Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000004

Orthogroup ID

OG0011772

Physical Location & Seq

Genomic Coordinates Forward (+)

6906553 .. 6909924

Gene Structure 3372 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_4G00285640.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1131 bp

ATGGGGAAGAAAGCGAAGACGTCCAGGAAGGGAAAGAAGGCGTGGAGAGCCAACATTAGCACGGAGGACATCCAGGACTTCTTCGAGCAGTCCACCAAAGACGCTCTCTCCGGCGGCAATCTCTCTCAGGCTCCCGATGAAGCTCTCTTCTTCGTCGACAACTCCAAAGATCTTTCGGTGAAGAGGAAGATTGAAAAGCATAGGGAGAAAGTACTTCACATTGACAGCATGCTACAGAAAAACCCATTTGTAAAAGCAGTGCCTTCTTCAACACTAAAGAAGTCCAAGAAAAAGCGAAAACAGATTGCAAATGCCAAAGATGTGACTGAATGCGGCACTGAGGGTTCTGTCTCAACTTCTGGCATGGCTGACCTATGGGGTGATAAAGGTGGTGACAATCGCGTGGTCAAGAAGATGATGAAGCCTTCACCTATTCCTGCTGTAGAAGTTGAGCCTCCAGGTTGCTCATACAATCCCACAGATGAAAGTCATCAGGAAGCATTGGCTCATGCTGTTGCAGATGAAATGCAGAAAGTCTATAGAAATGAGCTAGGGCCTGAACCAGTGCCTCTAACTGTTCCAGGGGAGACTATTGATGAAGAAGAAATGTATTTTATTGAAGCAGATGAAGGCAGTGATGATGATATGAATCTAGAAAACTTGGATGAGAATGAGCATGGTGCATCTGAGAAAAGGCCCTTTAAAACAAAGAGGGTGACAACAGTTGAATTAAATAAGAGAGCTAGGCGTAAAGAACAGCTGAAAAGGGAAGCAGAAGCGAAGAAGGTGCAGAAGCTTTCCAAAGAAATTGATGGCTTACCAGATATCCTTCAGGAAATAGCTGAAGAGGACGAGGAGAAGCTAAAAAGACATCTTCGACGAGTTGTAGCTAAAAAGGAAAAATCTAAGTCATGTCCCCCGCGCTTGGGGAAGCACAAATTTGAACCTGCCCCAGTTCAAGTCCTTCTGACTGAAGAAAGAACTGGATCCATCCGTAAACTGAAGGGTTGTTGCACCCTTGTCAAGGATCGCTTCAAGAGTCTTGAAAAAAGAGGATTAATCCCAGTAAAGGCCAACAAAAGGTTTGTCCAATTTCCTCTAAGGTTCACTGAGACACTGAGTTTGTGTTGA

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

376

Amino Acids

42.46

Weight (kDa)

9.14

Isoelectric Point (pI)

55.38

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Nop53	PF07767	8 - 348	5.8e-61	Nop53 (60S ribosomal biogenesis)

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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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)
AatII	GACGTC	1 cut(s)	23
Acc36I	ACCTGC	1 cut(s)	955
AccI	GTMKAC	1 cut(s)	156
AccII	CGCG	2 cut(s)	402, 922
AciI	CCGC	3 cut(s)	114, 333, 920
AclWI	GGATC	3 cut(s)	981, 994, 1035
AcsI	RAATTY	1 cut(s)	938
AcuI	CTGAAG	4 cut(s)	815, 864, 993, 1022
AcyI	GRCGYC	1 cut(s)	20
AfaI	GTAC	1 cut(s)	213
AfiI	CCNNNNNNNGG	5 cut(s)	925, 926, 1024, 1069, 1080
AgsI	TTSAA	8 cut(s)	194, 270, 620, 728, 944, 959, 1036, 1046
AjnI	CCWGG	4 cut(s)	23, 72, 457, 580
AluBI	AGCT	8 cut(s)	143, 550, 743, 760, 796, 842, 862, 890
AluI	AGCT	8 cut(s)	143, 550, 743, 760, 796, 842, 862, 890
Alw26I	GTCTC	3 cut(s)	355, 581, 1106
AlwI	GGATC	3 cut(s)	981, 994, 1035
AoxI	GGCC	3 cut(s)	554, 695, 1071
ApoI	RAATTY	1 cut(s)	938
ArsI	GACNNNNNNTTYG	3 cut(s)	1071, 1103, 1105
AseI	ATTAAT	1 cut(s)	1058
AspLEI	GCGC	1 cut(s)	924
AspS9I	GGNCC	2 cut(s)	554, 696
AsuHPI	GGTGA	5 cut(s)	190, 392, 404, 420, 727
BamHI	GGATCC	1 cut(s)	986
BbsI	GAAGAC	1 cut(s)	23
BccI	CCATC	2 cut(s)	806, 998
BcgI	CGANNNNNNTGC	2 cut(s)	769, 803
BciT130I	CCWGG	4 cut(s)	25, 74, 459, 582
BcoDI	GTCTC	3 cut(s)	355, 581, 1106
BfaI	CTAG	3 cut(s)	551, 653, 744
BfmI	CTRYAG	3 cut(s)	233, 441, 538
BfuAI	ACCTGC	1 cut(s)	955
BglII	AGATCT	1 cut(s)	169
BisI	GCNGC	2 cut(s)	115, 334
BlsI	GCNGC	2 cut(s)	116, 335
BmcAI	AGTACT	1 cut(s)	213
Bme1390I	CCNGG	4 cut(s)	25, 74, 459, 582
BmgT120I	GGNCC	2 cut(s)	554, 696
BmiI	GGNNCC	2 cut(s)	132, 988
BmrFI	CCNGG	4 cut(s)	25, 74, 459, 582
BmrI	ACTGGG	2 cut(s)	947, 1058
BmsI	GCATC	1 cut(s)	692
BmuI	ACTGGG	2 cut(s)	947, 1058
BpiI	GAAGAC	1 cut(s)	23
BpmI	CTGGAG	1 cut(s)	441
BsaBI	GATNNNNATC	1 cut(s)	648
BsaHI	GRCGYC	1 cut(s)	20
BsaJI	CCNNGG	1 cut(s)	581
BsaXI	ACNNNNNCTCC	2 cut(s)	92, 122
Bsc4I	CCNNNNNNNGG	5 cut(s)	925, 926, 1024, 1069, 1080
Bse1I	ACTGG	4 cut(s)	563, 953, 988, 1064
Bse8I	GATNNNNATC	1 cut(s)	648
BseBI	CCWGG	4 cut(s)	25, 74, 459, 582
BseDI	CCNNGG	1 cut(s)	581
BseGI	GGATG	3 cut(s)	69, 670, 990
BseJI	GATNNNNATC	1 cut(s)	648
BseLI	CCNNNNNNNGG	5 cut(s)	925, 926, 1024, 1069, 1080
BseMII	CTCAG	5 cut(s)	140, 330, 678, 1101, 1109
BseNI	ACTGG	4 cut(s)	563, 953, 988, 1064
BseRI	GAGGAG	1 cut(s)	869
BsgI	GTGCAG	1 cut(s)	809
Bsh1236I	CGCG	2 cut(s)	402, 922
BshFI	GGCC	3 cut(s)	556, 697, 1073
BsiSI	CCGG	1 cut(s)	111
BslFI	GGGAC	1 cut(s)	900
BslI	CCNNNNNNNGG	5 cut(s)	925, 926, 1024, 1069, 1080
BsmAI	GTCTC	3 cut(s)	355, 581, 1106
BsmFI	GGGAC	1 cut(s)	900
BsmI	GAATGC	1 cut(s)	335
BsnI	GGCC	3 cut(s)	556, 697, 1073
Bsp143I	GATC	3 cut(s)	169, 986, 1027
BspACI	CCGC	3 cut(s)	114, 333, 920
BspANI	GGCC	3 cut(s)	556, 697, 1073
BspCNI	CTCAG	5 cut(s)	139, 331, 679, 1102, 1110
BspFNI	CGCG	2 cut(s)	402, 922
BspLI	GGNNCC	2 cut(s)	132, 988
BspMI	ACCTGC	1 cut(s)	955
BspPI	GGATC	3 cut(s)	981, 994, 1035
BsrI	ACTGG	4 cut(s)	563, 953, 988, 1064
BssECI	CCNNGG	1 cut(s)	581
BssMI	GATC	3 cut(s)	169, 986, 1027
BssNI	GRCGYC	1 cut(s)	20
Bst2UI	CCWGG	4 cut(s)	25, 74, 459, 582
Bst4CI	ACNGT	2 cut(s)	577, 724
Bst6I	CTCTTC	3 cut(s)	152, 176, 840
BstACI	GRCGYC	1 cut(s)	20
BstC8I	GCNNGC	1 cut(s)	230
BstDEI	CTNAG	7 cut(s)	126, 339, 687, 906, 1100, 1110, 1118
BstENI	CCTNNNNNAGG	1 cut(s)	1022
BstF5I	GGATG	3 cut(s)	69, 670, 990
BstFNI	CGCG	2 cut(s)	402, 922
BstHHI	GCGC	1 cut(s)	924
BstKTI	GATC	3 cut(s)	172, 989, 1030
BstMAI	GTCTC	3 cut(s)	355, 581, 1106
BstMBI	GATC	3 cut(s)	169, 986, 1027
BstMWI	GCNNNNNNNGC	1 cut(s)	47
BstNI	CCWGG	4 cut(s)	25, 74, 459, 582
BstNSI	RCATGY	1 cut(s)	232
BstSCI	CCNGG	4 cut(s)	23, 72, 457, 580
BstSFI	CTRYAG	3 cut(s)	233, 441, 538
BstUI	CGCG	2 cut(s)	402, 922
BstV2I	GAAGAC	1 cut(s)	23
BstX2I	RGATCY	2 cut(s)	169, 986
BstYI	RGATCY	2 cut(s)	169, 986
BsuRI	GGCC	3 cut(s)	556, 697, 1073
BtsCI	GGATG	3 cut(s)	69, 670, 990
BtsI	GCAGTG	2 cut(s)	264, 640
BtsIMutI	CAGTG	6 cut(s)	264, 336, 570, 640, 1107, 1115
BveI	ACCTGC	1 cut(s)	955
Cac8I	GCNNGC	1 cut(s)	230
CfoI	GCGC	1 cut(s)	924
Cfr13I	GGNCC	2 cut(s)	554, 696
CseI	GACGC	1 cut(s)	110
Csp6I	GTAC	1 cut(s)	212
CviAII	CATG	5 cut(s)	229, 364, 509, 677, 912
CviQI	GTAC	1 cut(s)	212
DdeI	CTNAG	7 cut(s)	126, 339, 687, 906, 1100, 1110, 1118
DpnI	GATC	3 cut(s)	171, 988, 1029
DpnII	GATC	3 cut(s)	169, 986, 1027
DraI	TTTAAA	1 cut(s)	703
Eam1104I	CTCTTC	3 cut(s)	152, 176, 840
EarI	CTCTTC	3 cut(s)	152, 176, 840
Eco32I	GATATC	1 cut(s)	826
Eco57I	CTGAAG	4 cut(s)	815, 864, 993, 1022
EcoNI	CCTNNNNNAGG	1 cut(s)	1022
EcoO109I	RGGNCCY	2 cut(s)	554, 696
EcoRII	CCWGG	4 cut(s)	23, 72, 457, 580
EcoRV	GATATC	1 cut(s)	826
FaeI	CATG	5 cut(s)	232, 367, 512, 680, 915
FalI	AAGNNNNNCTT	2 cut(s)	1016, 1048
FaqI	GGGAC	1 cut(s)	900
FatI	CATG	5 cut(s)	228, 363, 508, 676, 911
FauI	CCCGC	1 cut(s)	927
FblI	GTMKAC	1 cut(s)	156
Fnu4HI	GCNGC	2 cut(s)	115, 334
FokI	GGATG	3 cut(s)	56, 677, 977
Fsp4HI	GCNGC	2 cut(s)	115, 334
FspBI	CTAG	3 cut(s)	551, 653, 744
GlaI	GCGC	1 cut(s)	923
GluI	GCNGC	2 cut(s)	115, 334
GsuI	CTGGAG	1 cut(s)	441
HaeIII	GGCC	3 cut(s)	556, 697, 1073
HapII	CCGG	1 cut(s)	111
HgaI	GACGC	1 cut(s)	110
HhaI	GCGC	1 cut(s)	924
Hin1I	GRCGYC	1 cut(s)	20
Hin1II	CATG	5 cut(s)	232, 367, 512, 680, 915
Hin6I	GCGC	1 cut(s)	922
HinP1I	GCGC	1 cut(s)	922
HincII	GTYRAC	1 cut(s)	157
HindII	GTYRAC	1 cut(s)	157
HindIII	AAGCTT	1 cut(s)	794
HinfI	GANTC	2 cut(s)	649, 1039
HpaII	CCGG	1 cut(s)	111
HphI	GGTGA	5 cut(s)	190, 392, 404, 420, 727
Hpy166II	GTNNAC	4 cut(s)	93, 157, 998, 1107
Hpy188I	TCNGA	2 cut(s)	688, 969
Hpy188III	TCNNGA	7 cut(s)	134, 409, 494, 653, 833, 1036, 1043
Hpy8I	GTNNAC	4 cut(s)	93, 157, 998, 1107
Hpy99I	CGWCG	2 cut(s)	158, 882
HpyAV	CCTTC	9 cut(s)	22, 31, 273, 435, 623, 778, 839, 974, 997
HpyCH4III	ACNGT	2 cut(s)	577, 724
HpyCH4IV	ACGT	1 cut(s)	20
HpyCH4V	TGCA	6 cut(s)	308, 518, 529, 683, 790, 1014
HpyF10VI	GCNNNNNNNGC	1 cut(s)	47
HpyF3I	CTNAG	7 cut(s)	126, 339, 687, 906, 1100, 1110, 1118
HpySE526I	ACGT	1 cut(s)	20
Hsp92I	GRCGYC	1 cut(s)	20
Hsp92II	CATG	5 cut(s)	232, 367, 512, 680, 915
HspAI	GCGC	1 cut(s)	922
Kzo9I	GATC	3 cut(s)	169, 986, 1027
LmnI	GCTCC	1 cut(s)	136
LweI	GCATC	1 cut(s)	692
MaeI	CTAG	3 cut(s)	551, 653, 744
MaeII	ACGT	1 cut(s)	20
MaeIII	GTNAC	3 cut(s)	322, 392, 715
MalI	GATC	3 cut(s)	171, 988, 1029
MboI	GATC	3 cut(s)	169, 986, 1027
MflI	RGATCY	2 cut(s)	169, 986
MluCI	AATT	4 cut(s)	728, 807, 938, 1091
MlyI	GAGTC	1 cut(s)	1048
MseI	TTAA	3 cut(s)	702, 731, 1058
MspA1I	CMGCKG	1 cut(s)	760
MspI	CCGG	1 cut(s)	111
MspR9I	CCNGG	4 cut(s)	25, 74, 459, 582
Mva1269I	GAATGC	1 cut(s)	335
MvaI	CCWGG	4 cut(s)	25, 74, 459, 582
MvnI	CGCG	2 cut(s)	402, 922
MwoI	GCNNNNNNNGC	1 cut(s)	47
NdeII	GATC	3 cut(s)	169, 986, 1027
NlaIII	CATG	5 cut(s)	232, 367, 512, 680, 915
NlaIV	GGNNCC	2 cut(s)	132, 988
NmuCI	GTSAC	3 cut(s)	322, 392, 715
NspI	RCATGY	1 cut(s)	232
PaeI	GCATGC	1 cut(s)	232
PctI	GAATGC	1 cut(s)	335
PfeI	GAWTC	1 cut(s)	649
PfoI	TCCNGGA	2 cut(s)	23, 72
PkrI	GCNGC	2 cut(s)	116, 335
PleI	GAGTC	1 cut(s)	1047
PpsI	GAGTC	1 cut(s)	1047
PshBI	ATTAAT	1 cut(s)	1058
Psp6I	CCWGG	4 cut(s)	23, 72, 457, 580
PspGI	CCWGG	4 cut(s)	23, 72, 457, 580
PspN4I	GGNNCC	2 cut(s)	132, 988
PspPI	GGNCC	2 cut(s)	554, 696
PsuI	RGATCY	2 cut(s)	169, 986
PvuII	CAGCTG	1 cut(s)	760
RsaI	GTAC	1 cut(s)	213
RsaNI	GTAC	1 cut(s)	212
SalI	GTCGAC	1 cut(s)	155
SaqAI	TTAA	3 cut(s)	702, 731, 1058
SatI	GCNGC	2 cut(s)	115, 334
Sau3AI	GATC	3 cut(s)	169, 986, 1027
Sau96I	GGNCC	2 cut(s)	554, 696
ScaI	AGTACT	1 cut(s)	213
SchI	GAGTC	1 cut(s)	1048
ScrFI	CCNGG	4 cut(s)	25, 74, 459, 582
SfaNI	GCATC	1 cut(s)	692
SfcI	CTRYAG	3 cut(s)	233, 441, 538
SphI	GCATGC	1 cut(s)	232
Sse9I	AATT	4 cut(s)	728, 807, 938, 1091
SsiI	CCGC	3 cut(s)	114, 333, 920
SspMI	CTAG	3 cut(s)	551, 653, 744
StyD4I	CCNGG	4 cut(s)	23, 72, 457, 580
TaaI	ACNGT	2 cut(s)	577, 724
TaiI	ACGT	1 cut(s)	23
TaqI	TCGA	3 cut(s)	84, 156, 877
TasI	AATT	4 cut(s)	728, 807, 938, 1091
TatI	WGTACW	1 cut(s)	211
TauI	GCSGC	2 cut(s)	117, 336
TfiI	GAWTC	1 cut(s)	649
Tru1I	TTAA	3 cut(s)	702, 731, 1058
Tru9I	TTAA	3 cut(s)	702, 731, 1058
TscAI	CASTG	6 cut(s)	264, 343, 570, 640, 1114, 1122
TseFI	GTSAC	3 cut(s)	322, 392, 715
Tsp45I	GTSAC	3 cut(s)	322, 392, 715
TspDTI	ATGAA	7 cut(s)	153, 434, 498, 537, 612, 642, 662
TspGWI	ACGGA	2 cut(s)	77, 983
TspRI	CASTG	6 cut(s)	264, 343, 570, 640, 1114, 1122
VspI	ATTAAT	1 cut(s)	1058
XagI	CCTNNNNNAGG	1 cut(s)	1022
XapI	RAATTY	1 cut(s)	938
XbaI	TCTAGA	1 cut(s)	652
XceI	RCATGY	1 cut(s)	232
XmiI	GTMKAC	1 cut(s)	156
XspI	CTAG	3 cut(s)	551, 653, 744
ZraI	GACGTC	1 cut(s)	21
ZrmI	AGTACT	1 cut(s)	213

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