Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000001

Orthogroup ID

OG0004823

Physical Location & Seq

Genomic Coordinates Forward (+)

14982354 .. 14984288

Gene Structure 1935 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_1G00012100.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 828 bp

ATGGCGACCTCCTCATCACTCTCCTTCTTCACCTCCTCAATCTTCCTCACTTCCTCTTCCCACAAACCCCTCTCCGCCACCCTCCTCAGACCCAGCTCCCTCAAATCCCCCAAACCCCTAACCCTAACCGCTGAGCTCGCCACACTCCCCGTCCTCTCCTTCACCGGCGACAAGGTCGGCGAGACCTTCCTCGATCTCAAGTCCGCCCTCCCCGACACCGCCCGCGCCGTCGTCCACCGCGCCATTATCCACGACCTCCAGAACAAGCGTCGCGGCACCGCCTCCACCCTCACCCGCGGCGAGGTCCGAGGCGGAGGCAGAAAGCCCTACCCGCAGAAGAAGACGGGTCGGGCCAGGCAGGGTTCGACCCGGACCCCGCTCCGACCCGGCGGAGGAGTCGTGTTCGGGCCCAAGCCCAGGGACTGGAGCATCAAGATTAACCGCAAGGAGAAGCGGCTGGCGATTTCGACGGCGGTGGCGAGCGCGGCGGAGAACACGATTGTGGTGGAGGATTTCAGCGATGAGTTTGAGAGGTTGGAGAAGCCGAAGACGACGGAGTTCATTGCGGCGATGAAGCGGTGGGGGCTTGACCCAAAGGAGAAGACGACCTTCTTTATGCTGGAGGTAGCGGATAAGGTGAAGCTTTCGAGTAGGAATATTGGCACTTTGAAGATGTTGACCCCCAGGACGCTGAATCTGTTTGATATTTTGAATGCTGATAAGTTGATTCTCACGCCGGAGACGGTGGACTATTTGAATGGAAGGTATGGGGTTGATTTCGAAGGCGAGACTGAGGATGAGGATGAAGAAGAAGGGAGTGAAGGTTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000311 GO:0000313 GO:0000315 GO:0003674 GO:0003676 GO:0003723 GO:0003727 GO:0003735 GO:0005198 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005737 GO:0005829 GO:0005840 GO:0006412 GO:0006518 GO:0006807 GO:0008150 GO:0008152 GO:0008187 GO:0008266 GO:0009058 GO:0009059 GO:0009507 GO:0009532 GO:0009534 GO:0009535 GO:0009536 GO:0009547 GO:0009570 GO:0009579 GO:0009987 GO:0010467 GO:0015934 GO:0016020 GO:0019538 GO:0022626 GO:0031976 GO:0031984 GO:0032991 GO:0034357 GO:0034641 GO:0034645 GO:0042651 GO:0043043 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 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:0044434 GO:0044435 GO:0044436 GO:0044444 GO:0044445 GO:0044446 GO:0044464 GO:0055035 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_L4

Protein Analysis

275

Amino Acids

30.29

Weight (kDa)

9.39

Isoelectric Point (pI)

36.9

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Ribosomal_L4	PF00573	74 - 254	2.1e-55	Ribosomal protein L4/L1 family

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: OG0004823)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G07320 AT1G07320 AT1G07320 AT1G07320
fragaria_vesca	FvH4_3g38221 FvH4_3g38221 FvH4_3g38221
malus_domestica	MD03G1073800.v1.1 MD08G1127500.v1.1 MD11G1079800.v1.1 MD11G1080100.v1.1
prunus_persica	Prupe.6G060600_v2.0.a1
pyrus_communis	pycom11g06750
rosa_chinensis	RchiOBHm_Chr3g0486041 RchiOBHm_Chr5g0068671 RchiOBHm_Chr5g0068721 RchiOBHm_Chr7g0215191
rosa_laevigata	RLG00000014184 RLG00000036005
rosa_multiflora	Rmu_sc0000376.1_g000024
rosa_roxburghii	Rroxscaffold_1G00012100
rosa_rugosa	Rorug05G0392600
rosa_samantha	Rh5AG450100 Rh5BG468500 Rh5CG490600 Rh5CG490700 Rh5DG481900 Rh5DG482000
rosa_wichuraiana	Rw0G009870 Rw5G042010 Rw5G042030

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	1 cut(s)	275
AccB7I	CCANNNNNTGG	1 cut(s)	423
AccBSI	CCGCTC	1 cut(s)	379
AccII	CGCG	5 cut(s)	225, 240, 273, 297, 485
AfiI	CCNNNNNNNGG	4 cut(s)	301, 392, 417, 423
AgsI	TTSAA	3 cut(s)	670, 712, 757
AjnI	CCWGG	3 cut(s)	353, 416, 683
AleI	CACNNNNGTG	1 cut(s)	500
AluBI	AGCT	3 cut(s)	96, 136, 643
AluI	AGCT	3 cut(s)	96, 136, 643
Alw21I	GWGCWC	1 cut(s)	138
Alw26I	GTCTC	3 cut(s)	176, 734, 782
AlwNI	CAGNNNCTG	1 cut(s)	423
AoxI	GGCC	2 cut(s)	351, 407
ApaI	GGGCCC	1 cut(s)	411
AspLEI	GCGC	3 cut(s)	227, 242, 485
AspS9I	GGNCC	5 cut(s)	304, 351, 372, 407, 408
AsuC2I	CCSGG	2 cut(s)	370, 387
AsuHPI	GGTGA	4 cut(s)	22, 154, 283, 649
AsuII	TTCGAA	1 cut(s)	780
AvaII	GGWCC	2 cut(s)	304, 372
BaeGI	GKGCMC	1 cut(s)	411
BanI	GGYRCC	1 cut(s)	275
BanII	GRGCYC	2 cut(s)	138, 411
BbsI	GAAGAC	3 cut(s)	347, 554, 608
Bbv12I	GWGCWC	1 cut(s)	138
BceAI	ACGGC	2 cut(s)	212, 486
BciT130I	CCWGG	3 cut(s)	355, 418, 685
BcnI	CCSGG	2 cut(s)	370, 387
BcoDI	GTCTC	3 cut(s)	176, 734, 782
BisI	GCNGC	5 cut(s)	274, 298, 455, 486, 567
BlpI	GCTNAGC	1 cut(s)	132
BlsI	GCNGC	5 cut(s)	275, 299, 456, 487, 568
Bme1390I	CCNGG	5 cut(s)	355, 370, 387, 418, 685
Bme18I	GGWCC	2 cut(s)	304, 372
BmgT120I	GGNCC	5 cut(s)	304, 351, 372, 407, 408
BmiI	GGNNCC	3 cut(s)	277, 374, 409
BmrFI	CCNGG	5 cut(s)	355, 370, 387, 418, 685
BmsI	GCATC	1 cut(s)	438
BpiI	GAAGAC	3 cut(s)	347, 554, 608
BpmI	CTGGAG	3 cut(s)	242, 445, 641
Bpu1102I	GCTNAGC	1 cut(s)	132
Bpu14I	TTCGAA	1 cut(s)	780
BpuEI	CTTGAG	1 cut(s)	182
BpuMI	CCSGG	2 cut(s)	370, 387
BsaI	GGTCTC	1 cut(s)	176
BsaJI	CCNNGG	5 cut(s)	295, 307, 416, 417, 683
BsaXI	ACNNNNNCTCC	3 cut(s)	384, 414, 808
Bsc4I	CCNNNNNNNGG	4 cut(s)	301, 392, 417, 423
Bse118I	RCCGGY	1 cut(s)	164
Bse1I	ACTGG	1 cut(s)	428
Bse3DI	GCAATG	1 cut(s)	561
BseBI	CCWGG	3 cut(s)	355, 418, 685
BseDI	CCNNGG	5 cut(s)	295, 307, 416, 417, 683
BseGI	GGATG	2 cut(s)	802, 808
BseLI	CCNNNNNNNGG	4 cut(s)	301, 392, 417, 423
BseMI	GCAATG	1 cut(s)	561
BseMII	CTCAG	3 cut(s)	100, 123, 783
BseNI	ACTGG	1 cut(s)	428
BseRI	GAGGAG	3 cut(s)	25, 74, 408
BseSI	GKGCMC	1 cut(s)	411
BseYI	CCCAGC	1 cut(s)	92
Bsh1236I	CGCG	5 cut(s)	225, 240, 273, 297, 485
BshFI	GGCC	2 cut(s)	353, 409
BshNI	GGYRCC	1 cut(s)	275
BsiHKAI	GWGCWC	1 cut(s)	138
BsiSI	CCGG	4 cut(s)	165, 370, 387, 737
BslFI	GGGAC	1 cut(s)	434
BslI	CCNNNNNNNGG	4 cut(s)	301, 392, 417, 423
BsmAI	GTCTC	3 cut(s)	176, 734, 782
BsmBI	CGTCTC	1 cut(s)	734
BsmFI	GGGAC	1 cut(s)	434
BsmI	GAATGC	1 cut(s)	718
BsnI	GGCC	2 cut(s)	353, 409
Bso31I	GGTCTC	1 cut(s)	176
Bsp119I	TTCGAA	1 cut(s)	780
Bsp120I	GGGCCC	1 cut(s)	407
Bsp1286I	GDGCHC	2 cut(s)	138, 411
Bsp143I	GATC	1 cut(s)	193
Bsp1720I	GCTNAGC	1 cut(s)	132
BspANI	GGCC	2 cut(s)	353, 409
BspCNI	CTCAG	3 cut(s)	99, 124, 784
BspFNI	CGCG	5 cut(s)	225, 240, 273, 297, 485
BspLI	GGNNCC	3 cut(s)	277, 374, 409
BspT104I	TTCGAA	1 cut(s)	780
BspT107I	GGYRCC	1 cut(s)	275
BspTNI	GGTCTC	1 cut(s)	176
BsrBI	CCGCTC	1 cut(s)	379
BsrDI	GCAATG	1 cut(s)	561
BsrFI	RCCGGY	1 cut(s)	164
BsrI	ACTGG	1 cut(s)	428
BssAI	RCCGGY	1 cut(s)	164
BssECI	CCNNGG	5 cut(s)	295, 307, 416, 417, 683
BssMI	GATC	1 cut(s)	193
Bst2UI	CCWGG	3 cut(s)	355, 418, 685
Bst4CI	ACNGT	1 cut(s)	745
Bst6I	CTCTTC	1 cut(s)	61
BstBI	TTCGAA	1 cut(s)	780
BstC8I	GCNNGC	4 cut(s)	138, 223, 459, 481
BstDEI	CTNAG	3 cut(s)	86, 132, 792
BstDSI	CCRYGG	1 cut(s)	295
BstF5I	GGATG	2 cut(s)	802, 808
BstFNI	CGCG	5 cut(s)	225, 240, 273, 297, 485
BstHHI	GCGC	3 cut(s)	227, 242, 485
BstKTI	GATC	1 cut(s)	196
BstMAI	GTCTC	3 cut(s)	176, 734, 782
BstMBI	GATC	1 cut(s)	193
BstMWI	GCNNNNNNNGC	4 cut(s)	137, 331, 485, 583
BstNI	CCWGG	3 cut(s)	355, 418, 685
BstSCI	CCNGG	5 cut(s)	353, 368, 385, 416, 683
BstSLI	GKGCMC	1 cut(s)	411
BstUI	CGCG	5 cut(s)	225, 240, 273, 297, 485
BstV2I	GAAGAC	3 cut(s)	347, 554, 608
BsuRI	GGCC	2 cut(s)	353, 409
BtgI	CCRYGG	1 cut(s)	295
BtgZI	GCGATG	2 cut(s)	534, 584
BtsCI	GGATG	2 cut(s)	802, 808
Cac8I	GCNNGC	4 cut(s)	138, 223, 459, 481
CaiI	CAGNNNCTG	1 cut(s)	423
CfoI	GCGC	3 cut(s)	227, 242, 485
Cfr10I	RCCGGY	1 cut(s)	164
Cfr13I	GGNCC	5 cut(s)	304, 351, 372, 407, 408
Cfr42I	CCGCGG	1 cut(s)	298
CseI	GACGC	2 cut(s)	257, 697
DdeI	CTNAG	3 cut(s)	86, 132, 792
DpnI	GATC	1 cut(s)	195
DpnII	GATC	1 cut(s)	193
Eam1104I	CTCTTC	1 cut(s)	61
EarI	CTCTTC	1 cut(s)	61
EciI	GGCGGA	5 cut(s)	64, 193, 327, 405, 503
Ecl136II	GAGCTC	1 cut(s)	136
Eco24I	GRGCYC	2 cut(s)	138, 411
Eco31I	GGTCTC	1 cut(s)	176
Eco47I	GGWCC	2 cut(s)	304, 372
Eco53kI	GAGCTC	1 cut(s)	136
EcoICRI	GAGCTC	1 cut(s)	136
EcoRII	CCWGG	3 cut(s)	353, 416, 683
EcoT38I	GRGCYC	2 cut(s)	138, 411
Esp3I	CGTCTC	1 cut(s)	734
FaiI	YATR	2 cut(s)	617, 768
FalI	AAGNNNNNCTT	2 cut(s)	593, 625
FaqI	GGGAC	1 cut(s)	434
FauI	CCCGC	4 cut(s)	230, 302, 339, 384
Fnu4HI	GCNGC	5 cut(s)	274, 298, 455, 486, 567
FokI	GGATG	2 cut(s)	809, 815
FriOI	GRGCYC	2 cut(s)	138, 411
Fsp4HI	GCNGC	5 cut(s)	274, 298, 455, 486, 567
GlaI	GCGC	3 cut(s)	226, 241, 484
GluI	GCNGC	5 cut(s)	274, 298, 455, 486, 567
GsaI	CCCAGC	1 cut(s)	96
GsuI	CTGGAG	3 cut(s)	242, 445, 641
HaeIII	GGCC	2 cut(s)	353, 409
HapII	CCGG	4 cut(s)	165, 370, 387, 737
HgaI	GACGC	2 cut(s)	257, 697
HhaI	GCGC	3 cut(s)	227, 242, 485
Hin6I	GCGC	3 cut(s)	225, 240, 483
HinP1I	GCGC	3 cut(s)	225, 240, 483
HincII	GTYRAC	1 cut(s)	678
HindII	GTYRAC	1 cut(s)	678
HindIII	AAGCTT	1 cut(s)	641
HinfI	GANTC	3 cut(s)	396, 694, 727
HpaII	CCGG	4 cut(s)	165, 370, 387, 737
HphI	GGTGA	4 cut(s)	22, 154, 283, 649
Hpy166II	GTNNAC	3 cut(s)	235, 678, 748
Hpy188I	TCNGA	3 cut(s)	89, 308, 383
Hpy188III	TCNNGA	2 cut(s)	259, 433
Hpy8I	GTNNAC	3 cut(s)	235, 678, 748
Hpy99I	CGWCG	4 cut(s)	233, 273, 472, 556
HpyAV	CCTTC	8 cut(s)	34, 169, 196, 619, 756, 776, 806, 815
HpyCH4III	ACNGT	1 cut(s)	745
HpyF10VI	GCNNNNNNNGC	4 cut(s)	137, 331, 485, 583
HpyF3I	CTNAG	3 cut(s)	86, 132, 792
HspAI	GCGC	3 cut(s)	225, 240, 483
KspI	CCGCGG	1 cut(s)	298
Kzo9I	GATC	1 cut(s)	193
LmnI	GCTCC	3 cut(s)	101, 384, 426
LweI	GCATC	1 cut(s)	438
MalI	GATC	1 cut(s)	195
MbiI	CCGCTC	1 cut(s)	379
MboI	GATC	1 cut(s)	193
MhlI	GDGCHC	2 cut(s)	138, 411
MlyI	GAGTC	1 cut(s)	405
MmeI	TCCRAC	2 cut(s)	406, 516
MseI	TTAA	1 cut(s)	438
MslI	CAYNNNNRTG	1 cut(s)	500
MspA1I	CMGCKG	2 cut(s)	131, 297
MspI	CCGG	4 cut(s)	165, 370, 387, 737
MspR9I	CCNGG	5 cut(s)	355, 370, 387, 418, 685
Mva1269I	GAATGC	1 cut(s)	718
MvaI	CCWGG	3 cut(s)	355, 418, 685
MvnI	CGCG	5 cut(s)	225, 240, 273, 297, 485
MwoI	GCNNNNNNNGC	4 cut(s)	137, 331, 485, 583
NciI	CCSGG	2 cut(s)	370, 387
NdeII	GATC	1 cut(s)	193
NlaIV	GGNNCC	3 cut(s)	277, 374, 409
NspV	TTCGAA	1 cut(s)	780
OliI	CACNNNNGTG	1 cut(s)	500
PasI	CCCWGGG	1 cut(s)	417
PcsI	WCGNNNNNNNCGW	1 cut(s)	476
PctI	GAATGC	1 cut(s)	718
PfeI	GAWTC	2 cut(s)	694, 727
PflFI	GACNNNGTC	1 cut(s)	173
PflMI	CCANNNNNTGG	1 cut(s)	423
PkrI	GCNGC	5 cut(s)	275, 299, 456, 487, 568
PleI	GAGTC	1 cut(s)	404
PpsI	GAGTC	1 cut(s)	404
Psp124BI	GAGCTC	1 cut(s)	138
Psp6I	CCWGG	3 cut(s)	353, 416, 683
PspFI	CCCAGC	1 cut(s)	92
PspGI	CCWGG	3 cut(s)	353, 416, 683
PspN4I	GGNNCC	3 cut(s)	277, 374, 409
PspOMI	GGGCCC	1 cut(s)	407
PspPI	GGNCC	5 cut(s)	304, 351, 372, 407, 408
PstNI	CAGNNNCTG	1 cut(s)	423
PsyI	GACNNNGTC	1 cut(s)	173
RseI	CAYNNNNRTG	1 cut(s)	500
SacI	GAGCTC	1 cut(s)	138
SacII	CCGCGG	1 cut(s)	298
SaqAI	TTAA	1 cut(s)	438
SatI	GCNGC	5 cut(s)	274, 298, 455, 486, 567
Sau3AI	GATC	1 cut(s)	193
Sau96I	GGNCC	5 cut(s)	304, 351, 372, 407, 408
SchI	GAGTC	1 cut(s)	405
ScrFI	CCNGG	5 cut(s)	355, 370, 387, 418, 685
SduI	GDGCHC	2 cut(s)	138, 411
SfaNI	GCATC	1 cut(s)	438
Sfr303I	CCGCGG	1 cut(s)	298
SfuI	TTCGAA	1 cut(s)	780
SgrAI	CRCCGGYG	1 cut(s)	164
SgrBI	CCGCGG	1 cut(s)	298
SinI	GGWCC	2 cut(s)	304, 372
SmiMI	CAYNNNNRTG	1 cut(s)	500
SmlI	CTYRAG	1 cut(s)	197
SmoI	CTYRAG	1 cut(s)	197
SspI	AATATT	1 cut(s)	658
SstI	GAGCTC	1 cut(s)	138
StyD4I	CCNGG	5 cut(s)	353, 368, 385, 416, 683
TaaI	ACNGT	1 cut(s)	745
TaqI	TCGA	5 cut(s)	192, 365, 467, 647, 780
TauI	GCSGC	5 cut(s)	276, 300, 457, 488, 569
TfiI	GAWTC	2 cut(s)	694, 727
Tru1I	TTAA	1 cut(s)	438
Tru9I	TTAA	1 cut(s)	438
TspDTI	ATGAA	3 cut(s)	550, 587, 819
TspGWI	ACGGA	1 cut(s)	569
Tth111I	GACNNNGTC	1 cut(s)	173
Van91I	CCANNNNNTGG	1 cut(s)	423
VpaK11BI	GGWCC	2 cut(s)	304, 372

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