Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr1

Orthogroup ID

OG0005383

Physical Location & Seq

Genomic Coordinates Reverse (-)

55128351 .. 55129318

Gene Structure 968 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000003998

Sequence Viewer

CDS Protein Promoter (2k)

Length: 645 bp

ATGCTTTACAATGGCAAGCCAGTGAACTTGACTCTTGAACAAGAGGAGGTTGCAACAATAGTTGAACCACCTGGATTATTCCGAGGCCGTGGCGAGCATCCAAAGTCAGGAAAGCAGAAGAGGCGGATTAGTCCAAGTGAAGTTACAATAAATATAGGAAAGGATGCCGAGGTTCCCGAATGCCCCATTCCGGGTGAAAGGTGGAAAGAAGTAAGGCATGACAATACTGTCACATGGTTGGCTTTCTGGAATGATCCGATCAATCCAAAGGAGTTCAAATATGTATTTCTTGCAGCCAGTAGTGCCTTGAAGGGGCAAAGCGACAAGGAGAAATATGAGAAAGCAAGGAAGTTGAAGGACTACATAGGAGATATCAGGGCTGCATACACTAGGGATTTTACAAGTAGAGATCCTGCAAAGCGGCAAATAGCTGTTGCTACGTATCTCATTGACAAACTTGCTCTGAGGGCTGGAAATGAGAAGGATGATGATGAAGCTTATACTGTTCGTTGCTGCACATTAAAAGTAGAGAATGTAAAAGCAATTCCCCCCAACTCATTAGAGTTTAACTTCCTTGGTAAAGATTCCATCCGATATGAAAATACTGTTGAAGTAGAACCTGCTGTACAAGCTAAAGTCTCATGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Topo_C_assoc Topoisom_I Topoisom_I_N

Protein Analysis

215

Amino Acids

24.26

Weight (kDa)

8.3

Isoelectric Point (pI)

33.96

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Topoisom_I_N	PF02919	21 - 97	2.9e-33	Eukaryotic DNA topoisomerase I, DNA binding fragment
Topoisom_I	PF01028	100 - 211	1.3e-45	Eukaryotic DNA topoisomerase I, catalytic core

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: OG0005383)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G55310
fragaria_vesca	FvH4_4g16730 FvH4_4g16730
malus_domestica	MD00G1109500.v1.1 MD13G1176900.v1.1 MD16G1178600.v1.1
prunus_persica	Prupe.1G146000_v2.0.a1 Prupe.1G146000_v2.0.a1 Prupe.8G003200_v2.0.a1 Prupe.8G003200_v2.0.a1 Prupe.8G003200_v2.0.a1 Prupe.8G003200_v2.0.a1 Prupe.8G003200_v2.0.a1
pyrus_communis	pycom10g21080 pycom13g15260 pycom16g15010
rosa_chinensis	RchiOBHm_Chr4g0420301
rosa_laevigata	RLG00000003998 RLG00000007777 RLG00000007780
rosa_multiflora	Rmu_sc0001767.1_g000005
rosa_roxburghii	Rroxscaffold_5G00362940
rosa_rugosa	Rorug04G0163000 Rorug04G0163100 Rorug04G0163200
rosa_samantha	Rh4AG224100 Rh4BG227100 Rh4CG238200
rosa_wichuraiana	Rw4G019300

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	1 cut(s)	227
Acc36I	ACCTGC	1 cut(s)	628
AciI	CCGC	2 cut(s)	124, 421
AclWI	GGATC	2 cut(s)	248, 404
AfaI	GTAC	1 cut(s)	627
AfiI	CCNNNNNNNGG	4 cut(s)	107, 190, 191, 312
AgsI	TTSAA	6 cut(s)	38, 65, 277, 310, 355, 611
AjnI	CCWGG	1 cut(s)	70
AluBI	AGCT	3 cut(s)	431, 497, 632
AluI	AGCT	3 cut(s)	431, 497, 632
AlwI	GGATC	2 cut(s)	248, 404
AoxI	GGCC	1 cut(s)	85
ApeKI	GCWGC	3 cut(s)	293, 380, 513
AsuC2I	CCSGG	1 cut(s)	192
AsuHPI	GGTGA	1 cut(s)	206
BbvI	GCAGC	3 cut(s)	305, 367, 500
BccI	CCATC	1 cut(s)	596
BceAI	ACGGC	1 cut(s)	72
BciT130I	CCWGG	1 cut(s)	72
BcnI	CCSGG	1 cut(s)	192
BfaI	CTAG	1 cut(s)	390
BfuAI	ACCTGC	1 cut(s)	628
BisI	GCNGC	4 cut(s)	294, 381, 422, 514
BlsI	GCNGC	4 cut(s)	295, 382, 423, 515
Bme1390I	CCNGG	2 cut(s)	72, 192
BmiI	GGNNCC	1 cut(s)	174
BmrFI	CCNGG	2 cut(s)	72, 192
BmsI	GCATC	2 cut(s)	106, 154
BpuMI	CCSGG	1 cut(s)	192
BsaAI	YACGTR	1 cut(s)	441
BsaJI	CCNNGG	4 cut(s)	82, 88, 168, 574
Bsc4I	CCNNNNNNNGG	4 cut(s)	107, 190, 191, 312
Bse1I	ACTGG	2 cut(s)	20, 297
BseBI	CCWGG	1 cut(s)	72
BseDI	CCNNGG	4 cut(s)	82, 88, 168, 574
BseGI	GGATG	4 cut(s)	97, 169, 490, 588
BseLI	CCNNNNNNNGG	4 cut(s)	107, 190, 191, 312
BseMII	CTCAG	1 cut(s)	455
BseNI	ACTGG	2 cut(s)	20, 297
BseRI	GAGGAG	1 cut(s)	59
BseXI	GCAGC	3 cut(s)	305, 367, 500
BsgI	GTGCAG	1 cut(s)	499
BshFI	GGCC	1 cut(s)	87
BsiSI	CCGG	1 cut(s)	191
BslI	CCNNNNNNNGG	4 cut(s)	107, 190, 191, 312
BsmI	GAATGC	1 cut(s)	185
BsnI	GGCC	1 cut(s)	87
Bsp1407I	TGTACA	1 cut(s)	625
Bsp143I	GATC	3 cut(s)	253, 258, 409
BspACI	CCGC	2 cut(s)	124, 421
BspANI	GGCC	1 cut(s)	87
BspCNI	CTCAG	1 cut(s)	456
BspHI	TCATGA	1 cut(s)	641
BspLI	GGNNCC	1 cut(s)	174
BspMI	ACCTGC	1 cut(s)	628
BspPI	GGATC	2 cut(s)	248, 404
BsrGI	TGTACA	1 cut(s)	625
BsrI	ACTGG	2 cut(s)	20, 297
BssECI	CCNNGG	4 cut(s)	82, 88, 168, 574
BssMI	GATC	3 cut(s)	253, 258, 409
BssT1I	CCWWGG	1 cut(s)	574
Bst2UI	CCWGG	1 cut(s)	72
Bst4CI	ACNGT	3 cut(s)	229, 505, 607
Bst6I	CTCTTC	1 cut(s)	113
BstAUI	TGTACA	1 cut(s)	625
BstBAI	YACGTR	1 cut(s)	441
BstC8I	GCNNGC	2 cut(s)	17, 95
BstDEI	CTNAG	1 cut(s)	464
BstDSI	CCRYGG	1 cut(s)	88
BstF5I	GGATG	4 cut(s)	97, 169, 490, 588
BstKTI	GATC	3 cut(s)	256, 261, 412
BstMBI	GATC	3 cut(s)	253, 258, 409
BstMWI	GCNNNNNNNGC	4 cut(s)	121, 302, 467, 629
BstNI	CCWGG	1 cut(s)	72
BstSCI	CCNGG	2 cut(s)	70, 190
BstSNI	TACGTA	1 cut(s)	441
BstV1I	GCAGC	3 cut(s)	305, 367, 500
BstX2I	RGATCY	1 cut(s)	409
BstYI	RGATCY	1 cut(s)	409
BsuRI	GGCC	1 cut(s)	87
BtgI	CCRYGG	1 cut(s)	88
BtsCI	GGATG	4 cut(s)	97, 169, 490, 588
BtsIMutI	CAGTG	1 cut(s)	27
BveI	ACCTGC	1 cut(s)	628
Cac8I	GCNNGC	2 cut(s)	17, 95
CciI	TCATGA	1 cut(s)	641
Csp6I	GTAC	1 cut(s)	626
CviAII	CATG	3 cut(s)	218, 234, 642
CviJI	RGCY	9 cut(s)	19, 87, 242, 296, 380, 431, 470, 497, 632
CviKI_1	RGCY	9 cut(s)	19, 87, 242, 296, 380, 431, 470, 497, 632
CviQI	GTAC	1 cut(s)	626
DdeI	CTNAG	1 cut(s)	464
DpnI	GATC	3 cut(s)	255, 260, 411
DpnII	GATC	3 cut(s)	253, 258, 409
DrdI	GACNNNNNNGTC	1 cut(s)	227
DseDI	GACNNNNNNGTC	1 cut(s)	227
Eam1104I	CTCTTC	1 cut(s)	113
EarI	CTCTTC	1 cut(s)	113
EciI	GGCGGA	1 cut(s)	139
Eco105I	TACGTA	1 cut(s)	441
Eco130I	CCWWGG	1 cut(s)	574
Eco32I	GATATC	1 cut(s)	373
EcoRII	CCWGG	1 cut(s)	70
EcoRV	GATATC	1 cut(s)	373
EcoT14I	CCWWGG	1 cut(s)	574
ErhI	CCWWGG	1 cut(s)	574
FaeI	CATG	3 cut(s)	221, 237, 645
FatI	CATG	3 cut(s)	217, 233, 641
Fnu4HI	GCNGC	4 cut(s)	294, 381, 422, 514
FokI	GGATG	4 cut(s)	84, 176, 497, 575
Fsp4HI	GCNGC	4 cut(s)	294, 381, 422, 514
FspBI	CTAG	1 cut(s)	390
GluI	GCNGC	4 cut(s)	294, 381, 422, 514
HaeIII	GGCC	1 cut(s)	87
HapII	CCGG	1 cut(s)	191
Hin1II	CATG	3 cut(s)	221, 237, 645
HindIII	AAGCTT	1 cut(s)	495
HinfI	GANTC	2 cut(s)	31, 584
HpaII	CCGG	1 cut(s)	191
HphI	GGTGA	1 cut(s)	206
Hpy166II	GTNNAC	1 cut(s)	25
Hpy188I	TCNGA	4 cut(s)	83, 258, 465, 593
Hpy188III	TCNNGA	5 cut(s)	35, 108, 176, 247, 642
Hpy8I	GTNNAC	1 cut(s)	25
HpyAV	CCTTC	3 cut(s)	304, 349, 475
HpyCH4III	ACNGT	3 cut(s)	229, 505, 607
HpyCH4IV	ACGT	1 cut(s)	440
HpyCH4V	TGCA	5 cut(s)	53, 293, 383, 416, 516
HpyF10VI	GCNNNNNNNGC	4 cut(s)	121, 302, 467, 629
HpyF3I	CTNAG	1 cut(s)	464
HpySE526I	ACGT	1 cut(s)	440
Hsp92II	CATG	3 cut(s)	221, 237, 645
Kzo9I	GATC	3 cut(s)	253, 258, 409
Lsp1109I	GCAGC	3 cut(s)	305, 367, 500
LweI	GCATC	2 cut(s)	106, 154
MaeI	CTAG	1 cut(s)	390
MaeII	ACGT	1 cut(s)	440
MaeIII	GTNAC	2 cut(s)	142, 229
MalI	GATC	3 cut(s)	255, 260, 411
MboI	GATC	3 cut(s)	253, 258, 409
MboII	GAAGA	1 cut(s)	130
MflI	RGATCY	1 cut(s)	409
MluCI	AATT	1 cut(s)	543
MlyI	GAGTC	1 cut(s)	25
MnlI	CCTC	6 cut(s)	37, 40, 77, 114, 163, 459
MseI	TTAA	2 cut(s)	521, 567
MspI	CCGG	1 cut(s)	191
MspR9I	CCNGG	2 cut(s)	72, 192
Mva1269I	GAATGC	1 cut(s)	185
MvaI	CCWGG	1 cut(s)	72
MwoI	GCNNNNNNNGC	4 cut(s)	121, 302, 467, 629
NciI	CCSGG	1 cut(s)	192
NdeII	GATC	3 cut(s)	253, 258, 409
NlaIII	CATG	3 cut(s)	221, 237, 645
NlaIV	GGNNCC	1 cut(s)	174
NmeAIII	GCCGAG	1 cut(s)	193
NmuCI	GTSAC	1 cut(s)	229
PagI	TCATGA	1 cut(s)	641
PctI	GAATGC	1 cut(s)	185
PfeI	GAWTC	1 cut(s)	584
PkrI	GCNGC	4 cut(s)	295, 382, 423, 515
PleI	GAGTC	1 cut(s)	25
PpsI	GAGTC	1 cut(s)	25
Ppu21I	YACGTR	1 cut(s)	441
Psp6I	CCWGG	1 cut(s)	70
PspGI	CCWGG	1 cut(s)	70
PspN4I	GGNNCC	1 cut(s)	174
PsrI	GAACNNNNNNTAC	2 cut(s)	609, 641
PsuI	RGATCY	1 cut(s)	409
RsaI	GTAC	1 cut(s)	627
RsaNI	GTAC	1 cut(s)	626
SaqAI	TTAA	2 cut(s)	521, 567
SatI	GCNGC	4 cut(s)	294, 381, 422, 514
Sau3AI	GATC	3 cut(s)	253, 258, 409
SchI	GAGTC	1 cut(s)	25
ScrFI	CCNGG	2 cut(s)	72, 192
SetI	ASST	9 cut(s)	51, 73, 174, 203, 433, 443, 499, 622, 634
SfaNI	GCATC	2 cut(s)	106, 154
SnaBI	TACGTA	1 cut(s)	441
Sse9I	AATT	1 cut(s)	543
SsiI	CCGC	2 cut(s)	124, 421
SspMI	CTAG	1 cut(s)	390
StyD4I	CCNGG	2 cut(s)	70, 190
StyI	CCWWGG	1 cut(s)	574
TaaI	ACNGT	3 cut(s)	229, 505, 607
TaiI	ACGT	1 cut(s)	443
TasI	AATT	1 cut(s)	543
TatI	WGTACW	1 cut(s)	625
TauI	GCSGC	1 cut(s)	424
TfiI	GAWTC	1 cut(s)	584
Tru1I	TTAA	2 cut(s)	521, 567
Tru9I	TTAA	2 cut(s)	521, 567
TscAI	CASTG	1 cut(s)	27
TseFI	GTSAC	1 cut(s)	229
TseI	GCWGC	3 cut(s)	293, 380, 513
Tsp45I	GTSAC	1 cut(s)	229
TspDTI	ATGAA	2 cut(s)	507, 612
TspRI	CASTG	1 cut(s)	27
XspI	CTAG	1 cut(s)	390

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