Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5D

Orthogroup ID

OG0004293

Physical Location & Seq

Genomic Coordinates Reverse (-)

9287218 .. 9290235

Gene Structure 3018 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5DG101900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 537 bp

ATGGTCGCTCTCAAGTTTCACCAGTACCAGGTGGTGGGTAGGGCTCTCCCCAAGGATGCCGAGGACACCCCCAAGATCTACCGCATGAAGCTTTGGCACACCAATGAGGTTCGCGCCAAGTCCAAGTTCTGGTATTTCCTGAAGAAGCTGAAGAAGGTCAAGAAGAGCAATGGCCAAATGCTTGCCATCAATGAGATTTTTGAGAAGAAACCTACTGTTGTTGAGAACTATGGTATTTGGTTGAGGTATCAAAGCAGGACAGGGTATCACAACATGTACAAGGAGTACCGTGACACCACTCTGAATGGGGCTGTGGATCAGATGTACACTGAGATGGCTTCTCGCCACAGGGTCAGGTTTCCTTGCATCCAAATCATCAAGACTGCCACCATCCCGGCTAAGCTTTGCAAGAGGGAAAGTACCAAGCAATTCCACAATTCCAAGATCAAGTTTCCATTGATTTCCAGGAAGGTCAGGCCACCAACCAGGAAGTTGAAGACCACGTACAAGGCATCAAGGCCCAACTTGTTTGTCTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003676 GO:0003723 GO:0003735 GO:0005198 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005829 GO:0005840 GO:0005911 GO:0006412 GO:0006518 GO:0006807 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009506 GO:0009987 GO:0010467 GO:0015934 GO:0019538 GO:0022625 GO:0022626 GO:0030054 GO:0032991 GO:0034641 GO:0034645 GO:0043043 GO:0043170 GO:0043226 GO:0043228 GO:0043229 GO:0043232 GO:0043603 GO:0043604 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044267 GO:0044271 GO:0044391 GO:0044422 GO:0044424 GO:0044444 GO:0044445 GO:0044446 GO:0044464 GO:0055044 GO:0071704 GO:0097159 GO:1901363 GO:1901564 GO:1901566 GO:1901576 GO:1990904

KEGG Pathways

Metabolic & Signaling

ko03010 map03010

Pfam Domains

Protein Families

Ribosomal_L18A

Protein Analysis

178

Amino Acids

21.22

Weight (kDa)

10.33

Isoelectric Point (pI)

23.76

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Ribosomal_L18A	PF01775	7 - 128	1e-23	Ribosomal proteins 50S-L18Ae/60S-L20/60S-L18A

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Align Labels (Cladogram)

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Publication-ready

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Orthologous Genes (Group: OG0004293)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G32670
fragaria_vesca	FvH4_3g05760
malus_domestica	MD09G1149400.v1.1 MD17G1135800.v1.1
pyrus_communis	pycom09g06870 pycom17g12950
rosa_chinensis	RchiOBHm_Chr1g0331531 RchiOBHm_Chr1g0354441 RchiOBHm_Chr4g0408671 RchiOBHm_Chr5g0013781 RchiOBHm_Chr5g0040271 RchiOBHm_Chr5g0077631 RchiOBHm_Chr6g0245431
rosa_laevigata	RLG00000027688 RLG00000032046
rosa_multiflora	Rmu_co8334583.1_g000001 Rmu_sc0002736.1_g000001 Rmu_sc0004645.1_g000004 Rmu_ssc0000256.1_g000004
rosa_roxburghii	Rroxscaffold_1G00062860 Rroxscaffold_4G00303150 Rroxscaffold_7G00189450
rosa_rugosa	Rorug02G0509500 Rorug04G0140600 Rorug04G0140600 Rorug05G0012800
rosa_samantha	Rh4CG158800 Rh4CG275900 Rh5CG115100 Rh5DG101900 Rh6CG232200
rosa_wichuraiana	Rw7G030000

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB7I	CCANNNNNTGG	2 cut(s)	34, 129
AccII	CGCG	1 cut(s)	114
AciI	CCGC	1 cut(s)	82
AclWI	GGATC	1 cut(s)	324
AcoI	YGGCCR	1 cut(s)	172
AcuI	CTGAAG	2 cut(s)	161, 170
AfaI	GTAC	6 cut(s)	26, 278, 287, 326, 421, 506
AfiI	CCNNNNNNNGG	3 cut(s)	28, 34, 129
AflIII	ACRYGT	1 cut(s)	273
AgsI	TTSAA	1 cut(s)	496
AjnI	CCWGG	3 cut(s)	27, 464, 485
AjuI	GAANNNNNNNTTGG	2 cut(s)	110, 142
AluBI	AGCT	3 cut(s)	91, 148, 403
AluI	AGCT	3 cut(s)	91, 148, 403
AlwI	GGATC	1 cut(s)	324
AoxI	GGCC	3 cut(s)	172, 476, 518
AspLEI	GCGC	1 cut(s)	116
AspS9I	GGNCC	1 cut(s)	519
AsuC2I	CCSGG	1 cut(s)	395
AsuHPI	GGTGA	1 cut(s)	11
BalI	TGGCCA	1 cut(s)	174
BanII	GRGCYC	1 cut(s)	46
BarI	GAAGNNNNNNTAC	2 cut(s)	488, 520
BbsI	GAAGAC	1 cut(s)	503
BccI	CCATC	3 cut(s)	194, 328, 398
BciT130I	CCWGG	3 cut(s)	29, 466, 487
BcnI	CCSGG	1 cut(s)	395
BglII	AGATCT	1 cut(s)	75
BlpI	GCTNAGC	1 cut(s)	399
Bme1390I	CCNGG	4 cut(s)	29, 395, 466, 487
BmgT120I	GGNCC	1 cut(s)	519
BmrFI	CCNGG	4 cut(s)	29, 395, 466, 487
BmsI	GCATC	3 cut(s)	46, 375, 521
BpiI	GAAGAC	1 cut(s)	503
Bpu1102I	GCTNAGC	1 cut(s)	399
BpuMI	CCSGG	1 cut(s)	395
BsaAI	YACGTR	1 cut(s)	504
BsaJI	CCNNGG	2 cut(s)	51, 60
Bsc4I	CCNNNNNNNGG	3 cut(s)	28, 34, 129
Bse1I	ACTGG	1 cut(s)	22
Bse3DI	GCAATG	1 cut(s)	175
BseBI	CCWGG	3 cut(s)	29, 466, 487
BseDI	CCNNGG	2 cut(s)	51, 60
BseGI	GGATG	3 cut(s)	61, 366, 390
BseLI	CCNNNNNNNGG	3 cut(s)	28, 34, 129
BseMI	GCAATG	1 cut(s)	175
BseMII	CTCAG	1 cut(s)	321
BseNI	ACTGG	1 cut(s)	22
Bsh1236I	CGCG	1 cut(s)	114
BshFI	GGCC	3 cut(s)	174, 478, 520
BsiSI	CCGG	1 cut(s)	395
BslI	CCNNNNNNNGG	3 cut(s)	28, 34, 129
BsnI	GGCC	3 cut(s)	174, 478, 520
Bsp1286I	GDGCHC	1 cut(s)	46
Bsp1407I	TGTACA	2 cut(s)	276, 324
Bsp143I	GATC	3 cut(s)	75, 316, 444
Bsp1720I	GCTNAGC	1 cut(s)	399
BspACI	CCGC	1 cut(s)	82
BspANI	GGCC	3 cut(s)	174, 478, 520
BspCNI	CTCAG	1 cut(s)	322
BspFNI	CGCG	1 cut(s)	114
BspPI	GGATC	1 cut(s)	324
BspQI	GCTCTTC	1 cut(s)	158
BsrDI	GCAATG	1 cut(s)	175
BsrGI	TGTACA	2 cut(s)	276, 324
BsrI	ACTGG	1 cut(s)	22
BssECI	CCNNGG	2 cut(s)	51, 60
BssMI	GATC	3 cut(s)	75, 316, 444
BssT1I	CCWWGG	1 cut(s)	51
Bst2UI	CCWGG	3 cut(s)	29, 466, 487
Bst4CI	ACNGT	2 cut(s)	217, 290
Bst6I	CTCTTC	1 cut(s)	158
BstAUI	TGTACA	2 cut(s)	276, 324
BstBAI	YACGTR	1 cut(s)	504
BstC8I	GCNNGC	1 cut(s)	183
BstDEI	CTNAG	2 cut(s)	330, 399
BstF5I	GGATG	3 cut(s)	61, 366, 390
BstFNI	CGCG	1 cut(s)	114
BstHHI	GCGC	1 cut(s)	116
BstKTI	GATC	3 cut(s)	78, 319, 447
BstMBI	GATC	3 cut(s)	75, 316, 444
BstNI	CCWGG	3 cut(s)	29, 466, 487
BstNSI	RCATGY	1 cut(s)	277
BstSCI	CCNGG	4 cut(s)	27, 393, 464, 485
BstUI	CGCG	1 cut(s)	114
BstV2I	GAAGAC	1 cut(s)	503
BstX2I	RGATCY	1 cut(s)	75
BstYI	RGATCY	1 cut(s)	75
BsuRI	GGCC	3 cut(s)	174, 478, 520
BtsCI	GGATG	3 cut(s)	61, 366, 390
BtsIMutI	CAGTG	1 cut(s)	327
Cac8I	GCNNGC	1 cut(s)	183
CfoI	GCGC	1 cut(s)	116
Cfr13I	GGNCC	1 cut(s)	519
CsiI	ACCWGGT	1 cut(s)	27
Csp6I	GTAC	6 cut(s)	25, 277, 286, 325, 420, 505
CviAII	CATG	2 cut(s)	85, 274
CviQI	GTAC	6 cut(s)	25, 277, 286, 325, 420, 505
DdeI	CTNAG	2 cut(s)	330, 399
DpnI	GATC	3 cut(s)	77, 318, 446
DpnII	GATC	3 cut(s)	75, 316, 444
EaeI	YGGCCR	1 cut(s)	172
Eam1104I	CTCTTC	1 cut(s)	158
EarI	CTCTTC	1 cut(s)	158
Eco130I	CCWWGG	1 cut(s)	51
Eco24I	GRGCYC	1 cut(s)	46
Eco57I	CTGAAG	2 cut(s)	161, 170
EcoRII	CCWGG	3 cut(s)	27, 464, 485
EcoT14I	CCWWGG	1 cut(s)	51
EcoT38I	GRGCYC	1 cut(s)	46
ErhI	CCWWGG	1 cut(s)	51
FaeI	CATG	2 cut(s)	88, 277
FaiI	YATR	3 cut(s)	86, 231, 275
FatI	CATG	2 cut(s)	84, 273
FokI	GGATG	3 cut(s)	68, 353, 377
FriOI	GRGCYC	1 cut(s)	46
GlaI	GCGC	1 cut(s)	115
HaeIII	GGCC	3 cut(s)	174, 478, 520
HapII	CCGG	1 cut(s)	395
HhaI	GCGC	1 cut(s)	116
Hin1II	CATG	2 cut(s)	88, 277
Hin6I	GCGC	1 cut(s)	114
HinP1I	GCGC	1 cut(s)	114
HindIII	AAGCTT	2 cut(s)	89, 401
HpaII	CCGG	1 cut(s)	395
HphI	GGTGA	1 cut(s)	11
Hpy166II	GTNNAC	1 cut(s)	327
Hpy188I	TCNGA	2 cut(s)	303, 321
Hpy188III	TCNNGA	3 cut(s)	139, 160, 379
Hpy8I	GTNNAC	1 cut(s)	327
HpyAV	CCTTC	2 cut(s)	148, 463
HpyCH4III	ACNGT	2 cut(s)	217, 290
HpyCH4IV	ACGT	1 cut(s)	503
HpyCH4V	TGCA	2 cut(s)	366, 408
HpyF3I	CTNAG	2 cut(s)	330, 399
HpySE526I	ACGT	1 cut(s)	503
Hsp92II	CATG	2 cut(s)	88, 277
HspAI	GCGC	1 cut(s)	114
Kzo9I	GATC	3 cut(s)	75, 316, 444
LguI	GCTCTTC	1 cut(s)	158
LweI	GCATC	3 cut(s)	46, 375, 521
MabI	ACCWGGT	1 cut(s)	27
MaeII	ACGT	1 cut(s)	503
MaeIII	GTNAC	1 cut(s)	290
MalI	GATC	3 cut(s)	77, 318, 446
MboI	GATC	3 cut(s)	75, 316, 444
MboII	GAAGA	5 cut(s)	154, 163, 175, 217, 508
MflI	RGATCY	1 cut(s)	75
MhlI	GDGCHC	1 cut(s)	46
MlsI	TGGCCA	1 cut(s)	174
MluCI	AATT	2 cut(s)	428, 436
MluNI	TGGCCA	1 cut(s)	174
MnlI	CCTC	4 cut(s)	55, 100, 237, 405
Mox20I	TGGCCA	1 cut(s)	174
MscI	TGGCCA	1 cut(s)	174
MslI	CAYNNNNRTG	2 cut(s)	102, 332
Msp20I	TGGCCA	1 cut(s)	174
MspI	CCGG	1 cut(s)	395
MspR9I	CCNGG	4 cut(s)	29, 395, 466, 487
MvaI	CCWGG	3 cut(s)	29, 466, 487
MvnI	CGCG	1 cut(s)	114
NciI	CCSGG	1 cut(s)	395
NdeII	GATC	3 cut(s)	75, 316, 444
NlaIII	CATG	2 cut(s)	88, 277
NmeAIII	GCCGAG	1 cut(s)	85
NmuCI	GTSAC	1 cut(s)	290
NspI	RCATGY	1 cut(s)	277
PciI	ACATGT	1 cut(s)	273
PciSI	GCTCTTC	1 cut(s)	158
PflMI	CCANNNNNTGG	2 cut(s)	34, 129
PfoI	TCCNGGA	1 cut(s)	464
Ppu21I	YACGTR	1 cut(s)	504
PscI	ACATGT	1 cut(s)	273
Psp6I	CCWGG	3 cut(s)	27, 464, 485
PspGI	CCWGG	3 cut(s)	27, 464, 485
PspPI	GGNCC	1 cut(s)	519
PsuI	RGATCY	1 cut(s)	75
RsaI	GTAC	6 cut(s)	26, 278, 287, 326, 421, 506
RsaNI	GTAC	6 cut(s)	25, 277, 286, 325, 420, 505
RseI	CAYNNNNRTG	2 cut(s)	102, 332
SapI	GCTCTTC	1 cut(s)	158
Sau3AI	GATC	3 cut(s)	75, 316, 444
Sau96I	GGNCC	1 cut(s)	519
ScrFI	CCNGG	4 cut(s)	29, 395, 466, 487
SduI	GDGCHC	1 cut(s)	46
SexAI	ACCWGGT	1 cut(s)	27
SfaNI	GCATC	3 cut(s)	46, 375, 521
SmiMI	CAYNNNNRTG	2 cut(s)	102, 332
SmlI	CTYRAG	1 cut(s)	11
SmoI	CTYRAG	1 cut(s)	11
Sse9I	AATT	2 cut(s)	428, 436
SsiI	CCGC	1 cut(s)	82
StyD4I	CCNGG	4 cut(s)	27, 393, 464, 485
StyI	CCWWGG	1 cut(s)	51
TaaI	ACNGT	2 cut(s)	217, 290
TaiI	ACGT	1 cut(s)	506
TasI	AATT	2 cut(s)	428, 436
TatI	WGTACW	2 cut(s)	276, 324
TscAI	CASTG	1 cut(s)	334
TseFI	GTSAC	1 cut(s)	290
Tsp45I	GTSAC	1 cut(s)	290
TspDTI	ATGAA	1 cut(s)	101
TspRI	CASTG	1 cut(s)	334
Van91I	CCANNNNNTGG	2 cut(s)	34, 129
XceI	RCATGY	1 cut(s)	277

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