Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4A

Orthogroup ID

OG0009333

Physical Location & Seq

Genomic Coordinates Forward (+)

11283934 .. 11284877

Gene Structure 944 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4AG053900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 459 bp

ATGGCAGCTTCCGCAACCGCGGCTATCTTCTTTGGCAGCTGTTCCGGTCTATGCCTCCGCAGCGGAGCAGAGTCCTCCAAGAGAATATTGTCTTCCAAGACCCAAGCAGTTTCCGATATTGGGTTCCTCACCAGTCAGCTCAGCGGCCTCAAAATCTCCTACGACGTGTCGTCTCAGCTCCCCAGTCCCATCTTCACTCCTTCCCTCCCTGGCCTTCAGCCCATTGTTGCTCGTAGAATTTGTCCTTTTACTGGGAAGAAAGCAAACAAGGCAAACAAGATTTCCTTCTCTGCCCACAAGACCAAGAAGTTGCAGTTTGTGAACCTGCAGTATAAGAGGATCTGGGTGGGAAGAAGGGAAGCGCTTTTTGAAGCTGCGCTTGTCAACAAAAGCAATCAAGACCATAGAGAAGAATGGACTGGAAGCCGTTGCCAAGAAGGCTGGCATAGATCTTCGTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003735 GO:0005198 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005829 GO:0005840 GO:0009507 GO:0009526 GO:0009532 GO:0009536 GO:0009570 GO:0009941 GO:0015934 GO:0016020 GO:0022625 GO:0022626 GO:0031967 GO:0031975 GO:0032991 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0044391 GO:0044422 GO:0044424 GO:0044434 GO:0044435 GO:0044444 GO:0044445 GO:0044446 GO:0044464 GO:1990904

KEGG Pathways

Metabolic & Signaling

ko03010 map03010

Pfam Domains

Protein Families

Ribosomal_L28

Protein Analysis

152

Amino Acids

16.71

Weight (kDa)

10.14

Isoelectric Point (pI)

66.31

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Ribosomal_L28	PF00830	79 - 116	5.1e-10	Ribosomal L28 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

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Orthologous Genes (Group: OG0009333)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G33450
fragaria_vesca	FvH4_4g04200
malus_domestica	MD13G1218400.v1.1 MD16G1223800.v1.1
prunus_persica	Prupe.1G045100_v2.0.a1
pyrus_communis	pycom13g19330 pycom16g18730
rosa_chinensis	RchiOBHm_Chr4g0394651 RchiOBHm_Chr4g0394691
rosa_laevigata	RLG00000009674
rosa_multiflora	Rmu_sc0005424.1_g000003 Rmu_sc0011148.1_g000007
rosa_roxburghii	Rroxscaffold_5G00339690
rosa_rugosa	Rorug03G0362600.1 Rorug03G0362700.1 Rorug03G0363200.1
rosa_samantha	Rh4AG053900 Rh4AG054200 Rh4BG051900 Rh4CG058700 Rh4DG050400
rosa_wichuraiana	Rw4G004320

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	1 cut(s)	333
AccII	CGCG	1 cut(s)	20
AciI	CCGC	6 cut(s)	12, 18, 20, 58, 63, 144
AclWI	GGATC	1 cut(s)	347
AcsI	RAATTY	1 cut(s)	237
AcuI	CTGAAG	1 cut(s)	200
AfeI	AGCGCT	1 cut(s)	363
AfiI	CCNNNNNNNGG	2 cut(s)	120, 251
AflIII	ACRYGT	1 cut(s)	165
AgsI	TTSAA	1 cut(s)	371
AhdI	GACNNNNNGTC	1 cut(s)	169
AjiI	CACGTC	1 cut(s)	166
AjnI	CCWGG	1 cut(s)	208
AluBI	AGCT	5 cut(s)	8, 39, 139, 178, 374
AluI	AGCT	5 cut(s)	8, 39, 139, 178, 374
Alw26I	GTCTC	1 cut(s)	177
AlwI	GGATC	1 cut(s)	347
Aor51HI	AGCGCT	1 cut(s)	363
AoxI	GGCC	2 cut(s)	145, 211
ApeKI	GCWGC	4 cut(s)	5, 36, 60, 374
ApoI	RAATTY	1 cut(s)	237
AspLEI	GCGC	2 cut(s)	364, 379
AsuHPI	GGTGA	1 cut(s)	121
BbsI	GAAGAC	1 cut(s)	84
BbvI	GCAGC	4 cut(s)	17, 48, 72, 361
BccI	CCATC	1 cut(s)	197
BceAI	ACGGC	1 cut(s)	411
BciT130I	CCWGG	1 cut(s)	210
BcoDI	GTCTC	1 cut(s)	177
BfmI	CTRYAG	1 cut(s)	326
BfoI	RGCGCY	1 cut(s)	365
BfuAI	ACCTGC	1 cut(s)	333
BglI	GCCNNNNNGGC	1 cut(s)	438
BglII	AGATCT	1 cut(s)	449
BisI	GCNGC	6 cut(s)	6, 21, 37, 61, 145, 375
BlpI	GCTNAGC	1 cut(s)	140
BlsI	GCNGC	6 cut(s)	7, 22, 38, 62, 146, 376
Bme1390I	CCNGG	1 cut(s)	210
BmeRI	GACNNNNNGTC	1 cut(s)	169
BmgBI	CACGTC	1 cut(s)	166
BmiI	GGNNCC	1 cut(s)	125
BmrFI	CCNGG	1 cut(s)	210
BmrI	ACTGGG	2 cut(s)	177, 261
BmuI	ACTGGG	2 cut(s)	177, 261
BpiI	GAAGAC	1 cut(s)	84
Bpu1102I	GCTNAGC	1 cut(s)	140
BsaJI	CCNNGG	2 cut(s)	18, 208
BsaWI	WCCGGW	1 cut(s)	44
Bsc4I	CCNNNNNNNGG	2 cut(s)	120, 251
Bse1I	ACTGG	4 cut(s)	132, 183, 256, 424
BseBI	CCWGG	1 cut(s)	210
BseDI	CCNNGG	2 cut(s)	18, 208
BseLI	CCNNNNNNNGG	2 cut(s)	120, 251
BseMII	CTCAG	2 cut(s)	154, 188
BseNI	ACTGG	4 cut(s)	132, 183, 256, 424
BseXI	GCAGC	4 cut(s)	17, 48, 72, 361
Bsh1236I	CGCG	1 cut(s)	20
BshFI	GGCC	2 cut(s)	147, 213
BsiSI	CCGG	1 cut(s)	45
BslFI	GGGAC	1 cut(s)	171
BslI	CCNNNNNNNGG	2 cut(s)	120, 251
BsmAI	GTCTC	1 cut(s)	177
BsmBI	CGTCTC	1 cut(s)	177
BsmFI	GGGAC	1 cut(s)	171
BsnI	GGCC	2 cut(s)	147, 213
Bsp143I	GATC	2 cut(s)	339, 449
Bsp1720I	GCTNAGC	1 cut(s)	140
BspACI	CCGC	6 cut(s)	12, 18, 20, 58, 63, 144
BspANI	GGCC	2 cut(s)	147, 213
BspCNI	CTCAG	2 cut(s)	153, 187
BspFNI	CGCG	1 cut(s)	20
BspLI	GGNNCC	1 cut(s)	125
BspMAI	CTGCAG	1 cut(s)	330
BspMI	ACCTGC	1 cut(s)	333
BspPI	GGATC	1 cut(s)	347
BsrI	ACTGG	4 cut(s)	132, 183, 256, 424
BssECI	CCNNGG	2 cut(s)	18, 208
BssMI	GATC	2 cut(s)	339, 449
Bst2UI	CCWGG	1 cut(s)	210
BstC8I	GCNNGC	1 cut(s)	443
BstDEI	CTNAG	2 cut(s)	140, 174
BstDSI	CCRYGG	1 cut(s)	18
BstFNI	CGCG	1 cut(s)	20
BstH2I	RGCGCY	1 cut(s)	365
BstHHI	GCGC	2 cut(s)	364, 379
BstKTI	GATC	2 cut(s)	342, 452
BstMAI	GTCTC	1 cut(s)	177
BstMBI	GATC	2 cut(s)	339, 449
BstMWI	GCNNNNNNNGC	5 cut(s)	11, 20, 60, 269, 438
BstNI	CCWGG	1 cut(s)	210
BstSCI	CCNGG	1 cut(s)	208
BstSFI	CTRYAG	1 cut(s)	326
BstUI	CGCG	1 cut(s)	20
BstV1I	GCAGC	4 cut(s)	17, 48, 72, 361
BstV2I	GAAGAC	1 cut(s)	84
BstX2I	RGATCY	2 cut(s)	339, 449
BstYI	RGATCY	2 cut(s)	339, 449
BsuRI	GGCC	2 cut(s)	147, 213
BtgI	CCRYGG	1 cut(s)	18
BtrI	CACGTC	1 cut(s)	166
BveI	ACCTGC	1 cut(s)	333
Cac8I	GCNNGC	1 cut(s)	443
CfoI	GCGC	2 cut(s)	364, 379
Cfr42I	CCGCGG	1 cut(s)	21
DdeI	CTNAG	2 cut(s)	140, 174
DpnI	GATC	2 cut(s)	341, 451
DpnII	GATC	2 cut(s)	339, 449
DriI	GACNNNNNGTC	1 cut(s)	169
Eam1105I	GACNNNNNGTC	1 cut(s)	169
Eco47III	AGCGCT	1 cut(s)	363
Eco57I	CTGAAG	1 cut(s)	200
EcoRII	CCWGG	1 cut(s)	208
Esp3I	CGTCTC	1 cut(s)	177
FaiI	YATR	4 cut(s)	52, 333, 405, 447
FalI	AAGNNNNNCTT	4 cut(s)	269, 301, 363, 395
FaqI	GGGAC	1 cut(s)	171
Fnu4HI	GCNGC	6 cut(s)	6, 21, 37, 61, 145, 375
Fsp4HI	GCNGC	6 cut(s)	6, 21, 37, 61, 145, 375
GlaI	GCGC	2 cut(s)	363, 378
GluI	GCNGC	6 cut(s)	6, 21, 37, 61, 145, 375
HaeII	RGCGCY	1 cut(s)	365
HaeIII	GGCC	2 cut(s)	147, 213
HapII	CCGG	1 cut(s)	45
HhaI	GCGC	2 cut(s)	364, 379
Hin6I	GCGC	2 cut(s)	362, 377
HinP1I	GCGC	2 cut(s)	362, 377
HincII	GTYRAC	1 cut(s)	385
HindII	GTYRAC	1 cut(s)	385
HinfI	GANTC	1 cut(s)	71
HpaII	CCGG	1 cut(s)	45
HphI	GGTGA	1 cut(s)	121
Hpy166II	GTNNAC	2 cut(s)	322, 385
Hpy188I	TCNGA	1 cut(s)	115
Hpy188III	TCNNGA	1 cut(s)	398
Hpy8I	GTNNAC	2 cut(s)	322, 385
Hpy99I	CGWCG	1 cut(s)	167
HpyAV	CCTTC	5 cut(s)	210, 224, 295, 348, 431
HpyCH4IV	ACGT	1 cut(s)	165
HpyCH4V	TGCA	2 cut(s)	313, 328
HpyF10VI	GCNNNNNNNGC	5 cut(s)	11, 20, 60, 269, 438
HpyF3I	CTNAG	2 cut(s)	140, 174
HpySE526I	ACGT	1 cut(s)	165
HspAI	GCGC	2 cut(s)	362, 377
KspI	CCGCGG	1 cut(s)	21
Kzo9I	GATC	2 cut(s)	339, 449
LmnI	GCTCC	2 cut(s)	65, 183
Lsp1109I	GCAGC	4 cut(s)	17, 48, 72, 361
MaeII	ACGT	1 cut(s)	165
MalI	GATC	2 cut(s)	341, 451
MboI	GATC	2 cut(s)	339, 449
MboII	GAAGA	7 cut(s)	19, 84, 184, 268, 363, 422, 444
MflI	RGATCY	2 cut(s)	339, 449
MluCI	AATT	1 cut(s)	237
MlyI	GAGTC	1 cut(s)	80
MnlI	CCTC	6 cut(s)	65, 85, 137, 158, 215, 330
MspA1I	CMGCKG	4 cut(s)	20, 39, 63, 144
MspI	CCGG	1 cut(s)	45
MspR9I	CCNGG	1 cut(s)	210
MvaI	CCWGG	1 cut(s)	210
MvnI	CGCG	1 cut(s)	20
MwoI	GCNNNNNNNGC	5 cut(s)	11, 20, 60, 269, 438
NdeII	GATC	2 cut(s)	339, 449
NlaIV	GGNNCC	1 cut(s)	125
PkrI	GCNGC	6 cut(s)	7, 22, 38, 62, 146, 376
PleI	GAGTC	1 cut(s)	79
PpsI	GAGTC	1 cut(s)	79
Psp6I	CCWGG	1 cut(s)	208
PspGI	CCWGG	1 cut(s)	208
PspN4I	GGNNCC	1 cut(s)	125
PstI	CTGCAG	1 cut(s)	330
PsuI	RGATCY	2 cut(s)	339, 449
PvuII	CAGCTG	1 cut(s)	39
SacII	CCGCGG	1 cut(s)	21
SatI	GCNGC	6 cut(s)	6, 21, 37, 61, 145, 375
Sau3AI	GATC	2 cut(s)	339, 449
SchI	GAGTC	1 cut(s)	80
ScrFI	CCNGG	1 cut(s)	210
SetI	ASST	7 cut(s)	10, 41, 141, 168, 180, 327, 376
SfcI	CTRYAG	1 cut(s)	326
Sfr303I	CCGCGG	1 cut(s)	21
SgrBI	CCGCGG	1 cut(s)	21
Sse9I	AATT	1 cut(s)	237
SsiI	CCGC	6 cut(s)	12, 18, 20, 58, 63, 144
SspI	AATATT	1 cut(s)	87
StyD4I	CCNGG	1 cut(s)	208
TaiI	ACGT	1 cut(s)	168
TasI	AATT	1 cut(s)	237
TauI	GCSGC	2 cut(s)	23, 147
TseI	GCWGC	4 cut(s)	5, 36, 60, 374
XapI	RAATTY	1 cut(s)	237

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