Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1A

Orthogroup ID

OG0011772

Physical Location & Seq

Genomic Coordinates Reverse (-)

60728194 .. 60732267

Gene Structure 4074 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1AG374600.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1005 bp

ATGAAGCTCTCTTCTTCGTCGACAACTCCAAAGGGAATACTTGAAATGGGATACACCACTAATAGGAAGATTGAAAAGCATAGGGAGAAAGTACTTCACATTGACAGCATGCTACAGAAAAACCCATTTGTAAAAGCAGTGCCTTCTTCAACACTAAAGAAGTCCAAGAAGAAGCGAAAACAGATTGCAAATGCCAAAGATGTGACTGAATGCGGCACTGAGGGTTCTGTCTCAACTTCTGTCATGGCTGACCTATGGGGTGATAAAGGTGGTGACAATCGCGTGGTCAAGAAGATGATGAAGCCTTCACCTATTCCTGCTGTAGAAGTTGAGCCTCCAGGTTGCTCATATAATCCCACAGATGAAAGTCATCAGGAAGCATTGGCTCATGCTGTTGCAGATGAAATGCAGAAAGTCTATAGAAATGAGCTAGGGCCTGAACCAGTGCCTCTAACTGTTCCAGGGGAGACTATTGATGAAGAAGAAATGTATTTTATTGAAGCAGATGAAGGCAGTGATGATGATGTGAATCCAGAAAACTTGGATGAGAATGAGCATGGTGCATCTGAGAAAAGGCCCTTTAAAACAAAGAGGGTGACAACAGTCGAATTAAATAAGAGAGCTAGGCGTAAAGAACAGCTGAAAAGGGAAGCCGAAGCGAAGAAGGTGCAGAAGCTTTCCAAAGAAATTGATGGGTTACCAGATATCCTTCAGGAAATAGCTGAAGAGGACGAGGAGAAGCTAAAAAGACATCTTCGACGAGTTGTAGCTAAAAAGGAAAAATCTAAGTCATGTCCCCCACGCTTGGGGAAGCACAAATTTGAACCTGCCCCAGTTCAAGTCCTTCTGACTGAAGAAAGAACTGGATCCATCCGTAAACTGAAGGGTTGTTGCACCCTTGTCAAGGATCGCTTCAAGAGTCTTGAAAAAAGAGGATTAATCCCAGTAAAAAACAACAAAAGGCCCGGTGGGCTCCGTCCAAAAAAACACCGAACTGGTCCCTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000027 GO:0000054 GO:0000055 GO:0003674 GO:0003676 GO:0003723 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005730 GO:0006403 GO:0006405 GO:0006611 GO:0006810 GO:0006886 GO:0006913 GO:0006996 GO:0008104 GO:0008150 GO:0009987 GO:0015031 GO:0015833 GO:0015931 GO:0016043 GO:0019843 GO:0022607 GO:0022613 GO:0022618 GO:0031503 GO:0031974 GO:0031981 GO:0033036 GO:0033750 GO:0034613 GO:0034622 GO:0042254 GO:0042255 GO:0042273 GO:0042886 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0043933 GO:0044085 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044464 GO:0045184 GO:0046907 GO:0050657 GO:0050658 GO:0051168 GO:0051169 GO:0051179 GO:0051234 GO:0051236 GO:0051640 GO:0051641 GO:0051649 GO:0051656 GO:0065003 GO:0070013 GO:0070727 GO:0070925 GO:0071166 GO:0071426 GO:0071428 GO:0071702 GO:0071705 GO:0071826 GO:0071840 GO:0097159 GO:1901363

KEGG Pathways

Metabolic & Signaling

ko05168 map05168

Pfam Domains

Protein Families

Nop53

Protein Analysis

334

Amino Acids

37.61

Weight (kDa)

9.37

Isoelectric Point (pI)

56.44

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Nop53	PF07767	21 - 308	1.7e-40	Nop53 (60S ribosomal biogenesis)

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

Font Size (px)

Line Width

Align Labels (Cladogram)

Image

Tree File

Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0011772)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G40430 AT2G40430 AT2G40430
fragaria_vesca	FvH4_7g25510 FvH4_7g25510
malus_domestica	MD01G1161500.v1.1 MD07G1229400.v1.1
prunus_persica	Prupe.2G259600_v2.0.a1
pyrus_communis	pycom01g17730 pycom07g20750
rosa_chinensis	RchiOBHm_Chr1g0371491
rosa_laevigata	RLG00000026957
rosa_roxburghii	Rroxscaffold_4G00285640
rosa_rugosa	Rorug01G0364200
rosa_samantha	Rh1AG374600 Rh1BG338000 Rh1CG351300 Rh1DG369000
rosa_wichuraiana	Rw1G032950

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	1 cut(s)	835
AccI	GTMKAC	1 cut(s)	20
AccII	CGCG	1 cut(s)	282
AciI	CCGC	1 cut(s)	213
AclWI	GGATC	3 cut(s)	861, 874, 915
AcsI	RAATTY	1 cut(s)	818
AcuI	CTGAAG	4 cut(s)	695, 744, 873, 902
AfaI	GTAC	1 cut(s)	93
AfiI	CCNNNNNNNGG	4 cut(s)	63, 805, 806, 904
AgsI	TTSAA	8 cut(s)	44, 74, 150, 500, 824, 839, 916, 926
AjnI	CCWGG	2 cut(s)	337, 460
AluBI	AGCT	8 cut(s)	7, 430, 623, 640, 676, 722, 742, 770
AluI	AGCT	8 cut(s)	7, 430, 623, 640, 676, 722, 742, 770
Alw26I	GTCTC	2 cut(s)	235, 461
AlwI	GGATC	3 cut(s)	861, 874, 915
AoxI	GGCC	3 cut(s)	434, 575, 962
ApoI	RAATTY	1 cut(s)	818
AseI	ATTAAT	1 cut(s)	938
AspS9I	GGNCC	4 cut(s)	434, 576, 963, 998
AsuC2I	CCSGG	1 cut(s)	966
AsuHPI	GGTGA	4 cut(s)	272, 284, 300, 607
AvaII	GGWCC	1 cut(s)	998
BamHI	GGATCC	1 cut(s)	866
BanII	GRGCYC	1 cut(s)	975
BccI	CCATC	2 cut(s)	686, 878
BcgI	CGANNNNNNTGC	2 cut(s)	649, 683
BciT130I	CCWGG	2 cut(s)	339, 462
BciVI	GTATCC	1 cut(s)	44
BcnI	CCSGG	1 cut(s)	966
BcoDI	GTCTC	2 cut(s)	235, 461
BfaI	CTAG	2 cut(s)	431, 624
BfmI	CTRYAG	3 cut(s)	113, 321, 418
BfuAI	ACCTGC	1 cut(s)	835
BfuI	GTATCC	1 cut(s)	44
BglI	GCCNNNNNGGC	1 cut(s)	970
BisI	GCNGC	1 cut(s)	214
BlsI	GCNGC	1 cut(s)	215
BmcAI	AGTACT	1 cut(s)	93
Bme1390I	CCNGG	3 cut(s)	339, 462, 966
Bme18I	GGWCC	1 cut(s)	998
BmgT120I	GGNCC	4 cut(s)	434, 576, 963, 998
BmiI	GGNNCC	3 cut(s)	868, 974, 1000
BmrFI	CCNGG	3 cut(s)	339, 462, 966
BmrI	ACTGGG	2 cut(s)	827, 938
BmsI	GCATC	1 cut(s)	572
BmuI	ACTGGG	2 cut(s)	827, 938
BoxI	GACNNNNGTC	1 cut(s)	602
BpmI	CTGGAG	1 cut(s)	321
BpuMI	CCSGG	1 cut(s)	966
BsaBI	GATNNNNATC	1 cut(s)	528
BsaJI	CCNNGG	1 cut(s)	461
Bsc4I	CCNNNNNNNGG	4 cut(s)	63, 805, 806, 904
Bse1I	ACTGG	5 cut(s)	443, 833, 868, 944, 1000
Bse8I	GATNNNNATC	1 cut(s)	528
BseBI	CCWGG	2 cut(s)	339, 462
BseDI	CCNNGG	1 cut(s)	461
BseGI	GGATG	2 cut(s)	550, 870
BseJI	GATNNNNATC	1 cut(s)	528
BseLI	CCNNNNNNNGG	4 cut(s)	63, 805, 806, 904
BseMII	CTCAG	2 cut(s)	210, 558
BseNI	ACTGG	5 cut(s)	443, 833, 868, 944, 1000
BseRI	GAGGAG	1 cut(s)	749
BsgI	GTGCAG	1 cut(s)	689
Bsh1236I	CGCG	1 cut(s)	282
BshFI	GGCC	3 cut(s)	436, 577, 964
BsiSI	CCGG	1 cut(s)	966
BslFI	GGGAC	2 cut(s)	780, 984
BslI	CCNNNNNNNGG	4 cut(s)	63, 805, 806, 904
BsmAI	GTCTC	2 cut(s)	235, 461
BsmFI	GGGAC	2 cut(s)	780, 984
BsmI	GAATGC	1 cut(s)	215
BsnI	GGCC	3 cut(s)	436, 577, 964
Bsp1286I	GDGCHC	1 cut(s)	975
Bsp143I	GATC	2 cut(s)	866, 907
BspACI	CCGC	1 cut(s)	213
BspANI	GGCC	3 cut(s)	436, 577, 964
BspCNI	CTCAG	2 cut(s)	211, 559
BspFNI	CGCG	1 cut(s)	282
BspLI	GGNNCC	3 cut(s)	868, 974, 1000
BspMI	ACCTGC	1 cut(s)	835
BspPI	GGATC	3 cut(s)	861, 874, 915
BsrI	ACTGG	5 cut(s)	443, 833, 868, 944, 1000
BssECI	CCNNGG	1 cut(s)	461
BssMI	GATC	2 cut(s)	866, 907
Bst2UI	CCWGG	2 cut(s)	339, 462
Bst4CI	ACNGT	2 cut(s)	457, 604
Bst6I	CTCTTC	2 cut(s)	16, 720
BstC8I	GCNNGC	1 cut(s)	110
BstDEI	CTNAG	3 cut(s)	219, 567, 786
BstEII	GGTNACC	1 cut(s)	696
BstENI	CCTNNNNNAGG	1 cut(s)	902
BstF5I	GGATG	2 cut(s)	550, 870
BstFNI	CGCG	1 cut(s)	282
BstKTI	GATC	2 cut(s)	869, 910
BstMAI	GTCTC	2 cut(s)	235, 461
BstMBI	GATC	2 cut(s)	866, 907
BstMWI	GCNNNNNNNGC	1 cut(s)	970
BstNI	CCWGG	2 cut(s)	339, 462
BstNSI	RCATGY	1 cut(s)	112
BstPAI	GACNNNNGTC	1 cut(s)	602
BstPI	GGTNACC	1 cut(s)	696
BstSCI	CCNGG	3 cut(s)	337, 460, 964
BstSFI	CTRYAG	3 cut(s)	113, 321, 418
BstUI	CGCG	1 cut(s)	282
BstX2I	RGATCY	1 cut(s)	866
BstYI	RGATCY	1 cut(s)	866
BsuI	GTATCC	1 cut(s)	44
BsuRI	GGCC	3 cut(s)	436, 577, 964
BtsCI	GGATG	2 cut(s)	550, 870
BtsI	GCAGTG	2 cut(s)	144, 520
BtsIMutI	CAGTG	4 cut(s)	144, 216, 450, 520
BveI	ACCTGC	1 cut(s)	835
Cac8I	GCNNGC	1 cut(s)	110
Cfr13I	GGNCC	4 cut(s)	434, 576, 963, 998
Csp6I	GTAC	1 cut(s)	92
CviAII	CATG	5 cut(s)	109, 244, 389, 557, 792
CviQI	GTAC	1 cut(s)	92
DdeI	CTNAG	3 cut(s)	219, 567, 786
DpnI	GATC	2 cut(s)	868, 909
DpnII	GATC	2 cut(s)	866, 907
DraI	TTTAAA	1 cut(s)	583
Eam1104I	CTCTTC	2 cut(s)	16, 720
EarI	CTCTTC	2 cut(s)	16, 720
Eco24I	GRGCYC	1 cut(s)	975
Eco32I	GATATC	1 cut(s)	706
Eco47I	GGWCC	1 cut(s)	998
Eco57I	CTGAAG	4 cut(s)	695, 744, 873, 902
Eco91I	GGTNACC	1 cut(s)	696
EcoNI	CCTNNNNNAGG	1 cut(s)	902
EcoO109I	RGGNCCY	2 cut(s)	434, 576
EcoO65I	GGTNACC	1 cut(s)	696
EcoRII	CCWGG	2 cut(s)	337, 460
EcoRV	GATATC	1 cut(s)	706
EcoT38I	GRGCYC	1 cut(s)	975
FaeI	CATG	5 cut(s)	112, 247, 392, 560, 795
FalI	AAGNNNNNCTT	2 cut(s)	896, 928
FaqI	GGGAC	2 cut(s)	780, 984
FatI	CATG	5 cut(s)	108, 243, 388, 556, 791
FblI	GTMKAC	1 cut(s)	20
Fnu4HI	GCNGC	1 cut(s)	214
FokI	GGATG	2 cut(s)	557, 857
FriOI	GRGCYC	1 cut(s)	975
Fsp4HI	GCNGC	1 cut(s)	214
FspBI	CTAG	2 cut(s)	431, 624
GluI	GCNGC	1 cut(s)	214
GsuI	CTGGAG	1 cut(s)	321
HaeIII	GGCC	3 cut(s)	436, 577, 964
HapII	CCGG	1 cut(s)	966
Hin1II	CATG	5 cut(s)	112, 247, 392, 560, 795
HincII	GTYRAC	1 cut(s)	21
HindII	GTYRAC	1 cut(s)	21
HindIII	AAGCTT	1 cut(s)	674
HinfI	GANTC	2 cut(s)	529, 919
HpaII	CCGG	1 cut(s)	966
HphI	GGTGA	4 cut(s)	272, 284, 300, 607
Hpy166II	GTNNAC	2 cut(s)	21, 878
Hpy188I	TCNGA	2 cut(s)	568, 849
Hpy188III	TCNNGA	6 cut(s)	289, 374, 533, 713, 916, 923
Hpy8I	GTNNAC	2 cut(s)	21, 878
Hpy99I	CGWCG	2 cut(s)	22, 762
HpyAV	CCTTC	7 cut(s)	153, 315, 503, 658, 719, 854, 877
HpyCH4III	ACNGT	2 cut(s)	457, 604
HpyCH4V	TGCA	6 cut(s)	188, 398, 409, 563, 670, 894
HpyF10VI	GCNNNNNNNGC	1 cut(s)	970
HpyF3I	CTNAG	3 cut(s)	219, 567, 786
Hsp92II	CATG	5 cut(s)	112, 247, 392, 560, 795
Kzo9I	GATC	2 cut(s)	866, 907
LmnI	GCTCC	1 cut(s)	978
LweI	GCATC	1 cut(s)	572
MaeI	CTAG	2 cut(s)	431, 624
MaeIII	GTNAC	4 cut(s)	202, 272, 595, 696
MalI	GATC	2 cut(s)	868, 909
MboI	GATC	2 cut(s)	866, 907
MflI	RGATCY	1 cut(s)	866
MhlI	GDGCHC	1 cut(s)	975
MluCI	AATT	3 cut(s)	608, 687, 818
MlyI	GAGTC	1 cut(s)	928
MnlI	CCTC	7 cut(s)	214, 345, 459, 585, 721, 727, 926
MseI	TTAA	3 cut(s)	582, 611, 938
MspA1I	CMGCKG	1 cut(s)	640
MspI	CCGG	1 cut(s)	966
MspR9I	CCNGG	3 cut(s)	339, 462, 966
Mva1269I	GAATGC	1 cut(s)	215
MvaI	CCWGG	2 cut(s)	339, 462
MvnI	CGCG	1 cut(s)	282
MwoI	GCNNNNNNNGC	1 cut(s)	970
NciI	CCSGG	1 cut(s)	966
NdeII	GATC	2 cut(s)	866, 907
NlaIII	CATG	5 cut(s)	112, 247, 392, 560, 795
NlaIV	GGNNCC	3 cut(s)	868, 974, 1000
NmuCI	GTSAC	3 cut(s)	202, 272, 595
NspI	RCATGY	1 cut(s)	112
PaeI	GCATGC	1 cut(s)	112
PctI	GAATGC	1 cut(s)	215
PfeI	GAWTC	1 cut(s)	529
PkrI	GCNGC	1 cut(s)	215
PleI	GAGTC	1 cut(s)	927
PpsI	GAGTC	1 cut(s)	927
PshAI	GACNNNNGTC	1 cut(s)	602
PshBI	ATTAAT	1 cut(s)	938
Psp6I	CCWGG	2 cut(s)	337, 460
PspEI	GGTNACC	1 cut(s)	696
PspGI	CCWGG	2 cut(s)	337, 460
PspN4I	GGNNCC	3 cut(s)	868, 974, 1000
PspPI	GGNCC	4 cut(s)	434, 576, 963, 998
PsuI	RGATCY	1 cut(s)	866
PvuII	CAGCTG	1 cut(s)	640
RsaI	GTAC	1 cut(s)	93
RsaNI	GTAC	1 cut(s)	92
SalI	GTCGAC	1 cut(s)	19
SaqAI	TTAA	3 cut(s)	582, 611, 938
SatI	GCNGC	1 cut(s)	214
Sau3AI	GATC	2 cut(s)	866, 907
Sau96I	GGNCC	4 cut(s)	434, 576, 963, 998
ScaI	AGTACT	1 cut(s)	93
SchI	GAGTC	1 cut(s)	928
ScrFI	CCNGG	3 cut(s)	339, 462, 966
SduI	GDGCHC	1 cut(s)	975
SfaNI	GCATC	1 cut(s)	572
SfcI	CTRYAG	3 cut(s)	113, 321, 418
SinI	GGWCC	1 cut(s)	998
SphI	GCATGC	1 cut(s)	112
Sse9I	AATT	3 cut(s)	608, 687, 818
SsiI	CCGC	1 cut(s)	213
SspMI	CTAG	2 cut(s)	431, 624
StyD4I	CCNGG	3 cut(s)	337, 460, 964
TaaI	ACNGT	2 cut(s)	457, 604
TaqI	TCGA	3 cut(s)	20, 606, 757
TasI	AATT	3 cut(s)	608, 687, 818
TatI	WGTACW	1 cut(s)	91
TauI	GCSGC	1 cut(s)	216
TfiI	GAWTC	1 cut(s)	529
Tru1I	TTAA	3 cut(s)	582, 611, 938
Tru9I	TTAA	3 cut(s)	582, 611, 938
TscAI	CASTG	4 cut(s)	144, 223, 450, 520
TseFI	GTSAC	3 cut(s)	202, 272, 595
Tsp45I	GTSAC	3 cut(s)	202, 272, 595
TspDTI	ATGAA	6 cut(s)	17, 314, 378, 417, 492, 522
TspGWI	ACGGA	2 cut(s)	863, 965
TspRI	CASTG	4 cut(s)	144, 223, 450, 520
VpaK11BI	GGWCC	1 cut(s)	998
VspI	ATTAAT	1 cut(s)	938
XagI	CCTNNNNNAGG	1 cut(s)	902
XapI	RAATTY	1 cut(s)	818
XceI	RCATGY	1 cut(s)	112
XmiI	GTMKAC	1 cut(s)	20
XspI	CTAG	2 cut(s)	431, 624
ZrmI	AGTACT	1 cut(s)	93

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