Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr3

Orthogroup ID

OG0005006

Physical Location & Seq

Genomic Coordinates Reverse (-)

65908129 .. 65910301

Gene Structure 2173 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000015428

Sequence Viewer

CDS Protein Promoter (2k)

Length: 612 bp

ATGCATGTTTTTGAGCGTCATGAAAGTGTGGTTAATGATGTGTCGTGGCATTCGAAGAACGAGAATCTGTTTGGGTCTGTTGGGGACGATTGTCAACTGATGATATGGGACTTGAAACAAATCAAGCCCAAGACTCTTGCGTGGGTTTTGGCTACAGCATCTTCAGACACTACTGTGGGCCTGTTTGATATGCGGAAGCTGACGGTATGCTCTCAAGGAGGTATTTTCCAGGTTGAATGGGACCCTAATCATGATACTGTGCCGGCATCTTACGCTGGAGGACAGAAAGTTGATTGTTTGGGACCTTACGCTGGAGGTATCTACTTATCTAATATTAGAAAATGTTTTTGCTTTTACTTAGCTGTTTCACTTTTACATATTTCATCCGTGATTGGGGATGAGCAGTTGGAGGGAGATGGTGCTGATGGGCCACCAGAACTTCTGTTTTCACATGGCGGTCAGAGAGCAAAGATATCAGATTTGTCATGGAACAAAGAAGTTCCATGGCTCATTTCAAGTGTAGCCGAAGACAACACTCTCCAGGTCTGGCAAATTGCTGATGGCATTTACGGTGACGATGATGTGCAAGAAGGGGAACCTTCTGATGTCTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000151 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005829 GO:0031461 GO:0032991 GO:0044424 GO:0044444 GO:0044464 GO:0080008 GO:1902494 GO:1990234

KEGG Pathways

Metabolic & Signaling

ko04218 map04218

Pfam Domains

Protein Families

CAF1C_H4-bd WD40

Protein Analysis

204

Amino Acids

22.35

Weight (kDa)

4.44

Isoelectric Point (pI)

33.9

Instability Index

Protein Domains (Pfam)

No Pfam domains detected for this protein.

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: OG0005006)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G16780 AT4G35050
fragaria_vesca	FvH4_2g01180
malus_domestica	MD05G1121700.v1.1 MD10G1124300.v1.1
prunus_persica	Prupe.8G165500_v2.0.a1
pyrus_communis	pycom05g11570
rosa_chinensis	RchiOBHm_Chr6g0251791 RchiOBHm_Chr6g0251811
rosa_laevigata	RLG00000015428 RLG00000015429
rosa_multiflora	Rmu_co8247185.1_g000001 Rmu_co8464529.1_g000001 Rmu_sc0003965.1_g000001 Rmu_sc0019305.1_g000001 Rmu_sc0025272.1_g000001 Rmu_ssc0000213.1_g000115 Rmu_ssc0000213.1_g000116
rosa_roxburghii	Rroxscaffold_7G00216370 Rroxscaffold_7G00216380
rosa_rugosa	Rorug05G0504000
rosa_samantha	Rh6AG014800 Rh6AG014900 Rh6BG013200 Rh6BG013300 Rh6CG010200 Rh6CG010300 Rh6DG011400 Rh6DG011500
rosa_wichuraiana	Rw6G001470

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AciI	CCGC	2 cut(s)	193, 456
AcuI	CTGAAG	1 cut(s)	147
AfiI	CCNNNNNNNGG	2 cut(s)	311, 393
AgsI	TTSAA	3 cut(s)	115, 236, 516
AjnI	CCWGG	2 cut(s)	228, 540
AleI	CACNNNNGTG	1 cut(s)	173
AluBI	AGCT	2 cut(s)	199, 362
AluI	AGCT	2 cut(s)	199, 362
AoxI	GGCC	2 cut(s)	178, 428
AspS9I	GGNCC	4 cut(s)	178, 241, 302, 428
AsuHPI	GGTGA	1 cut(s)	584
AsuII	TTCGAA	1 cut(s)	53
AvaII	GGWCC	2 cut(s)	241, 302
BbsI	GAAGAC	1 cut(s)	534
BccI	CCATC	3 cut(s)	410, 419, 554
BciT130I	CCWGG	2 cut(s)	230, 542
BfmI	CTRYAG	1 cut(s)	153
Bme1390I	CCNGG	2 cut(s)	230, 542
Bme18I	GGWCC	2 cut(s)	241, 302
BmgT120I	GGNCC	4 cut(s)	178, 241, 302, 428
BmiI	GGNNCC	4 cut(s)	242, 243, 303, 597
BmrFI	CCNGG	2 cut(s)	230, 542
BmsI	GCATC	2 cut(s)	167, 275
BoxI	GACNNNNGTC	1 cut(s)	90
BpiI	GAAGAC	1 cut(s)	534
BpmI	CTGGAG	3 cut(s)	297, 333, 524
Bpu14I	TTCGAA	1 cut(s)	53
BpuEI	CTTGAG	1 cut(s)	198
BsaJI	CCNNGG	1 cut(s)	503
Bsc4I	CCNNNNNNNGG	2 cut(s)	311, 393
Bse118I	RCCGGY	1 cut(s)	262
BseBI	CCWGG	2 cut(s)	230, 542
BseDI	CCNNGG	1 cut(s)	503
BseGI	GGATG	2 cut(s)	383, 403
BseLI	CCNNNNNNNGG	2 cut(s)	311, 393
BshFI	GGCC	2 cut(s)	180, 430
BsiSI	CCGG	1 cut(s)	263
BslFI	GGGAC	4 cut(s)	98, 122, 254, 315
BslI	CCNNNNNNNGG	2 cut(s)	311, 393
BsmFI	GGGAC	4 cut(s)	98, 122, 254, 315
BsmI	GAATGC	1 cut(s)	49
BsnI	GGCC	2 cut(s)	180, 430
Bsp119I	TTCGAA	1 cut(s)	53
Bsp19I	CCATGG	1 cut(s)	503
BspACI	CCGC	2 cut(s)	193, 456
BspANI	GGCC	2 cut(s)	180, 430
BspHI	TCATGA	2 cut(s)	19, 250
BspLI	GGNNCC	4 cut(s)	242, 243, 303, 597
BspT104I	TTCGAA	1 cut(s)	53
BsrFI	RCCGGY	1 cut(s)	262
BssAI	RCCGGY	1 cut(s)	262
BssECI	CCNNGG	1 cut(s)	503
BssT1I	CCWWGG	1 cut(s)	503
Bst2UI	CCWGG	2 cut(s)	230, 542
Bst4CI	ACNGT	4 cut(s)	175, 205, 259, 572
BstBI	TTCGAA	1 cut(s)	53
BstC8I	GCNNGC	1 cut(s)	264
BstDEI	CTNAG	1 cut(s)	358
BstDSI	CCRYGG	1 cut(s)	503
BstF5I	GGATG	2 cut(s)	383, 403
BstMWI	GCNNNNNNNGC	1 cut(s)	272
BstNI	CCWGG	2 cut(s)	230, 542
BstNSI	RCATGY	1 cut(s)	8
BstPAI	GACNNNNGTC	1 cut(s)	90
BstSCI	CCNGG	2 cut(s)	228, 540
BstSFI	CTRYAG	1 cut(s)	153
BstV2I	GAAGAC	1 cut(s)	534
BsuRI	GGCC	2 cut(s)	180, 430
BtgI	CCRYGG	1 cut(s)	503
BtsCI	GGATG	2 cut(s)	383, 403
Cac8I	GCNNGC	1 cut(s)	264
CciI	TCATGA	2 cut(s)	19, 250
Cfr10I	RCCGGY	1 cut(s)	262
Cfr13I	GGNCC	4 cut(s)	178, 241, 302, 428
CseI	GACGC	1 cut(s)	5
CviAII	CATG	6 cut(s)	5, 20, 251, 452, 486, 504
CviJI	RGCY	8 cut(s)	127, 152, 180, 199, 362, 430, 508, 524
CviKI_1	RGCY	8 cut(s)	127, 152, 180, 199, 362, 430, 508, 524
DdeI	CTNAG	1 cut(s)	358
Eco130I	CCWWGG	1 cut(s)	503
Eco32I	GATATC	1 cut(s)	474
Eco47I	GGWCC	2 cut(s)	241, 302
Eco57I	CTGAAG	1 cut(s)	147
EcoO109I	RGGNCCY	2 cut(s)	241, 302
EcoRII	CCWGG	2 cut(s)	228, 540
EcoRV	GATATC	1 cut(s)	474
EcoT14I	CCWWGG	1 cut(s)	503
EcoT22I	ATGCAT	1 cut(s)	6
ErhI	CCWWGG	1 cut(s)	503
FaeI	CATG	6 cut(s)	8, 23, 254, 455, 489, 507
FaqI	GGGAC	4 cut(s)	98, 122, 254, 315
FatI	CATG	6 cut(s)	4, 19, 250, 451, 485, 503
FokI	GGATG	2 cut(s)	370, 410
GsuI	CTGGAG	3 cut(s)	297, 333, 524
HaeIII	GGCC	2 cut(s)	180, 430
HapII	CCGG	1 cut(s)	263
HgaI	GACGC	1 cut(s)	5
Hin1II	CATG	6 cut(s)	8, 23, 254, 455, 489, 507
HincII	GTYRAC	1 cut(s)	95
HindII	GTYRAC	1 cut(s)	95
HinfI	GANTC	2 cut(s)	64, 133
HpaII	CCGG	1 cut(s)	263
HphI	GGTGA	1 cut(s)	584
Hpy166II	GTNNAC	1 cut(s)	95
Hpy188I	TCNGA	5 cut(s)	166, 462, 478, 604, 611
Hpy188III	TCNNGA	2 cut(s)	20, 251
Hpy8I	GTNNAC	1 cut(s)	95
HpyAV	CCTTC	2 cut(s)	584, 609
HpyCH4III	ACNGT	4 cut(s)	175, 205, 259, 572
HpyCH4V	TGCA	2 cut(s)	4, 586
HpyF10VI	GCNNNNNNNGC	1 cut(s)	272
HpyF3I	CTNAG	1 cut(s)	358
Hsp92II	CATG	6 cut(s)	8, 23, 254, 455, 489, 507
KflI	GGGWCCC	1 cut(s)	241
KroI	GCCGGC	1 cut(s)	262
KroNI	GCCGGC	1 cut(s)	264
LweI	GCATC	2 cut(s)	167, 275
MaeIII	GTNAC	1 cut(s)	572
MboII	GAAGA	3 cut(s)	67, 153, 539
MluCI	AATT	1 cut(s)	552
MlyI	GAGTC	1 cut(s)	127
MmeI	TCCRAC	1 cut(s)	387
MnlI	CCTC	4 cut(s)	212, 272, 308, 403
Mph1103I	ATGCAT	1 cut(s)	6
MroNI	GCCGGC	1 cut(s)	262
MseI	TTAA	1 cut(s)	33
MslI	CAYNNNNRTG	2 cut(s)	24, 173
MspI	CCGG	1 cut(s)	263
MspR9I	CCNGG	2 cut(s)	230, 542
Mva1269I	GAATGC	1 cut(s)	49
MvaI	CCWGG	2 cut(s)	230, 542
MwoI	GCNNNNNNNGC	1 cut(s)	272
NaeI	GCCGGC	1 cut(s)	264
NcoI	CCATGG	1 cut(s)	503
NgoMIV	GCCGGC	1 cut(s)	262
NlaIII	CATG	6 cut(s)	8, 23, 254, 455, 489, 507
NlaIV	GGNNCC	4 cut(s)	242, 243, 303, 597
NmuCI	GTSAC	1 cut(s)	572
NsiI	ATGCAT	1 cut(s)	6
NspI	RCATGY	1 cut(s)	8
NspV	TTCGAA	1 cut(s)	53
OliI	CACNNNNGTG	1 cut(s)	173
PagI	TCATGA	2 cut(s)	19, 250
PcsI	WCGNNNNNNNCGW	1 cut(s)	50
PctI	GAATGC	1 cut(s)	49
PdiI	GCCGGC	1 cut(s)	264
PfeI	GAWTC	1 cut(s)	64
PleI	GAGTC	1 cut(s)	127
PpsI	GAGTC	1 cut(s)	127
PpuMI	RGGWCCY	2 cut(s)	241, 302
PshAI	GACNNNNGTC	1 cut(s)	90
Psp5II	RGGWCCY	2 cut(s)	241, 302
Psp6I	CCWGG	2 cut(s)	228, 540
PspGI	CCWGG	2 cut(s)	228, 540
PspN4I	GGNNCC	4 cut(s)	242, 243, 303, 597
PspPI	GGNCC	4 cut(s)	178, 241, 302, 428
PspPPI	RGGWCCY	2 cut(s)	241, 302
RseI	CAYNNNNRTG	2 cut(s)	24, 173
SaqAI	TTAA	1 cut(s)	33
Sau96I	GGNCC	4 cut(s)	178, 241, 302, 428
SchI	GAGTC	1 cut(s)	127
ScrFI	CCNGG	2 cut(s)	230, 542
SetI	ASST	8 cut(s)	201, 223, 234, 307, 319, 364, 546, 601
SfaNI	GCATC	2 cut(s)	167, 275
SfcI	CTRYAG	1 cut(s)	153
SfuI	TTCGAA	1 cut(s)	53
SinI	GGWCC	2 cut(s)	241, 302
SmiMI	CAYNNNNRTG	2 cut(s)	24, 173
SmlI	CTYRAG	1 cut(s)	213
SmoI	CTYRAG	1 cut(s)	213
Sse9I	AATT	1 cut(s)	552
SsiI	CCGC	2 cut(s)	193, 456
SspI	AATATT	1 cut(s)	334
StyD4I	CCNGG	2 cut(s)	228, 540
StyI	CCWWGG	1 cut(s)	503
TaaI	ACNGT	4 cut(s)	175, 205, 259, 572
TaqI	TCGA	1 cut(s)	53
TasI	AATT	1 cut(s)	552
TfiI	GAWTC	1 cut(s)	64
Tru1I	TTAA	1 cut(s)	33
Tru9I	TTAA	1 cut(s)	33
TseFI	GTSAC	1 cut(s)	572
Tsp45I	GTSAC	1 cut(s)	572
TspDTI	ATGAA	2 cut(s)	36, 372
TspGWI	ACGGA	1 cut(s)	376
VpaK11BI	GGWCC	2 cut(s)	241, 302
XceI	RCATGY	1 cut(s)	8
Zsp2I	ATGCAT	1 cut(s)	6

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