Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5B

Orthogroup ID

OG0004823

Physical Location & Seq

Genomic Coordinates Reverse (-)

74667033 .. 74669342

Gene Structure 2310 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5BG468500.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 876 bp

ATGGCGACCTCCTCATCACTCTCTTTCTTCACCTCCTCAATCTTCCTCACTTCCTCTTACCACAAACCCCTCTCCCCCACCTTCCTCAGACCCAACTCCCTCAAATCCCCCAAACCCCTAACCCTAACCGCCGAGCTAGCCACCCTCCCCGTCCTCTCCTTCACCGGCGACAAGGTCGGCGAGACCTTCCTCGACCTCAAGTCCGCCCTCCCCGACACCGCCCGCGCCGTCGTCCACCGCGCCGTTATCCACGACCTCCAGAACAAGCGCCGCGGCACCGCCTCCACCCTCACCCGCGGCGAGGTCCGAGGCGGAGGCAGAAAGCCCTACCCGCAGAAGAAGACCGGTCGGGCCAGGCAGGGCTCGACCCGGACCCCGCTCCGACCCGGCGGAGGAGTCGTGTTCGGGCCCAAGCCCAGGGACTGGAGCATCAAGATTAACCGCAAGGAGAAGCGGCTGGCGATTTCGACGGCGGTGGCGAGCGCGGCGGAGAACACGATTGTGGTGGAGGATTTCAGCGATGAGTTTGAGAGGTTGGAGAAGCCGAAGACGACGGAGTTCATTGCAGCGATGAAGAGGTGGGGGCTTGATCCCAAGGAGAAGACGACCTTCTTTATGCTGGAGGTTGCGGATAAGGTGAAGCTTTCGAGTAGGAATATTGGAACTTTGAAGATGTTGACTCCCAGGACGCTGAATTTGTTTGATATTTTGAATGCTGATAAGTTGATTCTCACGCCGGAGACGGTGGATTATTTGAATGGAAGGTATGGGGTTGATTTCGAAGGCGAGACTGAGGATGAGGATGAAGAAGATGCAGGGGAAGAACAAGGGACTGAAGGAGCTGTGGAGGATGAGAGTTCTGATGCAGCAGAATGA

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

291

Amino Acids

32.05

Weight (kDa)

6.4

Isoelectric Point (pI)

38.26

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Ribosomal_L4	PF00573	74 - 254	9.9e-56	Ribosomal protein L4/L1 family

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: 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
AclWI	GGATC	1 cut(s)	584
AcsI	RAATTY	1 cut(s)	694
AcuI	CTGAAG	1 cut(s)	855
AfiI	CCNNNNNNNGG	4 cut(s)	301, 392, 417, 423
AgeI	ACCGGT	1 cut(s)	344
AgsI	TTSAA	3 cut(s)	670, 712, 757
AhdI	GACNNNNNGTC	1 cut(s)	199
AjnI	CCWGG	3 cut(s)	353, 416, 683
AleI	CACNNNNGTG	1 cut(s)	500
AluBI	AGCT	3 cut(s)	136, 643, 842
AluI	AGCT	3 cut(s)	136, 643, 842
Alw26I	GTCTC	3 cut(s)	176, 734, 782
AlwI	GGATC	1 cut(s)	584
AlwNI	CAGNNNCTG	1 cut(s)	423
AoxI	GGCC	2 cut(s)	351, 407
ApaI	GGGCCC	1 cut(s)	411
ApeKI	GCWGC	2 cut(s)	566, 866
ApoI	RAATTY	1 cut(s)	694
ArsI	GACNNNNNNTTYG	2 cut(s)	679, 711
AsiGI	ACCGGT	1 cut(s)	344
AspLEI	GCGC	4 cut(s)	227, 242, 270, 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
AsuNHI	GCTAGC	1 cut(s)	136
AvaII	GGWCC	2 cut(s)	304, 372
BaeGI	GKGCMC	1 cut(s)	411
BanI	GGYRCC	1 cut(s)	275
BanII	GRGCYC	2 cut(s)	365, 411
BbsI	GAAGAC	3 cut(s)	347, 554, 608
BbvI	GCAGC	1 cut(s)	578
BceAI	ACGGC	3 cut(s)	212, 227, 486
BciT130I	CCWGG	3 cut(s)	355, 418, 685
BcnI	CCSGG	2 cut(s)	370, 387
BcoDI	GTCTC	3 cut(s)	176, 734, 782
BfaI	CTAG	1 cut(s)	137
BfoI	RGCGCY	1 cut(s)	271
BisI	GCNGC	7 cut(s)	271, 274, 298, 455, 486, 567, 867
BlsI	GCNGC	7 cut(s)	272, 275, 299, 456, 487, 568, 868
Bme1390I	CCNGG	5 cut(s)	355, 370, 387, 418, 685
Bme18I	GGWCC	2 cut(s)	304, 372
BmeRI	GACNNNNNGTC	1 cut(s)	199
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	3 cut(s)	438, 802, 853
BmtI	GCTAGC	1 cut(s)	140
BpiI	GAAGAC	3 cut(s)	347, 554, 608
BpmI	CTGGAG	3 cut(s)	242, 445, 641
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	7 cut(s)	271, 295, 307, 416, 417, 594, 683
BsaWI	WCCGGW	1 cut(s)	344
BsaXI	ACNNNNNCTCC	2 cut(s)	384, 414
Bsc4I	CCNNNNNNNGG	4 cut(s)	301, 392, 417, 423
Bse118I	RCCGGY	2 cut(s)	164, 344
Bse1I	ACTGG	1 cut(s)	428
Bse3DI	GCAATG	1 cut(s)	561
BseBI	CCWGG	3 cut(s)	355, 418, 685
BseDI	CCNNGG	7 cut(s)	271, 295, 307, 416, 417, 594, 683
BseGI	GGATG	3 cut(s)	802, 808, 856
BseLI	CCNNNNNNNGG	4 cut(s)	301, 392, 417, 423
BseMI	GCAATG	1 cut(s)	561
BseMII	CTCAG	2 cut(s)	100, 783
BseNI	ACTGG	1 cut(s)	428
BseRI	GAGGAG	2 cut(s)	25, 408
BseSI	GKGCMC	1 cut(s)	411
BseXI	GCAGC	1 cut(s)	578
Bsh1236I	CGCG	5 cut(s)	225, 240, 273, 297, 485
Bsh1285I	CGRYCG	1 cut(s)	349
BshFI	GGCC	2 cut(s)	353, 409
BshNI	GGYRCC	1 cut(s)	275
BshTI	ACCGGT	1 cut(s)	344
BsiEI	CGRYCG	1 cut(s)	349
BsiSI	CCGG	5 cut(s)	165, 345, 370, 387, 737
BslFI	GGGAC	2 cut(s)	434, 844
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	2 cut(s)	434, 844
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)	365, 411
Bsp143I	GATC	1 cut(s)	589
BspANI	GGCC	2 cut(s)	353, 409
BspCNI	CTCAG	2 cut(s)	99, 784
BspFNI	CGCG	5 cut(s)	225, 240, 273, 297, 485
BspLI	GGNNCC	3 cut(s)	277, 374, 409
BspOI	GCTAGC	1 cut(s)	140
BspPI	GGATC	1 cut(s)	584
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	2 cut(s)	164, 344
BsrI	ACTGG	1 cut(s)	428
BssAI	RCCGGY	2 cut(s)	164, 344
BssECI	CCNNGG	7 cut(s)	271, 295, 307, 416, 417, 594, 683
BssMI	GATC	1 cut(s)	589
BssT1I	CCWWGG	1 cut(s)	594
Bst2UI	CCWGG	3 cut(s)	355, 418, 685
Bst4CI	ACNGT	1 cut(s)	745
Bst6I	CTCTTC	1 cut(s)	569
BstBI	TTCGAA	1 cut(s)	780
BstC8I	GCNNGC	4 cut(s)	138, 223, 459, 481
BstDEI	CTNAG	2 cut(s)	86, 792
BstDSI	CCRYGG	2 cut(s)	271, 295
BstF5I	GGATG	3 cut(s)	802, 808, 856
BstFNI	CGCG	5 cut(s)	225, 240, 273, 297, 485
BstH2I	RGCGCY	1 cut(s)	271
BstHHI	GCGC	4 cut(s)	227, 242, 270, 485
BstKTI	GATC	1 cut(s)	592
BstMAI	GTCTC	3 cut(s)	176, 734, 782
BstMBI	GATC	1 cut(s)	589
BstMCI	CGRYCG	1 cut(s)	349
BstMWI	GCNNNNNNNGC	3 cut(s)	137, 331, 485
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
BstV1I	GCAGC	1 cut(s)	578
BstV2I	GAAGAC	3 cut(s)	347, 554, 608
BsuRI	GGCC	2 cut(s)	353, 409
BtgI	CCRYGG	2 cut(s)	271, 295
BtgZI	GCGATG	2 cut(s)	534, 584
BtsCI	GGATG	3 cut(s)	802, 808, 856
Cac8I	GCNNGC	4 cut(s)	138, 223, 459, 481
CaiI	CAGNNNCTG	1 cut(s)	423
CfoI	GCGC	4 cut(s)	227, 242, 270, 485
Cfr10I	RCCGGY	2 cut(s)	164, 344
Cfr13I	GGNCC	5 cut(s)	304, 351, 372, 407, 408
Cfr42I	CCGCGG	2 cut(s)	274, 298
CseI	GACGC	1 cut(s)	697
CspAI	ACCGGT	1 cut(s)	344
DdeI	CTNAG	2 cut(s)	86, 792
DpnI	GATC	1 cut(s)	591
DpnII	GATC	1 cut(s)	589
DriI	GACNNNNNGTC	1 cut(s)	199
Eam1104I	CTCTTC	1 cut(s)	569
Eam1105I	GACNNNNNGTC	1 cut(s)	199
EarI	CTCTTC	1 cut(s)	569
EciI	GGCGGA	4 cut(s)	193, 327, 405, 503
Eco130I	CCWWGG	1 cut(s)	594
Eco24I	GRGCYC	2 cut(s)	365, 411
Eco31I	GGTCTC	1 cut(s)	176
Eco47I	GGWCC	2 cut(s)	304, 372
Eco57I	CTGAAG	1 cut(s)	855
EcoRII	CCWGG	3 cut(s)	353, 416, 683
EcoT14I	CCWWGG	1 cut(s)	594
EcoT38I	GRGCYC	2 cut(s)	365, 411
ErhI	CCWWGG	1 cut(s)	594
Esp3I	CGTCTC	1 cut(s)	734
FaiI	YATR	2 cut(s)	617, 768
FalI	AAGNNNNNCTT	2 cut(s)	593, 625
FaqI	GGGAC	2 cut(s)	434, 844
FauI	CCCGC	4 cut(s)	230, 302, 339, 384
Fnu4HI	GCNGC	7 cut(s)	271, 274, 298, 455, 486, 567, 867
FokI	GGATG	3 cut(s)	809, 815, 863
FriOI	GRGCYC	2 cut(s)	365, 411
Fsp4HI	GCNGC	7 cut(s)	271, 274, 298, 455, 486, 567, 867
FspBI	CTAG	1 cut(s)	137
GlaI	GCGC	4 cut(s)	226, 241, 269, 484
GluI	GCNGC	7 cut(s)	271, 274, 298, 455, 486, 567, 867
GsuI	CTGGAG	3 cut(s)	242, 445, 641
HaeII	RGCGCY	1 cut(s)	271
HaeIII	GGCC	2 cut(s)	353, 409
HapII	CCGG	5 cut(s)	165, 345, 370, 387, 737
HgaI	GACGC	1 cut(s)	697
HhaI	GCGC	4 cut(s)	227, 242, 270, 485
Hin6I	GCGC	4 cut(s)	225, 240, 268, 483
HinP1I	GCGC	4 cut(s)	225, 240, 268, 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, 679, 727
HpaII	CCGG	5 cut(s)	165, 345, 370, 387, 737
HphI	GGTGA	4 cut(s)	22, 154, 283, 649
Hpy166II	GTNNAC	2 cut(s)	235, 678
Hpy188I	TCNGA	4 cut(s)	89, 308, 383, 862
Hpy188III	TCNNGA	2 cut(s)	259, 433
Hpy8I	GTNNAC	2 cut(s)	235, 678
Hpy99I	CGWCG	3 cut(s)	233, 472, 556
HpyAV	CCTTC	7 cut(s)	91, 169, 196, 619, 756, 776, 830
HpyCH4III	ACNGT	1 cut(s)	745
HpyCH4V	TGCA	3 cut(s)	566, 815, 866
HpyF10VI	GCNNNNNNNGC	3 cut(s)	137, 331, 485
HpyF3I	CTNAG	2 cut(s)	86, 792
HspAI	GCGC	4 cut(s)	225, 240, 268, 483
KspI	CCGCGG	2 cut(s)	274, 298
Kzo9I	GATC	1 cut(s)	589
LmnI	GCTCC	3 cut(s)	384, 426, 839
Lsp1109I	GCAGC	1 cut(s)	578
LweI	GCATC	3 cut(s)	438, 802, 853
MaeI	CTAG	1 cut(s)	137
MalI	GATC	1 cut(s)	591
MbiI	CCGCTC	1 cut(s)	379
MboI	GATC	1 cut(s)	589
MhlI	GDGCHC	2 cut(s)	365, 411
MluCI	AATT	1 cut(s)	694
MlyI	GAGTC	2 cut(s)	405, 673
MmeI	TCCRAC	2 cut(s)	406, 516
MseI	TTAA	1 cut(s)	438
MslI	CAYNNNNRTG	1 cut(s)	500
MspA1I	CMGCKG	2 cut(s)	273, 297
MspI	CCGG	5 cut(s)	165, 345, 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	3 cut(s)	137, 331, 485
NciI	CCSGG	2 cut(s)	370, 387
NdeII	GATC	1 cut(s)	589
NheI	GCTAGC	1 cut(s)	136
NlaIV	GGNNCC	3 cut(s)	277, 374, 409
NmeAIII	GCCGAG	1 cut(s)	157
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	1 cut(s)	727
PflFI	GACNNNGTC	1 cut(s)	173
PflMI	CCANNNNNTGG	1 cut(s)	423
PinAI	ACCGGT	1 cut(s)	344
PkrI	GCNGC	7 cut(s)	272, 275, 299, 456, 487, 568, 868
PleI	GAGTC	2 cut(s)	404, 673
PpsI	GAGTC	2 cut(s)	404, 673
Psp6I	CCWGG	3 cut(s)	353, 416, 683
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
SacII	CCGCGG	2 cut(s)	274, 298
SaqAI	TTAA	1 cut(s)	438
SatI	GCNGC	7 cut(s)	271, 274, 298, 455, 486, 567, 867
Sau3AI	GATC	1 cut(s)	589
Sau96I	GGNCC	5 cut(s)	304, 351, 372, 407, 408
SchI	GAGTC	2 cut(s)	405, 673
ScrFI	CCNGG	5 cut(s)	355, 370, 387, 418, 685
SduI	GDGCHC	2 cut(s)	365, 411
SfaNI	GCATC	3 cut(s)	438, 802, 853
Sfr303I	CCGCGG	2 cut(s)	274, 298
SfuI	TTCGAA	1 cut(s)	780
SgrAI	CRCCGGYG	1 cut(s)	164
SgrBI	CCGCGG	2 cut(s)	274, 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
Sse9I	AATT	1 cut(s)	694
SspI	AATATT	1 cut(s)	658
SspMI	CTAG	1 cut(s)	137
StyD4I	CCNGG	5 cut(s)	353, 368, 385, 416, 683
StyI	CCWWGG	1 cut(s)	594
TaaI	ACNGT	1 cut(s)	745
TaqI	TCGA	5 cut(s)	192, 365, 467, 647, 780
TasI	AATT	1 cut(s)	694
TauI	GCSGC	5 cut(s)	273, 276, 300, 457, 488
TfiI	GAWTC	1 cut(s)	727
Tru1I	TTAA	1 cut(s)	438
Tru9I	TTAA	1 cut(s)	438
TseI	GCWGC	2 cut(s)	566, 866
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
XapI	RAATTY	1 cut(s)	694
XspI	CTAG	1 cut(s)	137

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