Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4D

Orthogroup ID

OG0003431

Physical Location & Seq

Genomic Coordinates Forward (+)

54539343 .. 54543361

Gene Structure 4019 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4DG321900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 663 bp

ATGCAGCACGACGAGGTGATATGGCAGGTCATCAGGCACAAGCACTGCAGCTTCATGTCCAAAATCGAAACCGGGATTTTCTGTAGAAACCCTTATAACGTCACCGGGATTTGTAATCGGAGCTCTTGCCCTCTGGCCAATAGTCGCTACGCCACCATTCGCGACCACGATGGAGTCTTCTATCTTTATATGAAAACTATAGAAAGAGCACATATGCCAAACAAATTGTGGGAAAGAGTTAAGTTGCCCAGGAATTATGAGAAAGCACTTGAAATCATCGACAAACATCTGATGTATTGGCCTAAGTTTCTTGTACATAAAACAAAGCAACGGCTCACTAAAATGACTCAGATGCGGATACGCATGAGGAAGCTTGCTTTGAAAACAAGGGAGAAAATAATGACAACACCAAGGAAGGAAATAAAGAGAGAAGCTAGAAGAGAGGAGAAGGCTGAAAAAGCTGCAGTCTTGGATAAGAGCATTGAGAAAGAACTATTAGAACGCCTTAAGAATGGAGTTTATGGTGATCTACATAAAGATATATATAATTACCCTTTTGATAAATACCAAAAAGTCCTTGAAGGGGAAGAACAGAATACTGAAAGAGAAGAAGAAGAAGACTACGAGGTATTCATGTGCAATCTTATTATTGCCTTCTTTTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Mak16 Ribosomal_L28e

Protein Analysis

220

Amino Acids

26.65

Weight (kDa)

9.29

Isoelectric Point (pI)

46.85

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Ribosomal_L28e	PF01778	6 - 118	1.1e-39	Ribosomal L28e protein family
Mak16	PF04874	138 - 207	1.3e-18	Mak16 protein C-terminal region

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)

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Publication-ready

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Orthologous Genes (Group: OG0003431)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G23280
fragaria_vesca	FvH4_4g25580
malus_domestica	MD03G1198200.v1.1 MD11G1214400.v1.1
prunus_persica	Prupe.1G244800_v2.0.a1 Prupe.1G244800_v2.0.a1 Prupe.8G011700_v2.0.a1 Prupe.8G011700_v2.0.a1 Prupe.8G011700_v2.0.a1 Prupe.8G016700_v2.0.a1 Prupe.8G016700_v2.0.a1 Prupe.8G016700_v2.0.a1 Prupe.8G016700_v2.0.a1
pyrus_communis	pycom03g14980 pycom11g18880
rosa_chinensis	RchiOBHm_Chr4g0433011 RchiOBHm_Chr7g0190541
rosa_laevigata	RLG00000004517 RLG00000006793
rosa_multiflora	Rmu_sc0001762.1_g000037 Rmu_sc0001784.1_g000019
rosa_roxburghii	Rroxscaffold_3G00264520 Rroxscaffold_5G00374450
rosa_rugosa	Rorug04G0265000 Rorug04G0265000 Rorug06G0505000
rosa_samantha	Rh4AG318600 Rh4BG326700 Rh4CG342100 Rh4DG321900 Rh7AG111500 Rh7BG114500 Rh7CG116300 Rh7DG115400
rosa_wichuraiana	Rw4G027710 Rw7G009730

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	96
Acc36I	ACCTGC	1 cut(s)	16
AccII	CGCG	1 cut(s)	162
AciI	CCGC	1 cut(s)	355
AcoI	YGGCCR	1 cut(s)	135
AfaI	GTAC	1 cut(s)	315
AfiI	CCNNNNNNNGG	1 cut(s)	583
AflII	CTTAAG	1 cut(s)	506
AgsI	TTSAA	3 cut(s)	272, 382, 581
AjnI	CCWGG	1 cut(s)	248
AluBI	AGCT	5 cut(s)	51, 123, 373, 434, 461
AluI	AGCT	5 cut(s)	51, 123, 373, 434, 461
Alw21I	GWGCWC	2 cut(s)	125, 211
AoxI	GGCC	2 cut(s)	135, 299
ApeKI	GCWGC	3 cut(s)	4, 48, 461
AsuC2I	CCSGG	2 cut(s)	73, 106
AsuHPI	GGTGA	3 cut(s)	28, 94, 536
BalI	TGGCCA	1 cut(s)	137
BanII	GRGCYC	1 cut(s)	125
BbsI	GAAGAC	2 cut(s)	169, 624
Bbv12I	GWGCWC	2 cut(s)	125, 211
BbvI	GCAGC	3 cut(s)	16, 60, 448
BccI	CCATC	1 cut(s)	164
BceAI	ACGGC	1 cut(s)	347
BciT130I	CCWGG	1 cut(s)	250
BciVI	GTATCC	1 cut(s)	351
BcnI	CCSGG	2 cut(s)	73, 106
BfaI	CTAG	1 cut(s)	435
BfmI	CTRYAG	4 cut(s)	46, 82, 198, 462
BfrI	CTTAAG	1 cut(s)	506
BfuAI	ACCTGC	1 cut(s)	16
BfuI	GTATCC	1 cut(s)	351
BisI	GCNGC	3 cut(s)	5, 49, 462
BlsI	GCNGC	3 cut(s)	6, 50, 463
Bme1390I	CCNGG	3 cut(s)	73, 106, 250
BmrFI	CCNGG	3 cut(s)	73, 106, 250
BmsI	GCATC	1 cut(s)	342
BpiI	GAAGAC	2 cut(s)	169, 624
BpuMI	CCSGG	2 cut(s)	73, 106
BsaJI	CCNNGG	2 cut(s)	248, 410
Bsc4I	CCNNNNNNNGG	1 cut(s)	583
BseBI	CCWGG	1 cut(s)	250
BseDI	CCNNGG	2 cut(s)	248, 410
BseLI	CCNNNNNNNGG	1 cut(s)	583
BseMII	CTCAG	1 cut(s)	362
BseRI	GAGGAG	1 cut(s)	458
BseXI	GCAGC	3 cut(s)	16, 60, 448
Bsh1236I	CGCG	1 cut(s)	162
BshFI	GGCC	2 cut(s)	137, 301
BsiHKAI	GWGCWC	2 cut(s)	125, 211
BsiSI	CCGG	2 cut(s)	72, 105
BslI	CCNNNNNNNGG	1 cut(s)	583
BsnI	GGCC	2 cut(s)	137, 301
Bsp1286I	GDGCHC	2 cut(s)	125, 211
Bsp1407I	TGTACA	1 cut(s)	313
Bsp143I	GATC	1 cut(s)	526
Bsp68I	TCGCGA	1 cut(s)	162
BspACI	CCGC	1 cut(s)	355
BspANI	GGCC	2 cut(s)	137, 301
BspCNI	CTCAG	1 cut(s)	361
BspFNI	CGCG	1 cut(s)	162
BspMAI	CTGCAG	2 cut(s)	50, 466
BspMI	ACCTGC	1 cut(s)	16
BspTI	CTTAAG	1 cut(s)	506
BsrGI	TGTACA	1 cut(s)	313
BssECI	CCNNGG	2 cut(s)	248, 410
BssMI	GATC	1 cut(s)	526
BssT1I	CCWWGG	1 cut(s)	410
Bst2UI	CCWGG	1 cut(s)	250
Bst6I	CTCTTC	1 cut(s)	433
BstAFI	CTTAAG	1 cut(s)	506
BstAUI	TGTACA	1 cut(s)	313
BstC8I	GCNNGC	1 cut(s)	375
BstDEI	CTNAG	2 cut(s)	303, 348
BstFNI	CGCG	1 cut(s)	162
BstKTI	GATC	1 cut(s)	529
BstMBI	GATC	1 cut(s)	526
BstMWI	GCNNNNNNNGC	1 cut(s)	458
BstNI	CCWGG	1 cut(s)	250
BstSCI	CCNGG	3 cut(s)	71, 104, 248
BstSFI	CTRYAG	4 cut(s)	46, 82, 198, 462
BstUI	CGCG	1 cut(s)	162
BstV1I	GCAGC	3 cut(s)	16, 60, 448
BstV2I	GAAGAC	2 cut(s)	169, 624
BsuI	GTATCC	1 cut(s)	351
BsuRI	GGCC	2 cut(s)	137, 301
BtsI	GCAGTG	1 cut(s)	43
BtsIMutI	CAGTG	1 cut(s)	43
BtuMI	TCGCGA	1 cut(s)	162
BveI	ACCTGC	1 cut(s)	16
Cac8I	GCNNGC	1 cut(s)	375
Csp6I	GTAC	1 cut(s)	314
CviAII	CATG	3 cut(s)	55, 364, 634
CviJI	RGCY	9 cut(s)	51, 123, 137, 301, 334, 373, 434, 452, 461
CviKI_1	RGCY	9 cut(s)	51, 123, 137, 301, 334, 373, 434, 452, 461
CviQI	GTAC	1 cut(s)	314
DdeI	CTNAG	2 cut(s)	303, 348
DpnI	GATC	1 cut(s)	528
DpnII	GATC	1 cut(s)	526
EaeI	YGGCCR	1 cut(s)	135
Eam1104I	CTCTTC	1 cut(s)	433
EarI	CTCTTC	1 cut(s)	433
Ecl136II	GAGCTC	1 cut(s)	123
Eco130I	CCWWGG	1 cut(s)	410
Eco24I	GRGCYC	1 cut(s)	125
Eco53kI	GAGCTC	1 cut(s)	123
EcoICRI	GAGCTC	1 cut(s)	123
EcoRII	CCWGG	1 cut(s)	248
EcoT14I	CCWWGG	1 cut(s)	410
EcoT38I	GRGCYC	1 cut(s)	125
ErhI	CCWWGG	1 cut(s)	410
FaeI	CATG	3 cut(s)	58, 367, 637
FatI	CATG	3 cut(s)	54, 363, 633
FauNDI	CATATG	1 cut(s)	213
Fnu4HI	GCNGC	3 cut(s)	5, 49, 462
FriOI	GRGCYC	1 cut(s)	125
Fsp4HI	GCNGC	3 cut(s)	5, 49, 462
FspBI	CTAG	1 cut(s)	435
GluI	GCNGC	3 cut(s)	5, 49, 462
HaeIII	GGCC	2 cut(s)	137, 301
HapII	CCGG	2 cut(s)	72, 105
Hin1II	CATG	3 cut(s)	58, 367, 637
HindIII	AAGCTT	1 cut(s)	371
HinfI	GANTC	2 cut(s)	174, 346
HpaII	CCGG	2 cut(s)	72, 105
HphI	GGTGA	3 cut(s)	28, 94, 536
Hpy188I	TCNGA	3 cut(s)	120, 291, 351
Hpy188III	TCNNGA	1 cut(s)	161
Hpy99I	CGWCG	1 cut(s)	14
HpyAV	CCTTC	3 cut(s)	409, 442, 575
HpyCH4IV	ACGT	1 cut(s)	99
HpyCH4V	TGCA	4 cut(s)	4, 48, 464, 639
HpyF10VI	GCNNNNNNNGC	1 cut(s)	458
HpyF3I	CTNAG	2 cut(s)	303, 348
HpySE526I	ACGT	1 cut(s)	99
Hsp92II	CATG	3 cut(s)	58, 367, 637
Kzo9I	GATC	1 cut(s)	526
LmnI	GCTCC	1 cut(s)	120
LpnPI	CCDG	7 cut(s)	11, 19, 85, 118, 119, 235, 262
Lsp1109I	GCAGC	3 cut(s)	16, 60, 448
LweI	GCATC	1 cut(s)	342
MaeI	CTAG	1 cut(s)	435
MaeII	ACGT	1 cut(s)	99
MaeIII	GTNAC	1 cut(s)	100
MalI	GATC	1 cut(s)	528
MboI	GATC	1 cut(s)	526
MboII	GAAGA	7 cut(s)	169, 450, 599, 620, 623, 626, 629
MhlI	GDGCHC	2 cut(s)	125, 211
MlsI	TGGCCA	1 cut(s)	137
MluCI	AATT	3 cut(s)	224, 253, 547
MluNI	TGGCCA	1 cut(s)	137
MlyI	GAGTC	2 cut(s)	183, 340
MnlI	CCTC	5 cut(s)	7, 141, 360, 436, 619
Mox20I	TGGCCA	1 cut(s)	137
MscI	TGGCCA	1 cut(s)	137
MseI	TTAA	2 cut(s)	240, 507
MslI	CAYNNNNRTG	1 cut(s)	341
Msp20I	TGGCCA	1 cut(s)	137
MspCI	CTTAAG	1 cut(s)	506
MspI	CCGG	2 cut(s)	72, 105
MspR9I	CCNGG	3 cut(s)	73, 106, 250
MvaI	CCWGG	1 cut(s)	250
MvnI	CGCG	1 cut(s)	162
MwoI	GCNNNNNNNGC	1 cut(s)	458
NciI	CCSGG	2 cut(s)	73, 106
NdeI	CATATG	1 cut(s)	213
NdeII	GATC	1 cut(s)	526
NlaIII	CATG	3 cut(s)	58, 367, 637
NmuCI	GTSAC	1 cut(s)	100
NruI	TCGCGA	1 cut(s)	162
PkrI	GCNGC	3 cut(s)	6, 50, 463
PleI	GAGTC	2 cut(s)	182, 340
PpsI	GAGTC	2 cut(s)	182, 340
PsiI	TTATAA	1 cut(s)	96
Psp124BI	GAGCTC	1 cut(s)	125
Psp6I	CCWGG	1 cut(s)	248
PspGI	CCWGG	1 cut(s)	248
PstI	CTGCAG	2 cut(s)	50, 466
RruI	TCGCGA	1 cut(s)	162
RsaI	GTAC	1 cut(s)	315
RsaNI	GTAC	1 cut(s)	314
RseI	CAYNNNNRTG	1 cut(s)	341
SacI	GAGCTC	1 cut(s)	125
SaqAI	TTAA	2 cut(s)	240, 507
SatI	GCNGC	3 cut(s)	5, 49, 462
Sau3AI	GATC	1 cut(s)	526
SchI	GAGTC	2 cut(s)	183, 340
ScrFI	CCNGG	3 cut(s)	73, 106, 250
SduI	GDGCHC	2 cut(s)	125, 211
SetI	ASST	9 cut(s)	18, 30, 53, 102, 125, 375, 436, 463, 630
SfaNI	GCATC	1 cut(s)	342
SfcI	CTRYAG	4 cut(s)	46, 82, 198, 462
SmiMI	CAYNNNNRTG	1 cut(s)	341
SmlI	CTYRAG	1 cut(s)	506
SmoI	CTYRAG	1 cut(s)	506
Sse9I	AATT	3 cut(s)	224, 253, 547
SsiI	CCGC	1 cut(s)	355
SspMI	CTAG	1 cut(s)	435
SstI	GAGCTC	1 cut(s)	125
StyD4I	CCNGG	3 cut(s)	71, 104, 248
StyI	CCWWGG	1 cut(s)	410
TaiI	ACGT	1 cut(s)	102
TaqI	TCGA	2 cut(s)	66, 279
TasI	AATT	3 cut(s)	224, 253, 547
TatI	WGTACW	1 cut(s)	313
Tru1I	TTAA	2 cut(s)	240, 507
Tru9I	TTAA	2 cut(s)	240, 507
TscAI	CASTG	1 cut(s)	50
TseFI	GTSAC	1 cut(s)	100
TseI	GCWGC	3 cut(s)	4, 48, 461
Tsp45I	GTSAC	1 cut(s)	100
TspDTI	ATGAA	3 cut(s)	43, 206, 622
TspRI	CASTG	1 cut(s)	50
Vha464I	CTTAAG	1 cut(s)	506
XcmI	CCANNNNNNNNNTGG	1 cut(s)	225
XspI	CTAG	1 cut(s)	435

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