Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4D

Orthogroup ID

OG0008450

Physical Location & Seq

Genomic Coordinates Reverse (-)

28237711 .. 28240288

Gene Structure 2578 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4DG142600.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 678 bp

ATGTTCCTCCTCCAGCGGCGTTGCGCGTCCGCGCTCTCCGCACCCCTCCAGCTCCGCCGCTACGCCCAATCCGCCGCAGCCGCTCTCGTCGACGACGAGTCCAACCCGGAGTCCTTCCCCCGACCCGACCCGAAATACGACGAGACCATCCTTGCCGTCCCGCGCTTAACCTCCGGCAAAAGCATCGCCGCCAAAGAGCGGAAGGCCGGGCGCGTCCCCGGCATCATCTTCGAGCAAGAGGACGGCCAGCACGGCGGCAATAAGCGACTCATCTCCGTCCGCACGAACCAGATCCGCAAGCTCCTCAATCATCTCGGCCGCTCTTTCTTCCTCTCCCGCCTCTTCCACCTCGAGGTCCGCTCCGACTTCGATGCAGACGACGTCGTTGAGAAAGTCCGCGTTTTACCGCGCTTGATTCATCTGCACTCGAGCACCGATGCTCCGCTTAATGTGACCTTCATAAGGGCCCCTTCAAATGCTTTGTTGAAAGTCGAAATTCCTCTTGTATTCAGAGGAGATGATATCTCTCCTGGATTGAAGAAAGGTGCATATTTAAATACAATCAAGAGGACGGTAAAGTTCCTTTGCCCTGCGGATGTAATTCCTCCATATATTGATGTGGATCTGAGGATGTCATTGAATAGAAACAAAGTGGGTCTGCACCGAAATTCCGTGTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

ko03010 map03010

Pfam Domains

Protein Families

Ribosomal_L25p Ribosomal_TL5_C

Protein Analysis

225

Amino Acids

25.21

Weight (kDa)

9.95

Isoelectric Point (pI)

46.45

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Ribosomal_L25p	PF01386	52 - 153	2e-09	Ribosomal L25p family
Ribosomal_TL5_C	PF14693	162 - 209	8.5e-09	Ribosomal protein TL5, C-terminal domain

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

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

Orthologous Genes (Group: OG0008450)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G23620 AT4G23620
fragaria_vesca	FvH4_4g11490
malus_domestica	MD12G1010000.v1.1 MD14G1007200.v1.1
prunus_persica	Prupe.1G080900_v2.0.a1 Prupe.1G080900_v2.0.a1 Prupe.1G563200_v2.0.a1
pyrus_communis	pycom12g00760 pycom14g00570
rosa_chinensis	RchiOBHm_Chr4g0408271 RchiOBHm_Chr4g0408291
rosa_laevigata	RLG00000008657
rosa_multiflora	Rmu_sc0018903.1_g000008
rosa_roxburghii	Rroxscaffold_5G00352790 Rroxscaffold_5G00352830
rosa_rugosa	Rorug04G0085100
rosa_samantha	Rh4AG149600 Rh4AG149800 Rh4CG156800 Rh4CG157100 Rh4DG142600
rosa_wichuraiana	Rw0G000420

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AatII	GACGTC	1 cut(s)	384
AbsI	CCTCGAGG	1 cut(s)	350
AccBSI	CCGCTC	4 cut(s)	83, 199, 321, 360
AccI	GTMKAC	1 cut(s)	90
AccII	CGCG	6 cut(s)	26, 32, 163, 213, 399, 409
AclWI	GGATC	2 cut(s)	286, 630
AcoI	YGGCCR	2 cut(s)	244, 316
AcsI	RAATTY	2 cut(s)	495, 667
AcyI	GRCGYC	1 cut(s)	381
AfiI	CCNNNNNNNGG	3 cut(s)	198, 352, 462
AgsI	TTSAA	4 cut(s)	474, 487, 538, 640
AhdI	GACNNNNNGTC	1 cut(s)	97
AjnI	CCWGG	1 cut(s)	529
AluBI	AGCT	2 cut(s)	52, 301
AluI	AGCT	2 cut(s)	52, 301
Alw21I	GWGCWC	1 cut(s)	434
Alw26I	GTCTC	1 cut(s)	137
AlwI	GGATC	2 cut(s)	286, 630
Ama87I	CYCGRG	2 cut(s)	350, 427
AoxI	GGCC	4 cut(s)	204, 244, 316, 465
ApaI	GGGCCC	1 cut(s)	469
ApeKI	GCWGC	1 cut(s)	77
ApoI	RAATTY	2 cut(s)	495, 667
AspLEI	GCGC	5 cut(s)	26, 34, 165, 213, 411
AspS9I	GGNCC	3 cut(s)	355, 465, 466
AsuC2I	CCSGG	3 cut(s)	107, 208, 219
AvaI	CYCGRG	2 cut(s)	350, 427
AvaII	GGWCC	1 cut(s)	355
BaeGI	GKGCMC	1 cut(s)	469
BanII	GRGCYC	1 cut(s)	469
Bbv12I	GWGCWC	1 cut(s)	434
BbvI	GCAGC	1 cut(s)	89
BccI	CCATC	1 cut(s)	155
BceAI	ACGGC	3 cut(s)	140, 259, 268
BcgI	CGANNNNNNTGC	6 cut(s)	166, 200, 211, 245, 353, 387
BciT130I	CCWGG	1 cut(s)	531
BcnI	CCSGG	3 cut(s)	107, 208, 219
BcoDI	GTCTC	1 cut(s)	137
BglI	GCCNNNNNGGC	1 cut(s)	252
BisI	GCNGC	8 cut(s)	17, 58, 75, 78, 81, 189, 256, 319
BlsI	GCNGC	8 cut(s)	18, 59, 76, 79, 82, 190, 257, 320
Bme1390I	CCNGG	4 cut(s)	107, 208, 219, 531
Bme18I	GGWCC	1 cut(s)	355
BmeRI	GACNNNNNGTC	1 cut(s)	97
BmeT110I	CYCGRG	2 cut(s)	350, 427
BmgT120I	GGNCC	3 cut(s)	355, 465, 466
BmiI	GGNNCC	2 cut(s)	467, 468
BmrFI	CCNGG	4 cut(s)	107, 208, 219, 531
BmsI	GCATC	4 cut(s)	192, 231, 361, 427
BplI	GAGNNNNNCTC	2 cut(s)	344, 376
BpmI	CTGGAG	1 cut(s)	32
BpuMI	CCSGG	3 cut(s)	107, 208, 219
BsaBI	GATNNNNATC	1 cut(s)	621
BsaHI	GRCGYC	1 cut(s)	381
BsaI	GGTCTC	1 cut(s)	137
BsaJI	CCNNGG	1 cut(s)	217
BsaXI	ACNNNNNCTCC	2 cut(s)	424, 454
Bsc4I	CCNNNNNNNGG	3 cut(s)	198, 352, 462
Bse8I	GATNNNNATC	1 cut(s)	621
BseBI	CCWGG	1 cut(s)	531
BseDI	CCNNGG	1 cut(s)	217
BseGI	GGATG	3 cut(s)	147, 601, 636
BseJI	GATNNNNATC	1 cut(s)	621
BseLI	CCNNNNNNNGG	3 cut(s)	198, 352, 462
BseMII	CTCAG	1 cut(s)	617
BseRI	GAGGAG	2 cut(s)	293, 528
BseSI	GKGCMC	1 cut(s)	469
BseX3I	CGGCCG	1 cut(s)	316
BseXI	GCAGC	1 cut(s)	89
BsgI	GTGCAG	2 cut(s)	407, 644
Bsh1236I	CGCG	6 cut(s)	26, 32, 163, 213, 399, 409
Bsh1285I	CGRYCG	1 cut(s)	319
BshFI	GGCC	4 cut(s)	206, 246, 318, 467
BsiEI	CGRYCG	1 cut(s)	319
BsiHKAI	GWGCWC	1 cut(s)	434
BsiHKCI	CYCGRG	2 cut(s)	350, 427
BsiSI	CCGG	4 cut(s)	107, 174, 207, 219
BslFI	GGGAC	2 cut(s)	143, 200
BslI	CCNNNNNNNGG	3 cut(s)	198, 352, 462
BsmAI	GTCTC	1 cut(s)	137
BsmFI	GGGAC	2 cut(s)	143, 200
BsnI	GGCC	4 cut(s)	206, 246, 318, 467
Bso31I	GGTCTC	1 cut(s)	137
BsoBI	CYCGRG	2 cut(s)	350, 427
Bsp120I	GGGCCC	1 cut(s)	465
Bsp1286I	GDGCHC	2 cut(s)	434, 469
Bsp143I	GATC	2 cut(s)	291, 622
BspANI	GGCC	4 cut(s)	206, 246, 318, 467
BspCNI	CTCAG	1 cut(s)	618
BspFNI	CGCG	6 cut(s)	26, 32, 163, 213, 399, 409
BspLI	GGNNCC	2 cut(s)	467, 468
BspPI	GGATC	2 cut(s)	286, 630
BspTNI	GGTCTC	1 cut(s)	137
BsrBI	CCGCTC	4 cut(s)	83, 199, 321, 360
BssECI	CCNNGG	1 cut(s)	217
BssMI	GATC	2 cut(s)	291, 622
BssNI	GRCGYC	1 cut(s)	381
Bst2UI	CCWGG	1 cut(s)	531
Bst4CI	ACNGT	1 cut(s)	574
Bst6I	CTCTTC	1 cut(s)	347
BstACI	GRCGYC	1 cut(s)	381
BstC8I	GCNNGC	2 cut(s)	248, 299
BstDEI	CTNAG	1 cut(s)	626
BstENI	CCTNNNNNAGG	1 cut(s)	460
BstF5I	GGATG	3 cut(s)	147, 601, 636
BstFNI	CGCG	6 cut(s)	26, 32, 163, 213, 399, 409
BstHHI	GCGC	5 cut(s)	26, 34, 165, 213, 411
BstKTI	GATC	2 cut(s)	294, 625
BstMAI	GTCTC	1 cut(s)	137
BstMBI	GATC	2 cut(s)	291, 622
BstMCI	CGRYCG	1 cut(s)	319
BstMWI	GCNNNNNNNGC	5 cut(s)	38, 71, 80, 219, 252
BstNI	CCWGG	1 cut(s)	531
BstSCI	CCNGG	4 cut(s)	105, 206, 217, 529
BstSLI	GKGCMC	1 cut(s)	469
BstUI	CGCG	6 cut(s)	26, 32, 163, 213, 399, 409
BstV1I	GCAGC	1 cut(s)	89
BstX2I	RGATCY	2 cut(s)	291, 622
BstYI	RGATCY	2 cut(s)	291, 622
BstZI	CGGCCG	1 cut(s)	316
BsuRI	GGCC	4 cut(s)	206, 246, 318, 467
BtgZI	GCGATG	1 cut(s)	169
BtsCI	GGATG	3 cut(s)	147, 601, 636
Cac8I	GCNNGC	2 cut(s)	248, 299
CfoI	GCGC	5 cut(s)	26, 34, 165, 213, 411
Cfr13I	GGNCC	3 cut(s)	355, 465, 466
CseI	GACGC	2 cut(s)	15, 202
CviJI	RGCY	7 cut(s)	52, 80, 206, 246, 301, 318, 467
CviKI_1	RGCY	7 cut(s)	52, 80, 206, 246, 301, 318, 467
DdeI	CTNAG	1 cut(s)	626
DpnI	GATC	2 cut(s)	293, 624
DpnII	GATC	2 cut(s)	291, 622
DraI	TTTAAA	1 cut(s)	555
DriI	GACNNNNNGTC	1 cut(s)	97
EaeI	YGGCCR	2 cut(s)	244, 316
EagI	CGGCCG	1 cut(s)	316
Eam1104I	CTCTTC	1 cut(s)	347
Eam1105I	GACNNNNNGTC	1 cut(s)	97
EarI	CTCTTC	1 cut(s)	347
EciI	GGCGGA	2 cut(s)	44, 61
EclXI	CGGCCG	1 cut(s)	316
Eco24I	GRGCYC	1 cut(s)	469
Eco31I	GGTCTC	1 cut(s)	137
Eco32I	GATATC	1 cut(s)	523
Eco47I	GGWCC	1 cut(s)	355
Eco52I	CGGCCG	1 cut(s)	316
Eco88I	CYCGRG	2 cut(s)	350, 427
EcoNI	CCTNNNNNAGG	1 cut(s)	460
EcoO109I	RGGNCCY	2 cut(s)	465, 466
EcoRII	CCWGG	1 cut(s)	529
EcoRV	GATATC	1 cut(s)	523
EcoT38I	GRGCYC	1 cut(s)	469
FaiI	YATR	4 cut(s)	461, 550, 610, 612
FalI	AAGNNNNNCTT	2 cut(s)	454, 486
FaqI	GGGAC	2 cut(s)	143, 200
FauI	CCCGC	2 cut(s)	168, 344
FblI	GTMKAC	1 cut(s)	90
Fnu4HI	GCNGC	8 cut(s)	17, 58, 75, 78, 81, 189, 256, 319
FokI	GGATG	3 cut(s)	134, 608, 643
FriOI	GRGCYC	1 cut(s)	469
Fsp4HI	GCNGC	8 cut(s)	17, 58, 75, 78, 81, 189, 256, 319
GlaI	GCGC	5 cut(s)	25, 33, 164, 212, 410
GluI	GCNGC	8 cut(s)	17, 58, 75, 78, 81, 189, 256, 319
GsuI	CTGGAG	1 cut(s)	32
HaeIII	GGCC	4 cut(s)	206, 246, 318, 467
HapII	CCGG	4 cut(s)	107, 174, 207, 219
HgaI	GACGC	2 cut(s)	15, 202
HhaI	GCGC	5 cut(s)	26, 34, 165, 213, 411
Hin1I	GRCGYC	1 cut(s)	381
Hin6I	GCGC	5 cut(s)	24, 32, 163, 211, 409
HinP1I	GCGC	5 cut(s)	24, 32, 163, 211, 409
HincII	GTYRAC	1 cut(s)	91
HindII	GTYRAC	1 cut(s)	91
HinfI	GANTC	4 cut(s)	98, 110, 267, 415
HpaII	CCGG	4 cut(s)	107, 174, 207, 219
Hpy166II	GTNNAC	1 cut(s)	91
Hpy188I	TCNGA	3 cut(s)	364, 512, 627
Hpy188III	TCNNGA	1 cut(s)	565
Hpy8I	GTNNAC	1 cut(s)	91
Hpy99I	CGWCG	6 cut(s)	92, 95, 98, 143, 383, 386
HpyAV	CCTTC	4 cut(s)	124, 196, 466, 480
HpyCH4III	ACNGT	1 cut(s)	574
HpyCH4IV	ACGT	1 cut(s)	381
HpyCH4V	TGCA	4 cut(s)	374, 424, 548, 661
HpyF10VI	GCNNNNNNNGC	5 cut(s)	38, 71, 80, 219, 252
HpyF3I	CTNAG	1 cut(s)	626
HpySE526I	ACGT	1 cut(s)	381
Hsp92I	GRCGYC	1 cut(s)	381
HspAI	GCGC	5 cut(s)	24, 32, 163, 211, 409
Kzo9I	GATC	2 cut(s)	291, 622
LmnI	GCTCC	4 cut(s)	57, 306, 365, 445
Lsp1109I	GCAGC	1 cut(s)	89
LweI	GCATC	4 cut(s)	192, 231, 361, 427
MaeII	ACGT	1 cut(s)	381
MaeIII	GTNAC	1 cut(s)	451
MalI	GATC	2 cut(s)	293, 624
MbiI	CCGCTC	4 cut(s)	83, 199, 321, 360
MboI	GATC	2 cut(s)	291, 622
MboII	GAAGA	4 cut(s)	220, 319, 334, 550
MflI	RGATCY	2 cut(s)	291, 622
MhlI	GDGCHC	2 cut(s)	434, 469
MluCI	AATT	3 cut(s)	495, 600, 667
MlyI	GAGTC	3 cut(s)	107, 119, 261
MmeI	TCCRAC	2 cut(s)	126, 387
MseI	TTAA	3 cut(s)	167, 447, 554
MspA1I	CMGCKG	1 cut(s)	16
MspI	CCGG	4 cut(s)	107, 174, 207, 219
MspR9I	CCNGG	4 cut(s)	107, 208, 219, 531
MvaI	CCWGG	1 cut(s)	531
MvnI	CGCG	6 cut(s)	26, 32, 163, 213, 399, 409
MwoI	GCNNNNNNNGC	5 cut(s)	38, 71, 80, 219, 252
NciI	CCSGG	3 cut(s)	107, 208, 219
NdeII	GATC	2 cut(s)	291, 622
NlaIV	GGNNCC	2 cut(s)	467, 468
NmeAIII	GCCGAG	1 cut(s)	294
NmuCI	GTSAC	1 cut(s)	451
PaeR7I	CTCGAG	2 cut(s)	350, 427
PcsI	WCGNNNNNNNCGW	2 cut(s)	93, 375
PfeI	GAWTC	1 cut(s)	415
PflFI	GACNNNGTC	1 cut(s)	380
PfoI	TCCNGGA	1 cut(s)	529
PkrI	GCNGC	8 cut(s)	18, 59, 76, 79, 82, 190, 257, 320
PleI	GAGTC	3 cut(s)	106, 118, 261
PpsI	GAGTC	3 cut(s)	106, 118, 261
Psp6I	CCWGG	1 cut(s)	529
PspGI	CCWGG	1 cut(s)	529
PspN4I	GGNNCC	2 cut(s)	467, 468
PspOMI	GGGCCC	1 cut(s)	465
PspPI	GGNCC	3 cut(s)	355, 465, 466
PspXI	VCTCGAGB	2 cut(s)	350, 427
PsuI	RGATCY	2 cut(s)	291, 622
PsyI	GACNNNGTC	1 cut(s)	380
SalI	GTCGAC	1 cut(s)	89
SaqAI	TTAA	3 cut(s)	167, 447, 554
SatI	GCNGC	8 cut(s)	17, 58, 75, 78, 81, 189, 256, 319
Sau3AI	GATC	2 cut(s)	291, 622
Sau96I	GGNCC	3 cut(s)	355, 465, 466
SchI	GAGTC	3 cut(s)	107, 119, 261
ScrFI	CCNGG	4 cut(s)	107, 208, 219, 531
SduI	GDGCHC	2 cut(s)	434, 469
SetI	ASST	8 cut(s)	54, 173, 303, 351, 357, 384, 458, 547
SfaNI	GCATC	4 cut(s)	192, 231, 361, 427
Sfr274I	CTCGAG	2 cut(s)	350, 427
SgrDI	CGTCGACG	1 cut(s)	89
SinI	GGWCC	1 cut(s)	355
SlaI	CTCGAG	2 cut(s)	350, 427
SmiI	ATTTAAAT	1 cut(s)	555
SmlI	CTYRAG	2 cut(s)	350, 427
SmoI	CTYRAG	2 cut(s)	350, 427
Sse9I	AATT	3 cut(s)	495, 600, 667
StyD4I	CCNGG	4 cut(s)	105, 206, 217, 529
SwaI	ATTTAAAT	1 cut(s)	555
TaaI	ACNGT	1 cut(s)	574
TaiI	ACGT	1 cut(s)	384
TaqI	TCGA	6 cut(s)	90, 231, 351, 369, 428, 492
TasI	AATT	3 cut(s)	495, 600, 667
TauI	GCSGC	7 cut(s)	19, 60, 77, 83, 191, 258, 321
TfiI	GAWTC	1 cut(s)	415
Tru1I	TTAA	3 cut(s)	167, 447, 554
Tru9I	TTAA	3 cut(s)	167, 447, 554
TseFI	GTSAC	1 cut(s)	451
TseI	GCWGC	1 cut(s)	77
Tsp45I	GTSAC	1 cut(s)	451
TspDTI	ATGAA	2 cut(s)	407, 448
TspGWI	ACGGA	2 cut(s)	265, 661
Tth111I	GACNNNGTC	1 cut(s)	380
VpaK11BI	GGWCC	1 cut(s)	355
XagI	CCTNNNNNAGG	1 cut(s)	460
XapI	RAATTY	2 cut(s)	495, 667
XhoI	CTCGAG	2 cut(s)	350, 427
XmiI	GTMKAC	1 cut(s)	90
ZraI	GACGTC	1 cut(s)	382

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