Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4B

Orthogroup ID

OG0004378

Physical Location & Seq

Genomic Coordinates Reverse (-)

9853996 .. 9855826

Gene Structure 1831 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4BG054800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 960 bp

ATGGGAAAGCTCTCCAAGGCCGAGAAGAAGATCAACTACGATGCCAAGCTCTGCCGGCTCCTCGACGAGTACGCCCAGGTTCTCATCGTCGCCGCCGATAACGTCGGCTCCAATCAGCTCCAGAACATCCGCCAGGGCTTACGCGGCCACTCCATCGTTCTCATGGGGAAGAACACCATGATGAAGAGGTCCATCAAGATTCATGCTGAAAAGACCGGAAACAATGCTGTTCTCAACCTCGTCCCCCTCCTCGTGGGTAATGTGGGTTTGATCTTCACCAAGGGTGATTTGAAGGAAGTGAAAGAAGAGGTTGCCAAGTACAAGGTTGGGGCCCCTGCTCGTGTGGGTTTGGTTGCTCCAGTTGATGTTGTTGTTCCTCCTGGCAACACTGGACTCGACCCATCCCAGACCTCTTTCTTCCAGGTGCTTAACATTCCAACTAAGATTAACAAGGGAACTGTGGAAATCATTACCCCTGTTGAACTTATTAAGAAGGGTGACAAGGTTGGGTCTTCTGAGTCTGCTCTTCTTGCCAAGCTCGGGATCAGGCCATTCTCTTATGGTCTTGTTGTCCAGATGGTGTATGAAAATGGTTCTGTTTTCAGCCCAGAGGTGCTTGATCTTACTGAGGATGATCTCGCGTTGACGTTTGCTTCTAATGTCTCCAATGTCTCAGCATTGGCATTGGCTATTTCCTACCCAACAATTGCAGCTGCTCCACATATGTTCCTCAATGCCTACAAGAATGTGTTGGCAGTTGCTGTGGCTACTGAGTATTCCTTCCCTCAAGCAGATAAGGTCAAGGAGTATCTGAAGGATCCTACCAAGTTTGCTGCTTTGGCTGCCCCTGCCCCTGCAGCTGCTGCTGCTGCCCCTGCTGCGGCTGCTAAGGTGGAAGCGAAGAAGGAAGAGCCTTCTGAGGAGTCAGATGAGGACATGGGTCTTGGTTTATTCGATTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003735 GO:0005198 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005829 GO:0005840 GO:0006950 GO:0008150 GO:0009628 GO:0015934 GO:0022625 GO:0022626 GO:0032991 GO:0034059 GO:0036293 GO:0043226 GO:0043228 GO:0043229 GO:0043232 GO:0044391 GO:0044422 GO:0044424 GO:0044444 GO:0044445 GO:0044446 GO:0044464 GO:0044877 GO:0050896 GO:0070482 GO:1990904

KEGG Pathways

Metabolic & Signaling

ko03010 map03010

Pfam Domains

Protein Families

Ribosomal_60s Ribosomal_L10

Protein Analysis

319

Amino Acids

33.91

Weight (kDa)

6.37

Isoelectric Point (pI)

32.11

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Ribosomal_L10	PF00466	6 - 107	5.4e-18	Ribosomal protein L10
RL10P_insert	PF17777	113 - 182	8.2e-21	Insertion domain in 60S ribosomal protein L10P
Ribosomal_60s	PF00428	233 - 318	2e-22	60s Acidic ribosomal protein

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)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0004378)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G40010 AT3G09200 AT3G09200 AT3G11250
fragaria_vesca	FvH4_4g04410 FvH4_5g34410 FvH4_7g24170 FvH4_7g24570
malus_domestica	MD01G1148900.v1.1 MD07G1215800.v1.1
prunus_persica	Prupe.1G173900_v2.0.a1
pyrus_communis	pycom01g16730
rosa_chinensis	RchiOBHm_Chr1g0369751 RchiOBHm_Chr4g0394971
rosa_laevigata	RLG00000009654 RLG00000027110
rosa_multiflora	Rmu_sc0001154.1_g000029 Rmu_sc0005802.1_g000028
rosa_roxburghii	Rroxscaffold_4G00287420 Rroxscaffold_5G00339940
rosa_rugosa	Rorug01G0352000 Rorug03G0360400.1
rosa_samantha	Rh1AG360200 Rh1BG324000 Rh1CG337200 Rh1DG354500 Rh4AG056100 Rh4BG054800 Rh4CG060700 Rh4DG052100
rosa_wichuraiana	Rw1G031730 Rw4G004480

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccII	CGCG	2 cut(s)	144, 641
AciI	CCGC	4 cut(s)	93, 130, 144, 881
AclWI	GGATC	3 cut(s)	551, 812, 825
AcoI	YGGCCR	1 cut(s)	145
AcuI	CTGAAG	1 cut(s)	833
AfaI	GTAC	2 cut(s)	71, 320
AfiI	CCNNNNNNNGG	3 cut(s)	253, 540, 880
AgsI	TTSAA	2 cut(s)	292, 482
AjnI	CCWGG	4 cut(s)	75, 132, 379, 420
AluBI	AGCT	6 cut(s)	10, 49, 118, 538, 713, 860
AluI	AGCT	6 cut(s)	10, 49, 118, 538, 713, 860
Alw26I	GTCTC	2 cut(s)	667, 676
AlwI	GGATC	3 cut(s)	551, 812, 825
AlwNI	CAGNNNCTG	2 cut(s)	761, 863
Ama87I	CYCGRG	1 cut(s)	539
AoxI	GGCC	4 cut(s)	18, 145, 330, 548
ApaI	GGGCCC	1 cut(s)	334
AspS9I	GGNCC	3 cut(s)	189, 330, 331
AsuHPI	GGTGA	3 cut(s)	268, 296, 509
AvaI	CYCGRG	1 cut(s)	539
AvaII	GGWCC	1 cut(s)	189
BaeGI	GKGCMC	1 cut(s)	334
BamHI	GGATCC	1 cut(s)	817
BanII	GRGCYC	1 cut(s)	334
BarI	GAAGNNNNNNTAC	2 cut(s)	20, 52
BauI	CACGAG	2 cut(s)	251, 339
BbsI	GAAGAC	1 cut(s)	504
BccI	CCATC	4 cut(s)	161, 200, 409, 571
BciT130I	CCWGG	4 cut(s)	77, 134, 381, 422
BcoDI	GTCTC	2 cut(s)	667, 676
BfmI	CTRYAG	1 cut(s)	855
Bme1390I	CCNGG	4 cut(s)	77, 134, 381, 422
Bme18I	GGWCC	1 cut(s)	189
BmeT110I	CYCGRG	1 cut(s)	539
BmgT120I	GGNCC	3 cut(s)	189, 330, 331
BmiI	GGNNCC	6 cut(s)	59, 109, 331, 332, 333, 819
BmrFI	CCNGG	4 cut(s)	77, 134, 381, 422
BmsI	GCATC	1 cut(s)	31
BoxI	GACNNNNGTC	1 cut(s)	939
BpiI	GAAGAC	1 cut(s)	504
BpmI	CTGGAG	2 cut(s)	104, 342
Bpu10I	CCTNAGC	1 cut(s)	888
BpuEI	CTTGAG	1 cut(s)	771
BsaJI	CCNNGG	4 cut(s)	15, 75, 133, 279
BsaWI	WCCGGW	1 cut(s)	215
BsaXI	ACNNNNNCTCC	2 cut(s)	92, 122
Bsc4I	CCNNNNNNNGG	3 cut(s)	253, 540, 880
Bse118I	RCCGGY	1 cut(s)	54
Bse1I	ACTGG	2 cut(s)	359, 394
BseBI	CCWGG	4 cut(s)	77, 134, 381, 422
BseDI	CCNNGG	4 cut(s)	15, 75, 133, 279
BseGI	GGATG	3 cut(s)	126, 401, 637
BseLI	CCNNNNNNNGG	3 cut(s)	253, 540, 880
BseMII	CTCAG	5 cut(s)	507, 618, 687, 762, 909
BseNI	ACTGG	2 cut(s)	359, 394
BseRI	GAGGAG	3 cut(s)	50, 239, 935
BseSI	GKGCMC	1 cut(s)	334
Bsh1236I	CGCG	2 cut(s)	144, 641
BshFI	GGCC	4 cut(s)	20, 147, 332, 550
BsiHKCI	CYCGRG	1 cut(s)	539
BsiSI	CCGG	2 cut(s)	55, 216
BslFI	GGGAC	1 cut(s)	227
BslI	CCNNNNNNNGG	3 cut(s)	253, 540, 880
BsmAI	GTCTC	2 cut(s)	667, 676
BsmFI	GGGAC	1 cut(s)	227
BsnI	GGCC	4 cut(s)	20, 147, 332, 550
BsoBI	CYCGRG	1 cut(s)	539
Bsp120I	GGGCCC	1 cut(s)	330
Bsp1286I	GDGCHC	1 cut(s)	334
Bsp143I	GATC	6 cut(s)	30, 270, 543, 619, 634, 817
BspACI	CCGC	4 cut(s)	93, 130, 144, 881
BspANI	GGCC	4 cut(s)	20, 147, 332, 550
BspCNI	CTCAG	5 cut(s)	508, 619, 686, 763, 910
BspFNI	CGCG	2 cut(s)	144, 641
BspLI	GGNNCC	6 cut(s)	59, 109, 331, 332, 333, 819
BspMAI	CTGCAG	1 cut(s)	859
BspPI	GGATC	3 cut(s)	551, 812, 825
BspQI	GCTCTTC	2 cut(s)	531, 903
BsrFI	RCCGGY	1 cut(s)	54
BsrI	ACTGG	2 cut(s)	359, 394
BssAI	RCCGGY	1 cut(s)	54
BssECI	CCNNGG	4 cut(s)	15, 75, 133, 279
BssMI	GATC	6 cut(s)	30, 270, 543, 619, 634, 817
BssSI	CACGAG	2 cut(s)	251, 339
BssT1I	CCWWGG	2 cut(s)	15, 279
Bst2BI	CACGAG	2 cut(s)	251, 339
Bst2UI	CCWGG	4 cut(s)	77, 134, 381, 422
Bst4CI	ACNGT	1 cut(s)	460
Bst6I	CTCTTC	4 cut(s)	179, 300, 531, 903
BstAPI	GCANNNNNTGC	1 cut(s)	863
BstC8I	GCNNGC	1 cut(s)	56
BstDEI	CTNAG	7 cut(s)	441, 516, 627, 673, 771, 888, 918
BstF5I	GGATG	3 cut(s)	126, 401, 637
BstFNI	CGCG	2 cut(s)	144, 641
BstKTI	GATC	6 cut(s)	33, 273, 546, 622, 637, 820
BstMAI	GTCTC	2 cut(s)	667, 676
BstMBI	GATC	6 cut(s)	30, 270, 543, 619, 634, 817
BstNI	CCWGG	4 cut(s)	77, 134, 381, 422
BstPAI	GACNNNNGTC	1 cut(s)	939
BstSCI	CCNGG	4 cut(s)	75, 132, 379, 420
BstSFI	CTRYAG	1 cut(s)	855
BstSLI	GKGCMC	1 cut(s)	334
BstUI	CGCG	2 cut(s)	144, 641
BstV2I	GAAGAC	1 cut(s)	504
BstX2I	RGATCY	1 cut(s)	817
BstYI	RGATCY	1 cut(s)	817
BsuRI	GGCC	4 cut(s)	20, 147, 332, 550
BtsCI	GGATG	3 cut(s)	126, 401, 637
BtsIMutI	CAGTG	1 cut(s)	387
Cac8I	GCNNGC	1 cut(s)	56
CaiI	CAGNNNCTG	2 cut(s)	761, 863
Cfr10I	RCCGGY	1 cut(s)	54
Cfr13I	GGNCC	3 cut(s)	189, 330, 331
Csp6I	GTAC	2 cut(s)	70, 319
CviAII	CATG	4 cut(s)	163, 178, 203, 937
CviQI	GTAC	2 cut(s)	70, 319
DdeI	CTNAG	7 cut(s)	441, 516, 627, 673, 771, 888, 918
DpnI	GATC	6 cut(s)	32, 272, 545, 621, 636, 819
DpnII	GATC	6 cut(s)	30, 270, 543, 619, 634, 817
EaeI	YGGCCR	1 cut(s)	145
Eam1104I	CTCTTC	4 cut(s)	179, 300, 531, 903
EarI	CTCTTC	4 cut(s)	179, 300, 531, 903
EciI	GGCGGA	1 cut(s)	119
Eco130I	CCWWGG	2 cut(s)	15, 279
Eco24I	GRGCYC	1 cut(s)	334
Eco47I	GGWCC	1 cut(s)	189
Eco57I	CTGAAG	1 cut(s)	833
Eco88I	CYCGRG	1 cut(s)	539
EcoO109I	RGGNCCY	2 cut(s)	330, 331
EcoRII	CCWGG	4 cut(s)	75, 132, 379, 420
EcoT14I	CCWWGG	2 cut(s)	15, 279
EcoT38I	GRGCYC	1 cut(s)	334
ErhI	CCWWGG	2 cut(s)	15, 279
FaeI	CATG	4 cut(s)	166, 181, 206, 940
FaiI	YATR	8 cut(s)	164, 179, 204, 561, 585, 723, 725, 938
FaqI	GGGAC	1 cut(s)	227
FatI	CATG	4 cut(s)	162, 177, 202, 936
FauNDI	CATATG	1 cut(s)	723
FokI	GGATG	3 cut(s)	113, 388, 644
FriOI	GRGCYC	1 cut(s)	334
GsuI	CTGGAG	2 cut(s)	104, 342
HaeIII	GGCC	4 cut(s)	20, 147, 332, 550
HapII	CCGG	2 cut(s)	55, 216
Hin1II	CATG	4 cut(s)	166, 181, 206, 940
HincII	GTYRAC	1 cut(s)	645
HindII	GTYRAC	1 cut(s)	645
HinfI	GANTC	4 cut(s)	199, 393, 518, 923
HpaII	CCGG	2 cut(s)	55, 216
HphI	GGTGA	3 cut(s)	268, 296, 509
Hpy166II	GTNNAC	1 cut(s)	645
Hpy188I	TCNGA	4 cut(s)	517, 813, 919, 928
Hpy188III	TCNNGA	4 cut(s)	121, 196, 541, 574
Hpy8I	GTNNAC	1 cut(s)	645
Hpy99I	CGWCG	3 cut(s)	68, 92, 107
HpyAV	CCTTC	6 cut(s)	286, 487, 790, 808, 898, 924
HpyCH4III	ACNGT	1 cut(s)	460
HpyCH4IV	ACGT	2 cut(s)	102, 647
HpyCH4V	TGCA	2 cut(s)	710, 857
HpyF3I	CTNAG	7 cut(s)	441, 516, 627, 673, 771, 888, 918
HpySE526I	ACGT	2 cut(s)	102, 647
Hsp92II	CATG	4 cut(s)	166, 181, 206, 940
KroI	GCCGGC	1 cut(s)	54
KroNI	GCCGGC	1 cut(s)	56
Kzo9I	GATC	6 cut(s)	30, 270, 543, 619, 634, 817
LguI	GCTCTTC	2 cut(s)	531, 903
LmnI	GCTCC	5 cut(s)	63, 113, 123, 361, 721
LweI	GCATC	1 cut(s)	31
MaeII	ACGT	2 cut(s)	102, 647
MaeIII	GTNAC	1 cut(s)	497
MalI	GATC	6 cut(s)	32, 272, 545, 621, 636, 819
MboI	GATC	6 cut(s)	30, 270, 543, 619, 634, 817
MfeI	CAATTG	1 cut(s)	705
MflI	RGATCY	1 cut(s)	817
MhlI	GDGCHC	1 cut(s)	334
MluCI	AATT	1 cut(s)	705
MlyI	GAGTC	3 cut(s)	387, 527, 932
MmeI	TCCRAC	1 cut(s)	461
MroNI	GCCGGC	1 cut(s)	54
MseI	TTAA	4 cut(s)	429, 447, 489, 958
MslI	CAYNNNNRTG	1 cut(s)	179
MspA1I	CMGCKG	2 cut(s)	713, 860
MspI	CCGG	2 cut(s)	55, 216
MspR9I	CCNGG	4 cut(s)	77, 134, 381, 422
MunI	CAATTG	1 cut(s)	705
MvaI	CCWGG	4 cut(s)	77, 134, 381, 422
MvnI	CGCG	2 cut(s)	144, 641
NaeI	GCCGGC	1 cut(s)	56
NdeI	CATATG	1 cut(s)	723
NdeII	GATC	6 cut(s)	30, 270, 543, 619, 634, 817
NgoMIV	GCCGGC	1 cut(s)	54
NlaIII	CATG	4 cut(s)	166, 181, 206, 940
NlaIV	GGNNCC	6 cut(s)	59, 109, 331, 332, 333, 819
NmeAIII	GCCGAG	1 cut(s)	46
NmuCI	GTSAC	1 cut(s)	497
PciSI	GCTCTTC	2 cut(s)	531, 903
PcsI	WCGNNNNNNNCGW	1 cut(s)	93
PdiI	GCCGGC	1 cut(s)	56
PfeI	GAWTC	1 cut(s)	199
PleI	GAGTC	3 cut(s)	387, 526, 931
PpsI	GAGTC	3 cut(s)	387, 526, 931
PshAI	GACNNNNGTC	1 cut(s)	939
Psp6I	CCWGG	4 cut(s)	75, 132, 379, 420
PspGI	CCWGG	4 cut(s)	75, 132, 379, 420
PspN4I	GGNNCC	6 cut(s)	59, 109, 331, 332, 333, 819
PspOMI	GGGCCC	1 cut(s)	330
PspPI	GGNCC	3 cut(s)	189, 330, 331
PstI	CTGCAG	1 cut(s)	859
PstNI	CAGNNNCTG	2 cut(s)	761, 863
PsuI	RGATCY	1 cut(s)	817
PvuII	CAGCTG	2 cut(s)	713, 860
RsaI	GTAC	2 cut(s)	71, 320
RsaNI	GTAC	2 cut(s)	70, 319
RseI	CAYNNNNRTG	1 cut(s)	179
SapI	GCTCTTC	2 cut(s)	531, 903
SaqAI	TTAA	4 cut(s)	429, 447, 489, 958
Sau3AI	GATC	6 cut(s)	30, 270, 543, 619, 634, 817
Sau96I	GGNCC	3 cut(s)	189, 330, 331
SchI	GAGTC	3 cut(s)	387, 527, 932
ScrFI	CCNGG	4 cut(s)	77, 134, 381, 422
SduI	GDGCHC	1 cut(s)	334
SfaNI	GCATC	1 cut(s)	31
SfcI	CTRYAG	1 cut(s)	855
SinI	GGWCC	1 cut(s)	189
SmiMI	CAYNNNNRTG	1 cut(s)	179
SmlI	CTYRAG	1 cut(s)	786
SmoI	CTYRAG	1 cut(s)	786
Sse9I	AATT	1 cut(s)	705
SsiI	CCGC	4 cut(s)	93, 130, 144, 881
StyD4I	CCNGG	4 cut(s)	75, 132, 379, 420
StyI	CCWWGG	2 cut(s)	15, 279
TaaI	ACNGT	1 cut(s)	460
TaiI	ACGT	2 cut(s)	105, 650
TaqI	TCGA	3 cut(s)	63, 396, 954
TasI	AATT	1 cut(s)	705
TatI	WGTACW	1 cut(s)	318
TauI	GCSGC	3 cut(s)	95, 147, 884
TfiI	GAWTC	1 cut(s)	199
Tru1I	TTAA	4 cut(s)	429, 447, 489, 958
Tru9I	TTAA	4 cut(s)	429, 447, 489, 958
TscAI	CASTG	1 cut(s)	394
TseFI	GTSAC	1 cut(s)	497
Tsp45I	GTSAC	1 cut(s)	497
TspDTI	ATGAA	3 cut(s)	191, 197, 600
TspRI	CASTG	1 cut(s)	394
VpaK11BI	GGWCC	1 cut(s)	189
XcmI	CCANNNNNNNNNTGG	1 cut(s)	160

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