Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4D

Orthogroup ID

OG0009333

Physical Location & Seq

Genomic Coordinates Forward (+)

8082006 .. 8085033

Gene Structure 3028 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4DG050400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 513 bp

ATGGCAGCTTCCGCAACCGCGGCTGTCTTCTTCGGCAGCAGTTCCGGTCTATGCCTCCGCCGCGGAGCAGAGTCCTCCAAGAGAATATTGTCTTCCAAGACCCAAGCAGTTTCCGATATTGGGTTCGTCACCAGTCAGCTCAGCGGCCTCAAAATCTCCTACGACGTGTCGTCTCAGCTCCCCAGTCCCATCTTCACTCCTTCCCTCCCTGGCCTTCAGCCCATTGTTGCTCGTAGAATTTGTCCTTTTACTGGGAAGAAAGCAAACAAGGCAAACAAGATTTCCTTCTCTGCCCACAAGACCAAGAAGTTGCAGTTTGTGAACCTGCAGTACAAGAGGATTTGGTGGGAAGGCGGGAAGCGCTTTTTGAAGCTGCGCTTGTCAACAAAAGCAATCAAGACCATAGAGAAGAATGGACTGGAAGCCGTTGCCAAGAAGGCCGGGATAGATCTTCGAATCTTCAATGTGACAAGTGCAGCATGTTGTGCAAAGAATGGATCTGATATCACTTGA

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

170

Amino Acids

18.34

Weight (kDa)

10.39

Isoelectric Point (pI)

54.03

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Ribosomal_L28	PF00830	79 - 138	1.2e-18	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	2 cut(s)	20, 63
AciI	CCGC	8 cut(s)	12, 18, 20, 58, 61, 63, 144, 354
AclWI	GGATC	1 cut(s)	505
AcsI	RAATTY	1 cut(s)	237
AcuI	CTGAAG	1 cut(s)	200
AfaI	GTAC	1 cut(s)	332
AfeI	AGCGCT	1 cut(s)	362
AfiI	CCNNNNNNNGG	2 cut(s)	120, 251
AflIII	ACRYGT	1 cut(s)	165
AgsI	TTSAA	2 cut(s)	370, 463
AhdI	GACNNNNNGTC	1 cut(s)	169
AjiI	CACGTC	1 cut(s)	166
AjnI	CCWGG	1 cut(s)	208
AluBI	AGCT	4 cut(s)	8, 139, 178, 373
AluI	AGCT	4 cut(s)	8, 139, 178, 373
Alw26I	GTCTC	1 cut(s)	177
AlwI	GGATC	1 cut(s)	505
Aor51HI	AGCGCT	1 cut(s)	362
AoxI	GGCC	3 cut(s)	145, 211, 438
ApeKI	GCWGC	4 cut(s)	5, 36, 373, 476
ApoI	RAATTY	1 cut(s)	237
AspLEI	GCGC	2 cut(s)	363, 378
AsuC2I	CCSGG	1 cut(s)	442
AsuHPI	GGTGA	1 cut(s)	121
AsuII	TTCGAA	1 cut(s)	454
BbsI	GAAGAC	2 cut(s)	19, 84
BbvI	GCAGC	4 cut(s)	17, 48, 360, 488
BccI	CCATC	1 cut(s)	197
BceAI	ACGGC	1 cut(s)	410
BciT130I	CCWGG	1 cut(s)	210
BcnI	CCSGG	1 cut(s)	442
BcoDI	GTCTC	1 cut(s)	177
BfmI	CTRYAG	1 cut(s)	326
BfoI	RGCGCY	1 cut(s)	364
BfuAI	ACCTGC	1 cut(s)	333
BglI	GCCNNNNNGGC	1 cut(s)	437
BglII	AGATCT	1 cut(s)	448
BisI	GCNGC	7 cut(s)	6, 21, 37, 61, 145, 374, 477
BlpI	GCTNAGC	1 cut(s)	140
BlsI	GCNGC	7 cut(s)	7, 22, 38, 62, 146, 375, 478
Bme1390I	CCNGG	2 cut(s)	210, 442
BmeRI	GACNNNNNGTC	1 cut(s)	169
BmgBI	CACGTC	1 cut(s)	166
BmrFI	CCNGG	2 cut(s)	210, 442
BmrI	ACTGGG	2 cut(s)	177, 261
BmuI	ACTGGG	2 cut(s)	177, 261
BpiI	GAAGAC	2 cut(s)	19, 84
Bpu1102I	GCTNAGC	1 cut(s)	140
Bpu14I	TTCGAA	1 cut(s)	454
BpuMI	CCSGG	1 cut(s)	442
BsaJI	CCNNGG	3 cut(s)	18, 61, 208
BsaWI	WCCGGW	1 cut(s)	44
Bsc4I	CCNNNNNNNGG	2 cut(s)	120, 251
Bse1I	ACTGG	4 cut(s)	132, 183, 256, 423
BseBI	CCWGG	1 cut(s)	210
BseDI	CCNNGG	3 cut(s)	18, 61, 208
BseLI	CCNNNNNNNGG	2 cut(s)	120, 251
BseMII	CTCAG	2 cut(s)	154, 188
BseNI	ACTGG	4 cut(s)	132, 183, 256, 423
BseXI	GCAGC	4 cut(s)	17, 48, 360, 488
BsgI	GTGCAG	1 cut(s)	495
Bsh1236I	CGCG	2 cut(s)	20, 63
BshFI	GGCC	3 cut(s)	147, 213, 440
BsiSI	CCGG	2 cut(s)	45, 441
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	3 cut(s)	147, 213, 440
Bsp119I	TTCGAA	1 cut(s)	454
Bsp143I	GATC	2 cut(s)	448, 497
Bsp1720I	GCTNAGC	1 cut(s)	140
BspACI	CCGC	8 cut(s)	12, 18, 20, 58, 61, 63, 144, 354
BspANI	GGCC	3 cut(s)	147, 213, 440
BspCNI	CTCAG	2 cut(s)	153, 187
BspFNI	CGCG	2 cut(s)	20, 63
BspMAI	CTGCAG	1 cut(s)	330
BspMI	ACCTGC	1 cut(s)	333
BspPI	GGATC	1 cut(s)	505
BspT104I	TTCGAA	1 cut(s)	454
BsrI	ACTGG	4 cut(s)	132, 183, 256, 423
BssECI	CCNNGG	3 cut(s)	18, 61, 208
BssMI	GATC	2 cut(s)	448, 497
Bst2UI	CCWGG	1 cut(s)	210
BstAPI	GCANNNNNTGC	1 cut(s)	485
BstBI	TTCGAA	1 cut(s)	454
BstDEI	CTNAG	2 cut(s)	140, 174
BstDSI	CCRYGG	2 cut(s)	18, 61
BstFNI	CGCG	2 cut(s)	20, 63
BstH2I	RGCGCY	1 cut(s)	364
BstHHI	GCGC	2 cut(s)	363, 378
BstKTI	GATC	2 cut(s)	451, 500
BstMAI	GTCTC	1 cut(s)	177
BstMBI	GATC	2 cut(s)	448, 497
BstMWI	GCNNNNNNNGC	7 cut(s)	11, 20, 60, 269, 360, 437, 485
BstNI	CCWGG	1 cut(s)	210
BstNSI	RCATGY	1 cut(s)	483
BstSCI	CCNGG	2 cut(s)	208, 440
BstSFI	CTRYAG	1 cut(s)	326
BstUI	CGCG	2 cut(s)	20, 63
BstV1I	GCAGC	4 cut(s)	17, 48, 360, 488
BstV2I	GAAGAC	2 cut(s)	19, 84
BstX2I	RGATCY	2 cut(s)	448, 497
BstYI	RGATCY	2 cut(s)	448, 497
BsuRI	GGCC	3 cut(s)	147, 213, 440
BtgI	CCRYGG	2 cut(s)	18, 61
BtrI	CACGTC	1 cut(s)	166
BveI	ACCTGC	1 cut(s)	333
CfoI	GCGC	2 cut(s)	363, 378
Cfr42I	CCGCGG	2 cut(s)	21, 64
Csp6I	GTAC	1 cut(s)	331
CviAII	CATG	1 cut(s)	480
CviQI	GTAC	1 cut(s)	331
DdeI	CTNAG	2 cut(s)	140, 174
DpnI	GATC	2 cut(s)	450, 499
DpnII	GATC	2 cut(s)	448, 497
DriI	GACNNNNNGTC	1 cut(s)	169
Eam1105I	GACNNNNNGTC	1 cut(s)	169
EciI	GGCGGA	1 cut(s)	47
Eco32I	GATATC	1 cut(s)	505
Eco47III	AGCGCT	1 cut(s)	362
Eco57I	CTGAAG	1 cut(s)	200
EcoRII	CCWGG	1 cut(s)	208
EcoRV	GATATC	1 cut(s)	505
Esp3I	CGTCTC	1 cut(s)	177
FaeI	CATG	1 cut(s)	483
FaiI	YATR	3 cut(s)	52, 404, 481
FalI	AAGNNNNNCTT	4 cut(s)	269, 301, 362, 394
FaqI	GGGAC	1 cut(s)	171
FatI	CATG	1 cut(s)	479
FauI	CCCGC	1 cut(s)	347
Fnu4HI	GCNGC	7 cut(s)	6, 21, 37, 61, 145, 374, 477
Fsp4HI	GCNGC	7 cut(s)	6, 21, 37, 61, 145, 374, 477
GlaI	GCGC	2 cut(s)	362, 377
GluI	GCNGC	7 cut(s)	6, 21, 37, 61, 145, 374, 477
HaeII	RGCGCY	1 cut(s)	364
HaeIII	GGCC	3 cut(s)	147, 213, 440
HapII	CCGG	2 cut(s)	45, 441
HhaI	GCGC	2 cut(s)	363, 378
Hin1II	CATG	1 cut(s)	483
Hin6I	GCGC	2 cut(s)	361, 376
HinP1I	GCGC	2 cut(s)	361, 376
HincII	GTYRAC	1 cut(s)	384
HindII	GTYRAC	1 cut(s)	384
HinfI	GANTC	2 cut(s)	71, 456
HpaII	CCGG	2 cut(s)	45, 441
HphI	GGTGA	1 cut(s)	121
Hpy166II	GTNNAC	2 cut(s)	322, 384
Hpy188I	TCNGA	2 cut(s)	115, 502
Hpy188III	TCNNGA	1 cut(s)	397
Hpy8I	GTNNAC	2 cut(s)	322, 384
Hpy99I	CGWCG	1 cut(s)	167
HpyAV	CCTTC	5 cut(s)	210, 224, 295, 344, 430
HpyCH4IV	ACGT	1 cut(s)	165
HpyCH4V	TGCA	4 cut(s)	313, 328, 476, 488
HpyF10VI	GCNNNNNNNGC	7 cut(s)	11, 20, 60, 269, 360, 437, 485
HpyF3I	CTNAG	2 cut(s)	140, 174
HpySE526I	ACGT	1 cut(s)	165
Hsp92II	CATG	1 cut(s)	483
HspAI	GCGC	2 cut(s)	361, 376
KspI	CCGCGG	2 cut(s)	21, 64
Kzo9I	GATC	2 cut(s)	448, 497
LmnI	GCTCC	2 cut(s)	65, 183
LpnPI	CCDG	9 cut(s)	58, 145, 195, 196, 222, 237, 338, 404, 454
Lsp1109I	GCAGC	4 cut(s)	17, 48, 360, 488
MaeII	ACGT	1 cut(s)	165
MaeIII	GTNAC	2 cut(s)	127, 466
MalI	GATC	2 cut(s)	450, 499
MboI	GATC	2 cut(s)	448, 497
MboII	GAAGA	8 cut(s)	19, 22, 84, 184, 268, 421, 443, 451
MflI	RGATCY	2 cut(s)	448, 497
MluCI	AATT	1 cut(s)	237
MlyI	GAGTC	1 cut(s)	80
MnlI	CCTC	5 cut(s)	65, 85, 158, 215, 330
MspA1I	CMGCKG	3 cut(s)	20, 63, 144
MspI	CCGG	2 cut(s)	45, 441
MspR9I	CCNGG	2 cut(s)	210, 442
MvaI	CCWGG	1 cut(s)	210
MvnI	CGCG	2 cut(s)	20, 63
MwoI	GCNNNNNNNGC	7 cut(s)	11, 20, 60, 269, 360, 437, 485
NciI	CCSGG	1 cut(s)	442
NdeII	GATC	2 cut(s)	448, 497
NlaIII	CATG	1 cut(s)	483
NmuCI	GTSAC	2 cut(s)	127, 466
NspI	RCATGY	1 cut(s)	483
NspV	TTCGAA	1 cut(s)	454
PfeI	GAWTC	1 cut(s)	456
PkrI	GCNGC	7 cut(s)	7, 22, 38, 62, 146, 375, 478
PleI	GAGTC	1 cut(s)	79
PpsI	GAGTC	1 cut(s)	79
Psp6I	CCWGG	1 cut(s)	208
PspGI	CCWGG	1 cut(s)	208
PsrI	GAACNNNNNNTAC	2 cut(s)	314, 346
PstI	CTGCAG	1 cut(s)	330
PsuI	RGATCY	2 cut(s)	448, 497
RsaI	GTAC	1 cut(s)	332
RsaNI	GTAC	1 cut(s)	331
SacII	CCGCGG	2 cut(s)	21, 64
SatI	GCNGC	7 cut(s)	6, 21, 37, 61, 145, 374, 477
Sau3AI	GATC	2 cut(s)	448, 497
SchI	GAGTC	1 cut(s)	80
ScrFI	CCNGG	2 cut(s)	210, 442
SetI	ASST	6 cut(s)	10, 141, 168, 180, 327, 375
SfcI	CTRYAG	1 cut(s)	326
Sfr303I	CCGCGG	2 cut(s)	21, 64
SfuI	TTCGAA	1 cut(s)	454
SgrBI	CCGCGG	2 cut(s)	21, 64
Sse9I	AATT	1 cut(s)	237
SsiI	CCGC	8 cut(s)	12, 18, 20, 58, 61, 63, 144, 354
SspI	AATATT	1 cut(s)	87
StyD4I	CCNGG	2 cut(s)	208, 440
TaiI	ACGT	1 cut(s)	168
TaqI	TCGA	1 cut(s)	454
TasI	AATT	1 cut(s)	237
TatI	WGTACW	1 cut(s)	330
TauI	GCSGC	3 cut(s)	23, 63, 147
TfiI	GAWTC	1 cut(s)	456
TseFI	GTSAC	2 cut(s)	127, 466
TseI	GCWGC	4 cut(s)	5, 36, 373, 476
Tsp45I	GTSAC	2 cut(s)	127, 466
XapI	RAATTY	1 cut(s)	237
XceI	RCATGY	1 cut(s)	483

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