Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1C

Orthogroup ID

OG0002166

Physical Location & Seq

Genomic Coordinates Forward (+)

68720704 .. 68722177

Gene Structure 1474 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1CG429200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 387 bp

ATGCAGATCTTTGTGAAAACCCTAACCGGGAAGACCATCACCCTTGAGGTCGAGTCCAGCGACACCATCGACAACGTCAAGGCCAAGATCCAGGACAAGGAAGGTATCCCGCCGGACCAGCAGAGGCTCATTTTCGCCGGAAAGCAGCTCGAGGATGGCCGTACTCTTGCCGATTACAACATTCAGAAAGAATCAACTCTGCATTTGGTTCTGAGGCTCCGTGGTGGTATTATTGAGCCTTCTCTCATGGCATTGGCTAGGAAGTACAACCAAGAGAAGATGATCTGCCGCAAGTGCTACGCACGCCTTCACCCCCGTGCTGTCAACTGCAGGAAGAAGAAGTGTGGACACAGCAACCAGCTGAGGCCAAAGAAGAAGATCAAGTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

ko03010 ko03320 map03010 map03320

Pfam Domains

Protein Families

Ribosomal_L40e ubiquitin

Protein Analysis

128

Amino Acids

14.69

Weight (kDa)

9.94

Isoelectric Point (pI)

33.48

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Rad60-SLD	PF11976	1 - 71	8.9e-18	Ubiquitin-2 like Rad60 SUMO-like
ubiquitin	PF00240	3 - 74	1.1e-32	Ubiquitin family
Ribosomal_L40e	PF01020	78 - 127	3.7e-31	Ribosomal L40e family

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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

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)
AciI	CCGC	2 cut(s)	110, 289
AclWI	GGATC	1 cut(s)	82
AcoI	YGGCCR	1 cut(s)	157
AfaI	GTAC	2 cut(s)	163, 266
AfiI	CCNNNNNNNGG	2 cut(s)	27, 97
AjnI	CCWGG	1 cut(s)	90
AleI	CACNNNNGTG	1 cut(s)	315
AluBI	AGCT	2 cut(s)	148, 361
AluI	AGCT	2 cut(s)	148, 361
AlwI	GGATC	1 cut(s)	82
Ama87I	CYCGRG	1 cut(s)	149
AoxI	GGCC	3 cut(s)	81, 157, 365
ApeKI	GCWGC	1 cut(s)	145
AspS9I	GGNCC	1 cut(s)	115
AsuC2I	CCSGG	1 cut(s)	28
AsuHPI	GGTGA	2 cut(s)	31, 302
AvaI	CYCGRG	1 cut(s)	149
AvaII	GGWCC	1 cut(s)	115
BbsI	GAAGAC	1 cut(s)	38
BbvCI	CCTCAGC	1 cut(s)	362
BbvI	GCAGC	1 cut(s)	157
BccI	CCATC	3 cut(s)	44, 74, 149
BceAI	ACGGC	1 cut(s)	144
BciT130I	CCWGG	1 cut(s)	92
BciVI	GTATCC	1 cut(s)	116
BcnI	CCSGG	1 cut(s)	28
BfaI	CTAG	1 cut(s)	258
BfmI	CTRYAG	1 cut(s)	328
BfuI	GTATCC	1 cut(s)	116
BglII	AGATCT	1 cut(s)	6
BisI	GCNGC	2 cut(s)	146, 289
BlsI	GCNGC	2 cut(s)	147, 290
Bme1390I	CCNGG	2 cut(s)	28, 92
Bme18I	GGWCC	1 cut(s)	115
BmeT110I	CYCGRG	1 cut(s)	149
BmgT120I	GGNCC	1 cut(s)	115
BmiI	GGNNCC	1 cut(s)	218
BmrFI	CCNGG	2 cut(s)	28, 92
BpiI	GAAGAC	1 cut(s)	38
Bpu10I	CCTNAGC	1 cut(s)	362
BpuEI	CTTGAG	1 cut(s)	65
BpuMI	CCSGG	1 cut(s)	28
BsaJI	CCNNGG	1 cut(s)	220
Bsc4I	CCNNNNNNNGG	2 cut(s)	27, 97
BseBI	CCWGG	1 cut(s)	92
BseDI	CCNNGG	1 cut(s)	220
BseGI	GGATG	1 cut(s)	160
BseLI	CCNNNNNNNGG	2 cut(s)	27, 97
BseMII	CTCAG	2 cut(s)	203, 353
BseXI	GCAGC	1 cut(s)	157
BshFI	GGCC	3 cut(s)	83, 159, 367
BsiHKCI	CYCGRG	1 cut(s)	149
BsiSI	CCGG	3 cut(s)	27, 113, 138
BslI	CCNNNNNNNGG	2 cut(s)	27, 97
BsnI	GGCC	3 cut(s)	83, 159, 367
BsoBI	CYCGRG	1 cut(s)	149
Bsp143I	GATC	4 cut(s)	6, 87, 282, 378
BspACI	CCGC	2 cut(s)	110, 289
BspANI	GGCC	3 cut(s)	83, 159, 367
BspCNI	CTCAG	2 cut(s)	204, 354
BspLI	GGNNCC	1 cut(s)	218
BspMAI	CTGCAG	1 cut(s)	332
BspPI	GGATC	1 cut(s)	82
BssECI	CCNNGG	1 cut(s)	220
BssMI	GATC	4 cut(s)	6, 87, 282, 378
Bst2UI	CCWGG	1 cut(s)	92
BstC8I	GCNNGC	1 cut(s)	304
BstDEI	CTNAG	2 cut(s)	212, 362
BstDSI	CCRYGG	1 cut(s)	220
BstF5I	GGATG	1 cut(s)	160
BstKTI	GATC	4 cut(s)	9, 90, 285, 381
BstMBI	GATC	4 cut(s)	6, 87, 282, 378
BstMWI	GCNNNNNNNGC	3 cut(s)	118, 294, 303
BstNI	CCWGG	1 cut(s)	92
BstSCI	CCNGG	2 cut(s)	26, 90
BstSFI	CTRYAG	1 cut(s)	328
BstV1I	GCAGC	1 cut(s)	157
BstV2I	GAAGAC	1 cut(s)	38
BstX2I	RGATCY	2 cut(s)	6, 87
BstYI	RGATCY	2 cut(s)	6, 87
BsuI	GTATCC	1 cut(s)	116
BsuRI	GGCC	3 cut(s)	83, 159, 367
BtgI	CCRYGG	1 cut(s)	220
BtsCI	GGATG	1 cut(s)	160
Cac8I	GCNNGC	1 cut(s)	304
Cfr13I	GGNCC	1 cut(s)	115
Csp6I	GTAC	2 cut(s)	162, 265
CviAII	CATG	1 cut(s)	247
CviJI	RGCY	9 cut(s)	83, 127, 148, 159, 217, 238, 257, 361, 367
CviKI_1	RGCY	9 cut(s)	83, 127, 148, 159, 217, 238, 257, 361, 367
CviQI	GTAC	2 cut(s)	162, 265
DdeI	CTNAG	2 cut(s)	212, 362
DpnI	GATC	4 cut(s)	8, 89, 284, 380
DpnII	GATC	4 cut(s)	6, 87, 282, 378
EaeI	YGGCCR	1 cut(s)	157
Eco47I	GGWCC	1 cut(s)	115
Eco88I	CYCGRG	1 cut(s)	149
EcoRII	CCWGG	1 cut(s)	90
FaeI	CATG	1 cut(s)	250
FaiI	YATR	1 cut(s)	248
FatI	CATG	1 cut(s)	246
FauI	CCCGC	1 cut(s)	117
Fnu4HI	GCNGC	2 cut(s)	146, 289
FokI	GGATG	1 cut(s)	167
Fsp4HI	GCNGC	2 cut(s)	146, 289
FspBI	CTAG	1 cut(s)	258
GluI	GCNGC	2 cut(s)	146, 289
HaeIII	GGCC	3 cut(s)	83, 159, 367
HapII	CCGG	3 cut(s)	27, 113, 138
Hin1II	CATG	1 cut(s)	250
HincII	GTYRAC	1 cut(s)	325
HindII	GTYRAC	1 cut(s)	325
HinfI	GANTC	2 cut(s)	53, 191
HpaII	CCGG	3 cut(s)	27, 113, 138
HphI	GGTGA	2 cut(s)	31, 302
Hpy166II	GTNNAC	2 cut(s)	325, 347
Hpy188I	TCNGA	2 cut(s)	186, 213
Hpy8I	GTNNAC	2 cut(s)	325, 347
HpyAV	CCTTC	3 cut(s)	95, 249, 317
HpyCH4IV	ACGT	1 cut(s)	75
HpyCH4V	TGCA	3 cut(s)	4, 202, 330
HpyF10VI	GCNNNNNNNGC	3 cut(s)	118, 294, 303
HpyF3I	CTNAG	2 cut(s)	212, 362
HpySE526I	ACGT	1 cut(s)	75
Hsp92II	CATG	1 cut(s)	250
Kzo9I	GATC	4 cut(s)	6, 87, 282, 378
LmnI	GCTCC	1 cut(s)	222
LpnPI	CCDG	9 cut(s)	40, 70, 77, 104, 126, 131, 151, 316, 371
Lsp1109I	GCAGC	1 cut(s)	157
MaeI	CTAG	1 cut(s)	258
MaeII	ACGT	1 cut(s)	75
MalI	GATC	4 cut(s)	8, 89, 284, 380
MboI	GATC	4 cut(s)	6, 87, 282, 378
MboII	GAAGA	5 cut(s)	43, 289, 346, 349, 385
MflI	RGATCY	2 cut(s)	6, 87
MlyI	GAGTC	1 cut(s)	62
MnlI	CCTC	5 cut(s)	40, 117, 145, 207, 357
MslI	CAYNNNNRTG	1 cut(s)	315
MspA1I	CMGCKG	1 cut(s)	361
MspI	CCGG	3 cut(s)	27, 113, 138
MspR9I	CCNGG	2 cut(s)	28, 92
MvaI	CCWGG	1 cut(s)	92
MwoI	GCNNNNNNNGC	3 cut(s)	118, 294, 303
NciI	CCSGG	1 cut(s)	28
NdeII	GATC	4 cut(s)	6, 87, 282, 378
NlaIII	CATG	1 cut(s)	250
NlaIV	GGNNCC	1 cut(s)	218
OliI	CACNNNNGTG	1 cut(s)	315
PaeR7I	CTCGAG	1 cut(s)	149
PcsI	WCGNNNNNNNCGW	1 cut(s)	57
PfeI	GAWTC	1 cut(s)	191
PflFI	GACNNNGTC	1 cut(s)	74
PfoI	TCCNGGA	1 cut(s)	90
PkrI	GCNGC	2 cut(s)	147, 290
PleI	GAGTC	1 cut(s)	61
PpsI	GAGTC	1 cut(s)	61
Psp6I	CCWGG	1 cut(s)	90
PspGI	CCWGG	1 cut(s)	90
PspN4I	GGNNCC	1 cut(s)	218
PspPI	GGNCC	1 cut(s)	115
PspXI	VCTCGAGB	1 cut(s)	149
PstI	CTGCAG	1 cut(s)	332
PsuI	RGATCY	2 cut(s)	6, 87
PsyI	GACNNNGTC	1 cut(s)	74
PvuII	CAGCTG	1 cut(s)	361
RsaI	GTAC	2 cut(s)	163, 266
RsaNI	GTAC	2 cut(s)	162, 265
RseI	CAYNNNNRTG	1 cut(s)	315
SatI	GCNGC	2 cut(s)	146, 289
Sau3AI	GATC	4 cut(s)	6, 87, 282, 378
Sau96I	GGNCC	1 cut(s)	115
SchI	GAGTC	1 cut(s)	62
ScrFI	CCNGG	2 cut(s)	28, 92
SetI	ASST	5 cut(s)	51, 78, 106, 150, 363
SfcI	CTRYAG	1 cut(s)	328
Sfr274I	CTCGAG	1 cut(s)	149
SinI	GGWCC	1 cut(s)	115
SlaI	CTCGAG	1 cut(s)	149
SmiMI	CAYNNNNRTG	1 cut(s)	315
SmlI	CTYRAG	2 cut(s)	44, 149
SmoI	CTYRAG	2 cut(s)	44, 149
SsiI	CCGC	2 cut(s)	110, 289
SspMI	CTAG	1 cut(s)	258
StyD4I	CCNGG	2 cut(s)	26, 90
TaiI	ACGT	1 cut(s)	78
TaqI	TCGA	3 cut(s)	51, 69, 150
TatI	WGTACW	1 cut(s)	264
TauI	GCSGC	1 cut(s)	291
TfiI	GAWTC	1 cut(s)	191
TseI	GCWGC	1 cut(s)	145
TspGWI	ACGGA	1 cut(s)	209
Tth111I	GACNNNGTC	1 cut(s)	74
VpaK11BI	GGWCC	1 cut(s)	115
XhoI	CTCGAG	1 cut(s)	149
XspI	CTAG	1 cut(s)	258

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