Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr5

Orthogroup ID

OG0003009

Physical Location & Seq

Genomic Coordinates Forward (+)

47870924 .. 47871684

Gene Structure 761 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000025721

Sequence Viewer

CDS Protein Promoter (2k)

Length: 645 bp

ATGCCCGCCGAAACCGCCGTCGTCAAGGCCAAGAAGCCGCGATCGCCGCCCGCTCACCCTCCCTTCGTCGAGATGATCACGGAGGCGATTGTGGCCCTGAAGGATAGGACTGGTTCGAGCCAGTACGCCATCACCAAATTCGTGGAGGAGAAGCACAAGCAGTTGCCTCAGAGCTTCAAGAAGCTTCTGCTCCTCAACCTGAAGAAGCTCGTCGCCTCCGGCAAGCTCGTCAAGGTCAAAGGCTCCTTCAAGCTCCCTCCTCGCTCCGCCGCCGCCGCGGCTGCTCCGGCCAAGGAGAAGACCAAGCCGGAAGCTTCCAAGCCTAAGAAGTCCGCCGCCAAGACTACTACTAAGCCCAAGGCCAAAACCGTCGCGAAGCCCAAGGCGGTGGCGAAGCCGAAGACGAAGGCTTTGGCGGTGGTTGCGAAGCCCAAGGCGGCGGTGAAGCCGAAGGCCAAGGCCAAGGCGGCTAAGCCTGCTGCTGCCAAGGCGGCGAGGACGTCGTCGAGGACTTCGCCGGGAAAGAAGGTCGAGGCAAAAGCCAAGGCGGCGAAGAAGCCAGCGGCGACTAAGGTCGTGAAGAAGCCGAAGAGTGTGAAGTCTCCGGCGAAGAAGAAGGTTCAGCCAAAGAGGGGCAAGAAGTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005694 GO:0005730 GO:0005737 GO:0005739 GO:0031974 GO:0031981 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0044422 GO:0044424 GO:0044428 GO:0044444 GO:0044446 GO:0044464 GO:0070013

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Linker_histone

Protein Analysis

215

Amino Acids

22.55

Weight (kDa)

10.96

Isoelectric Point (pI)

34.73

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Linker_histone	PF00538	19 - 85	8.1e-21	linker histone H1 and H5 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

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

Orthologous Genes (Group: OG0003009)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G30620 AT2G30620
fragaria_vesca	FvH4_2g02381 FvH4_2g22280 FvH4_6g02630 FvH4_7g09410
malus_domestica	MD01G1078700.v1.1 MD04G1226600.v1.1 MD05G1204100.v1.1 MD10G1191200.v1.1 MD12G1243700.v1.1
prunus_persica	Prupe.6G345300_v2.0.a1 Prupe.8G230400_v2.0.a1
pyrus_communis	pycom04g19980 pycom05g19050 pycom10g16480 pycom12g22270
rosa_chinensis	RchiOBHm_Chr3g0450571 RchiOBHm_Chr6g0289241
rosa_laevigata	RLG00000012318 RLG00000025721
rosa_multiflora	Rmu_co8346219.1_g000001 Rmu_sc0000078.1_g000047 Rmu_sc0001527.1_g000013 Rmu_sc0005951.1_g000008
rosa_roxburghii	Rroxscaffold_6G00428260 Rroxscaffold_7G00179420
rosa_rugosa	Rorug02G0628700 Rorug06G0202300
rosa_samantha	Rh3AG029400 Rh3BG029800 Rh3CG028700 Rh3DG029500 Rh6BG320600 Rh6CG326700 Rh6DG312600
rosa_wichuraiana	Rw3G002260 Rw6G027060

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AatII	GACGTC	1 cut(s)	503
AccBSI	CCGCTC	1 cut(s)	53
AccII	CGCG	3 cut(s)	40, 278, 374
AcoI	YGGCCR	1 cut(s)	288
AcsI	RAATTY	1 cut(s)	137
AcuI	CTGAAG	2 cut(s)	119, 221
AcyI	GRCGYC	1 cut(s)	500
AfaI	GTAC	1 cut(s)	125
AfiI	CCNNNNNNNGG	1 cut(s)	632
AgsI	TTSAA	2 cut(s)	178, 250
AluBI	AGCT	6 cut(s)	174, 184, 208, 226, 253, 314
AluI	AGCT	6 cut(s)	174, 184, 208, 226, 253, 314
Alw26I	GTCTC	1 cut(s)	606
AoxI	GGCC	6 cut(s)	27, 93, 288, 360, 453, 459
ApeKI	GCWGC	3 cut(s)	281, 479, 482
ApoI	RAATTY	1 cut(s)	137
ArsI	GACNNNNNNTTYG	3 cut(s)	35, 394, 426
AsiSI	GCGATCGC	1 cut(s)	44
AspS9I	GGNCC	1 cut(s)	94
AsuC2I	CCSGG	1 cut(s)	519
AsuHPI	GGTGA	3 cut(s)	47, 124, 454
BbsI	GAAGAC	2 cut(s)	305, 407
BbvI	GCAGC	3 cut(s)	268, 466, 469
BccI	CCATC	1 cut(s)	137
BceAI	ACGGC	1 cut(s)	2
BclI	TGATCA	1 cut(s)	75
BcnI	CCSGG	1 cut(s)	519
BcoDI	GTCTC	1 cut(s)	606
BglI	GCCNNNNNGGC	4 cut(s)	278, 467, 491, 548
BlpI	GCTNAGC	1 cut(s)	471
Bme1390I	CCNGG	1 cut(s)	519
BmgT120I	GGNCC	1 cut(s)	94
BmiI	GGNNCC	1 cut(s)	244
BmrFI	CCNGG	1 cut(s)	519
BoxI	GACNNNNGTC	1 cut(s)	572
BpiI	GAAGAC	2 cut(s)	305, 407
Bpu1102I	GCTNAGC	1 cut(s)	471
BpuMI	CCSGG	1 cut(s)	519
BsaHI	GRCGYC	1 cut(s)	500
BsaJI	CCNNGG	9 cut(s)	276, 291, 357, 381, 432, 456, 462, 486, 543
Bsc4I	CCNNNNNNNGG	1 cut(s)	632
Bse1I	ACTGG	2 cut(s)	115, 121
BseDI	CCNNGG	9 cut(s)	276, 291, 357, 381, 432, 456, 462, 486, 543
BseLI	CCNNNNNNNGG	1 cut(s)	632
BseMII	CTCAG	1 cut(s)	182
BseNI	ACTGG	2 cut(s)	115, 121
BseRI	GAGGAG	3 cut(s)	161, 182, 249
BseXI	GCAGC	3 cut(s)	268, 466, 469
Bsh1236I	CGCG	3 cut(s)	40, 278, 374
Bsh1285I	CGRYCG	1 cut(s)	44
BshFI	GGCC	6 cut(s)	29, 95, 290, 362, 455, 461
BsiEI	CGRYCG	1 cut(s)	44
BsiSI	CCGG	5 cut(s)	219, 287, 308, 518, 605
BslI	CCNNNNNNNGG	1 cut(s)	632
BsmAI	GTCTC	1 cut(s)	606
BsnI	GGCC	6 cut(s)	29, 95, 290, 362, 455, 461
Bsp143I	GATC	2 cut(s)	41, 75
Bsp1720I	GCTNAGC	1 cut(s)	471
Bsp68I	TCGCGA	1 cut(s)	374
BspANI	GGCC	6 cut(s)	29, 95, 290, 362, 455, 461
BspCNI	CTCAG	1 cut(s)	181
BspFNI	CGCG	3 cut(s)	40, 278, 374
BspLI	GGNNCC	1 cut(s)	244
BsrBI	CCGCTC	1 cut(s)	53
BsrI	ACTGG	2 cut(s)	115, 121
BssECI	CCNNGG	9 cut(s)	276, 291, 357, 381, 432, 456, 462, 486, 543
BssMI	GATC	2 cut(s)	41, 75
BssNI	GRCGYC	1 cut(s)	500
BssT1I	CCWWGG	8 cut(s)	291, 357, 381, 432, 456, 462, 486, 543
Bst4CI	ACNGT	1 cut(s)	370
Bst6I	CTCTTC	1 cut(s)	584
BstACI	GRCGYC	1 cut(s)	500
BstC8I	GCNNGC	5 cut(s)	6, 51, 224, 477, 561
BstDEI	CTNAG	5 cut(s)	168, 324, 351, 471, 570
BstDSI	CCRYGG	1 cut(s)	276
BstFNI	CGCG	3 cut(s)	40, 278, 374
BstKTI	GATC	2 cut(s)	44, 78
BstMAI	GTCTC	1 cut(s)	606
BstMBI	GATC	2 cut(s)	41, 75
BstMCI	CGRYCG	1 cut(s)	44
BstPAI	GACNNNNGTC	1 cut(s)	572
BstSCI	CCNGG	1 cut(s)	517
BstUI	CGCG	3 cut(s)	40, 278, 374
BstV1I	GCAGC	3 cut(s)	268, 466, 469
BstV2I	GAAGAC	2 cut(s)	305, 407
BstXI	CCANNNNNNTGG	2 cut(s)	142, 388
BsuRI	GGCC	6 cut(s)	29, 95, 290, 362, 455, 461
BtgI	CCRYGG	1 cut(s)	276
BtuMI	TCGCGA	1 cut(s)	374
Cac8I	GCNNGC	5 cut(s)	6, 51, 224, 477, 561
Cfr13I	GGNCC	1 cut(s)	94
Cfr42I	CCGCGG	1 cut(s)	279
Csp6I	GTAC	1 cut(s)	124
CviQI	GTAC	1 cut(s)	124
DdeI	CTNAG	5 cut(s)	168, 324, 351, 471, 570
DpnI	GATC	2 cut(s)	43, 77
DpnII	GATC	2 cut(s)	41, 75
EaeI	YGGCCR	1 cut(s)	288
Eam1104I	CTCTTC	1 cut(s)	584
EarI	CTCTTC	1 cut(s)	584
EciI	GGCGGA	2 cut(s)	256, 322
Eco130I	CCWWGG	8 cut(s)	291, 357, 381, 432, 456, 462, 486, 543
Eco57I	CTGAAG	2 cut(s)	119, 221
EcoT14I	CCWWGG	8 cut(s)	291, 357, 381, 432, 456, 462, 486, 543
ErhI	CCWWGG	8 cut(s)	291, 357, 381, 432, 456, 462, 486, 543
FauI	CCCGC	2 cut(s)	13, 58
FbaI	TGATCA	1 cut(s)	75
HaeIII	GGCC	6 cut(s)	29, 95, 290, 362, 455, 461
HapII	CCGG	5 cut(s)	219, 287, 308, 518, 605
Hin1I	GRCGYC	1 cut(s)	500
HindIII	AAGCTT	2 cut(s)	182, 312
HpaII	CCGG	5 cut(s)	219, 287, 308, 518, 605
HphI	GGTGA	3 cut(s)	47, 124, 454
Hpy188I	TCNGA	1 cut(s)	171
Hpy188III	TCNNGA	4 cut(s)	70, 178, 373, 577
Hpy99I	CGWCG	6 cut(s)	23, 71, 215, 374, 505, 508
HpyAV	CCTTC	7 cut(s)	73, 94, 256, 400, 445, 520, 610
HpyCH4III	ACNGT	1 cut(s)	370
HpyCH4IV	ACGT	1 cut(s)	500
HpyF3I	CTNAG	5 cut(s)	168, 324, 351, 471, 570
HpySE526I	ACGT	1 cut(s)	500
Hsp92I	GRCGYC	1 cut(s)	500
Ksp22I	TGATCA	1 cut(s)	75
KspI	CCGCGG	1 cut(s)	279
Kzo9I	GATC	2 cut(s)	41, 75
LmnI	GCTCC	5 cut(s)	195, 248, 258, 269, 289
Lsp1109I	GCAGC	3 cut(s)	268, 466, 469
MaeII	ACGT	1 cut(s)	500
MalI	GATC	2 cut(s)	43, 77
MbiI	CCGCTC	1 cut(s)	53
MboI	GATC	2 cut(s)	41, 75
MboII	GAAGA	8 cut(s)	214, 310, 412, 565, 592, 601, 622, 625
MluCI	AATT	1 cut(s)	137
MspA1I	CMGCKG	2 cut(s)	278, 563
MspI	CCGG	5 cut(s)	219, 287, 308, 518, 605
MspR9I	CCNGG	1 cut(s)	519
MvnI	CGCG	3 cut(s)	40, 278, 374
NciI	CCSGG	1 cut(s)	519
NdeII	GATC	2 cut(s)	41, 75
NlaIV	GGNNCC	1 cut(s)	244
NruI	TCGCGA	1 cut(s)	374
PflFI	GACNNNGTC	1 cut(s)	502
Ple19I	CGATCG	1 cut(s)	44
PshAI	GACNNNNGTC	1 cut(s)	572
PspN4I	GGNNCC	1 cut(s)	244
PspPI	GGNCC	1 cut(s)	94
PsyI	GACNNNGTC	1 cut(s)	502
PvuI	CGATCG	1 cut(s)	44
RgaI	GCGATCGC	1 cut(s)	44
RruI	TCGCGA	1 cut(s)	374
RsaI	GTAC	1 cut(s)	125
RsaNI	GTAC	1 cut(s)	124
SacII	CCGCGG	1 cut(s)	279
Sau3AI	GATC	2 cut(s)	41, 75
Sau96I	GGNCC	1 cut(s)	94
ScrFI	CCNGG	1 cut(s)	519
SfaAI	GCGATCGC	1 cut(s)	44
Sfr303I	CCGCGG	1 cut(s)	279
SgfI	GCGATCGC	1 cut(s)	44
SgrBI	CCGCGG	1 cut(s)	279
Sse9I	AATT	1 cut(s)	137
StyD4I	CCNGG	1 cut(s)	517
StyI	CCWWGG	8 cut(s)	291, 357, 381, 432, 456, 462, 486, 543
TaaI	ACNGT	1 cut(s)	370
TaiI	ACGT	1 cut(s)	503
TaqI	TCGA	4 cut(s)	69, 116, 506, 531
TasI	AATT	1 cut(s)	137
TseI	GCWGC	3 cut(s)	281, 479, 482
TspGWI	ACGGA	1 cut(s)	95
Tth111I	GACNNNGTC	1 cut(s)	502
XapI	RAATTY	1 cut(s)	137
ZraI	GACGTC	1 cut(s)	501

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