG	1 cut(s)	301
BtsCI	GGATG	1 cut(s)	261
Cac8I	GCNNGC	1 cut(s)	340
Cfr13I	GGNCC	1 cut(s)	196
Csp6I	GTAC	1 cut(s)	346
CviQI	GTAC	1 cut(s)	346
DdeI	CTNAG	1 cut(s)	293
DpnI	GATC	2 cut(s)	44, 170
DpnII	GATC	2 cut(s)	42, 168
EaeI	YGGCCR	2 cut(s)	238, 249
EagI	CGGCCG	1 cut(s)	238
Eam1104I	CTCTTC	1 cut(s)	285
EarI	CTCTTC	1 cut(s)	285
EclXI	CGGCCG	1 cut(s)	238
Eco130I	CCWWGG	2 cut(s)	246, 333
Eco47I	GGWCC	1 cut(s)	196
Eco52I	CGGCCG	1 cut(s)	238
Eco88I	CYCGRG	1 cut(s)	125
EcoT14I	CCWWGG	2 cut(s)	246, 333
ErhI	CCWWGG	2 cut(s)	246, 333
FaiI	YATR	1 cut(s)	30
FblI	GTMKAC	1 cut(s)	275
Fnu4HI	GCNGC	6 cut(s)	73, 76, 139, 203, 227, 241
FokI	GGATG	1 cut(s)	248
Fsp4HI	GCNGC	6 cut(s)	73, 76, 139, 203, 227, 241
FspBI	CTAG	1 cut(s)	17
GluI	GCNGC	6 cut(s)	73, 76, 139, 203, 227, 241
HaeIII	GGCC	4 cut(s)	164, 240, 251, 332
HapII	CCGG	3 cut(s)	37, 194, 219
HincII	GTYRAC	1 cut(s)	276
HindII	GTYRAC	1 cut(s)	276
HindIII	AAGCTT	1 cut(s)	24
HinfI	GANTC	2 cut(s)	272, 277
HpaII	CCGG	3 cut(s)	37, 194, 219
Hpy166II	GTNNAC	1 cut(s)	276
Hpy188III	TCNNGA	6 cut(s)	94, 125, 133, 194, 265, 353
Hpy8I	GTNNAC	1 cut(s)	276
HpyAV	CCTTC	2 cut(s)	176, 330
HpyCH4V	TGCA	3 cut(s)	11, 85, 369
HpyF10VI	GCNNNNNNNGC	2 cut(s)	17, 53
HpyF3I	CTNAG	1 cut(s)	293
Kpn2I	TCCGGA	1 cut(s)	193
Kzo9I	GATC	2 cut(s)	42, 168
LmnI	GCTCC	2 cut(s)	61, 303
LpnPI	CCDG	7 cut(s)	50, 207, 212, 232, 272, 278, 338
Lsp1109I	GCAGC	3 cut(s)	150, 214, 238
LweI	GCATC	1 cut(s)	72
MaeI	CTAG	1 cut(s)	17
MalI	GATC	2 cut(s)	44, 170
MboI	GATC	2 cut(s)	42, 168
MboII	GAAGA	4 cut(s)	124, 245, 272, 370
MflI	RGATCY	1 cut(s)	168
MlyI	GAGTC	2 cut(s)	271, 281
MnlI	CCTC	6 cut(s)	33, 46, 121, 201, 288, 299
MroI	TCCGGA	1 cut(s)	193
MroXI	GAANNNNTTC	1 cut(s)	186
MspI	CCGG	3 cut(s)	37, 194, 219
MspR9I	CCNGG	1 cut(s)	37
Mva1269I	GAATGC	1 cut(s)	186
MwoI	GCNNNNNNNGC	2 cut(s)	17, 53
NciI	CCSGG	1 cut(s)	37
NdeII	GATC	2 cut(s)	42, 168
NlaIV	GGNNCC	2 cut(s)	57, 299
PaeR7I	CTCGAG	1 cut(s)	125
PcsI	WCGNNNNNNNCGW	1 cut(s)	138
PctI	GAATGC	1 cut(s)	186
PdmI	GAANNNNTTC	1 cut(s)	186
PflFI	GACNNNGTC	1 cut(s)	155
PkrI	GCNGC	6 cut(s)	74, 77, 140, 204, 228, 242
PleI	GAGTC	2 cut(s)	271, 280
PpsI	GAGTC	2 cut(s)	271, 280
PsiI	TTATAA	1 cut(s)	30
PspN4I	GGNNCC	2 cut(s)	57, 299
PspPI	GGNCC	1 cut(s)	196
PsuI	RGATCY	1 cut(s)	168
PsyI	GACNNNGTC	1 cut(s)	155
RsaI	GTAC	1 cut(s)	347
RsaNI	GTAC	1 cut(s)	346
SalI	GTCGAC	1 cut(s)	274
SatI	GCNGC	6 cut(s)	73, 76, 139, 203, 227, 241
Sau3AI	GATC	2 cut(s)	42, 168
Sau96I	GGNCC	1 cut(s)	196
SchI	GAGTC	2 cut(s)	271, 281
ScrFI	CCNGG	1 cut(s)	37
SetI	ASST	5 cut(s)	28, 132, 231, 248, 310
SfaNI	GCATC	1 cut(s)	72
Sfr274I	CTCGAG	1 cut(s)	125
SinI	GGWCC	1 cut(s)	196
SlaI	CTCGAG	1 cut(s)	125
SmlI	CTYRAG	1 cut(s)	125
SmoI	CTYRAG	1 cut(s)	125
SsiI	CCGC	3 cut(s)	73, 76, 241
SspMI	CTAG	1 cut(s)	17
StyD4I	CCNGG	1 cut(s)	35
StyI	CCWWGG	2 cut(s)	246, 333
TaqI	TCGA	6 cut(s)	126, 132, 150, 231, 275, 315
TatI	WGTACW	1 cut(s)	345
TauI	GCSGC	3 cut(s)	75, 78, 243
TseI	GCWGC	3 cut(s)	138, 202, 226
TspDTI	ATGAA	1 cut(s)	272
TspGWI	ACGGA	1 cut(s)	290
Tth111I	GACNNNGTC	1 cut(s)	155
VpaK11BI	GGWCC	1 cut(s)	196
XhoI	CTCGAG	1 cut(s)	125
XmiI	GTMKAC	1 cut(s)	275
XmnI	GAANNNNTTC	1 cut(s)	186
XspI	CTAG	1 cut(s)	17

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