Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr3

Orthogroup ID

OG0003091

Physical Location & Seq

Genomic Coordinates Forward (+)

1361960 .. 1364390

Gene Structure 2431 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000010399

Sequence Viewer

CDS Protein Promoter (2k)

Length: 528 bp

ATGGAAGTTGGCGCTCCGTACAATCCCCGGACGGTGGAGGAGGTCTTCAGAGACTTCAAAGGCCGCAGAGCCGGCTTGCTTAAGGCCCTCACCACCGATGTCGGCTTGTTTTTTCAGCAGTGCGACCCTGAGAAGGAGAATCTTTGCCTCTATGGATTTCCAACCGAGCAGTGGGAAGTTAATTTGCCTGCAGAGGAGGTTCCTCCAGAGCTTCCGGAGCCAGCACTTGGTATCAACTTTGCCAGAGATGGGATGCAAGAAAAAGACTGGTTATCCTTGGTTGCTGTCCACAGTGATGCATGGTTACTTGCAGTGGCCTTTTACTTCGAAGATGAAGATGAGGATGAGCATGGAGAGACACTTTGTGGGGCTTGTGGAGAGAACTATGCATCCGATGAATTTTGGATTTGCTGCGATGTCTGTGAGAAGTGGTTCCACGGCAAGTGTGTGAAGATCACCCCAGCAAGGGCCGAGCATATTAAGCAGTACAAATGCCCATCTTGCAGCAACAAGAGATCCCGACCTTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0001101 GO:0003674 GO:0003676 GO:0003677 GO:0003712 GO:0003714 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0006950 GO:0006970 GO:0008150 GO:0009414 GO:0009415 GO:0009628 GO:0009651 GO:0009889 GO:0009890 GO:0009892 GO:0010035 GO:0010556 GO:0010558 GO:0010605 GO:0019219 GO:0019222 GO:0031323 GO:0031324 GO:0031326 GO:0031327 GO:0042221 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044464 GO:0045934 GO:0048519 GO:0048523 GO:0050789 GO:0050794 GO:0050896 GO:0051171 GO:0051172 GO:0051252 GO:0051253 GO:0060255 GO:0065007 GO:0080090 GO:0097159 GO:0140110 GO:1901363 GO:1901700 GO:1902679 GO:1903506 GO:1903507 GO:2001141

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Alfin PHD

Protein Analysis

176

Amino Acids

19.96

Weight (kDa)

4.66

Isoelectric Point (pI)

52.05

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Alfin	PF12165	11 - 112	7.9e-55	Alfin
PHD	PF00628	122 - 168	2.1e-09	PHD-finger

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: OG0003091)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G42790 AT5G20510 AT5G20510
fragaria_vesca	FvH4_2g31281 FvH4_2g31281 FvH4_6g34320
malus_domestica	MD08G1069100.v1.1 MD09G1186300.v1.1 MD15G1052900.v1.1 MD17G1171200.v1.1
prunus_persica	Prupe.1G406800_v2.0.a1 Prupe.1G406800_v2.0.a1 Prupe.3G044000_v2.0.a1 Prupe.3G044000_v2.0.a1
pyrus_communis	pycom08g05690 pycom09g10350 pycom15g05060 pycom17g16870
rosa_chinensis	RchiOBHm_Chr2g0144691 RchiOBHm_Chr6g0311511 RchiOBHm_Chr7g0239581
rosa_laevigata	RLG00000006884 RLG00000010399 RLG00000020101
rosa_multiflora	Rmu_sc0000227.1_g000006 Rmu_sc0015790.1_g000007 Rmu_sc0039327.1_g000001
rosa_roxburghii	Rroxscaffold_2G00101070 Rroxscaffold_7G00157550
rosa_rugosa	Rorug02G0388800 Rorug06G0389300
rosa_samantha	Rh2BG451100 Rh6AG504100 Rh6DG506600
rosa_wichuraiana	Rw2G036050 Rw4G005730 Rw6G043900

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB7I	CCANNNNNTGG	1 cut(s)	227
AccIII	TCCGGA	1 cut(s)	214
AciI	CCGC	1 cut(s)	64
AclWI	GGATC	1 cut(s)	510
AcsI	RAATTY	1 cut(s)	398
AcuI	CTGAAG	1 cut(s)	31
AdeI	CACNNNGTG	1 cut(s)	365
AfaI	GTAC	2 cut(s)	20, 488
AfiI	CCNNNNNNNGG	7 cut(s)	34, 133, 171, 227, 249, 465, 466
AflII	CTTAAG	1 cut(s)	80
AgsI	TTSAA	1 cut(s)	58
AloI	GAACNNNNNNTCC	2 cut(s)	374, 406
AluBI	AGCT	1 cut(s)	211
AluI	AGCT	1 cut(s)	211
Alw26I	GTCTC	2 cut(s)	45, 350
AlwI	GGATC	1 cut(s)	510
Aor13HI	TCCGGA	1 cut(s)	214
AoxI	GGCC	4 cut(s)	61, 84, 315, 468
ApeKI	GCWGC	2 cut(s)	411, 504
ApoI	RAATTY	1 cut(s)	398
Asp700I	GAANNNNTTC	1 cut(s)	431
AspLEI	GCGC	1 cut(s)	14
AspS9I	GGNCC	2 cut(s)	85, 468
AsuC2I	CCSGG	1 cut(s)	28
AsuHPI	GGTGA	2 cut(s)	82, 448
AsuII	TTCGAA	1 cut(s)	327
BbsI	GAAGAC	1 cut(s)	37
BbvI	GCAGC	2 cut(s)	398, 516
BccI	CCATC	2 cut(s)	242, 505
BceAI	ACGGC	1 cut(s)	454
BcnI	CCSGG	1 cut(s)	28
BcoDI	GTCTC	2 cut(s)	45, 350
BfmI	CTRYAG	1 cut(s)	189
BfoI	RGCGCY	1 cut(s)	15
BfrI	CTTAAG	1 cut(s)	80
BisI	GCNGC	3 cut(s)	64, 412, 505
BlsI	GCNGC	3 cut(s)	65, 413, 506
Bme1390I	CCNGG	1 cut(s)	28
BmgT120I	GGNCC	2 cut(s)	85, 468
BmiI	GGNNCC	3 cut(s)	201, 219, 434
BmrFI	CCNGG	1 cut(s)	28
BmsI	GCATC	3 cut(s)	243, 286, 398
BpiI	GAAGAC	1 cut(s)	37
BpmI	CTGGAG	1 cut(s)	189
Bpu14I	TTCGAA	1 cut(s)	327
BpuMI	CCSGG	1 cut(s)	28
BsaJI	CCNNGG	3 cut(s)	26, 276, 436
BsaWI	WCCGGW	1 cut(s)	214
Bsc4I	CCNNNNNNNGG	7 cut(s)	34, 133, 171, 227, 249, 465, 466
Bse118I	RCCGGY	1 cut(s)	71
Bse1I	ACTGG	1 cut(s)	272
BseAI	TCCGGA	1 cut(s)	214
BseDI	CCNNGG	3 cut(s)	26, 276, 436
BseGI	GGATG	3 cut(s)	258, 349, 389
BseLI	CCNNNNNNNGG	7 cut(s)	34, 133, 171, 227, 249, 465, 466
BseMII	CTCAG	1 cut(s)	120
BseNI	ACTGG	1 cut(s)	272
BseRI	GAGGAG	2 cut(s)	53, 209
BseXI	GCAGC	2 cut(s)	398, 516
BseYI	CCCAGC	1 cut(s)	460
BshFI	GGCC	4 cut(s)	63, 86, 317, 470
BsiSI	CCGG	3 cut(s)	28, 72, 215
BslI	CCNNNNNNNGG	7 cut(s)	34, 133, 171, 227, 249, 465, 466
BsmAI	GTCTC	2 cut(s)	45, 350
BsnI	GGCC	4 cut(s)	63, 86, 317, 470
Bsp119I	TTCGAA	1 cut(s)	327
Bsp13I	TCCGGA	1 cut(s)	214
Bsp143I	GATC	2 cut(s)	453, 515
BspACI	CCGC	1 cut(s)	64
BspANI	GGCC	4 cut(s)	63, 86, 317, 470
BspCNI	CTCAG	1 cut(s)	121
BspEI	TCCGGA	1 cut(s)	214
BspLI	GGNNCC	3 cut(s)	201, 219, 434
BspMAI	CTGCAG	1 cut(s)	193
BspPI	GGATC	1 cut(s)	510
BspT104I	TTCGAA	1 cut(s)	327
BspTI	CTTAAG	1 cut(s)	80
BsrFI	RCCGGY	1 cut(s)	71
BsrI	ACTGG	1 cut(s)	272
BssAI	RCCGGY	1 cut(s)	71
BssECI	CCNNGG	3 cut(s)	26, 276, 436
BssMI	GATC	2 cut(s)	453, 515
BssT1I	CCWWGG	1 cut(s)	276
Bst4CI	ACNGT	2 cut(s)	34, 293
BstAFI	CTTAAG	1 cut(s)	80
BstBI	TTCGAA	1 cut(s)	327
BstC8I	GCNNGC	4 cut(s)	73, 77, 189, 222
BstDEI	CTNAG	1 cut(s)	129
BstDSI	CCRYGG	1 cut(s)	436
BstF5I	GGATG	3 cut(s)	258, 349, 389
BstH2I	RGCGCY	1 cut(s)	15
BstHHI	GCGC	1 cut(s)	14
BstKTI	GATC	2 cut(s)	456, 518
BstMAI	GTCTC	2 cut(s)	45, 350
BstMBI	GATC	2 cut(s)	453, 515
BstMWI	GCNNNNNNNGC	4 cut(s)	72, 217, 481, 501
BstSCI	CCNGG	1 cut(s)	26
BstSFI	CTRYAG	1 cut(s)	189
BstV1I	GCAGC	2 cut(s)	398, 516
BstV2I	GAAGAC	1 cut(s)	37
BstX2I	RGATCY	1 cut(s)	515
BstYI	RGATCY	1 cut(s)	515
BsuRI	GGCC	4 cut(s)	63, 86, 317, 470
BtgI	CCRYGG	1 cut(s)	436
BtgZI	GCGATG	1 cut(s)	429
BtsCI	GGATG	3 cut(s)	258, 349, 389
BtsI	GCAGTG	3 cut(s)	125, 176, 318
BtsIMutI	CAGTG	4 cut(s)	125, 176, 298, 318
Cac8I	GCNNGC	4 cut(s)	73, 77, 189, 222
CfoI	GCGC	1 cut(s)	14
Cfr10I	RCCGGY	1 cut(s)	71
Cfr13I	GGNCC	2 cut(s)	85, 468
Csp6I	GTAC	2 cut(s)	19, 487
CviAII	CATG	2 cut(s)	300, 350
CviQI	GTAC	2 cut(s)	19, 487
DdeI	CTNAG	1 cut(s)	129
DpnI	GATC	2 cut(s)	455, 517
DpnII	GATC	2 cut(s)	453, 515
DraIII	CACNNNGTG	1 cut(s)	365
Eco130I	CCWWGG	1 cut(s)	276
Eco57I	CTGAAG	1 cut(s)	31
EcoO109I	RGGNCCY	1 cut(s)	85
EcoT14I	CCWWGG	1 cut(s)	276
EcoT22I	ATGCAT	2 cut(s)	301, 391
ErhI	CCWWGG	1 cut(s)	276
FaeI	CATG	2 cut(s)	303, 353
FaiI	YATR	5 cut(s)	153, 301, 351, 387, 477
FatI	CATG	2 cut(s)	299, 349
Fnu4HI	GCNGC	3 cut(s)	64, 412, 505
FokI	GGATG	3 cut(s)	265, 356, 376
Fsp4HI	GCNGC	3 cut(s)	64, 412, 505
GlaI	GCGC	1 cut(s)	13
GluI	GCNGC	3 cut(s)	64, 412, 505
GsaI	CCCAGC	1 cut(s)	464
GsuI	CTGGAG	1 cut(s)	189
HaeII	RGCGCY	1 cut(s)	15
HaeIII	GGCC	4 cut(s)	63, 86, 317, 470
HapII	CCGG	3 cut(s)	28, 72, 215
HhaI	GCGC	1 cut(s)	14
Hin1II	CATG	2 cut(s)	303, 353
Hin6I	GCGC	1 cut(s)	12
HinP1I	GCGC	1 cut(s)	12
HinfI	GANTC	1 cut(s)	139
HpaII	CCGG	3 cut(s)	28, 72, 215
HphI	GGTGA	2 cut(s)	82, 448
Hpy166II	GTNNAC	1 cut(s)	289
Hpy188I	TCNGA	2 cut(s)	50, 394
Hpy188III	TCNNGA	3 cut(s)	206, 215, 519
Hpy8I	GTNNAC	1 cut(s)	289
HpyAV	CCTTC	1 cut(s)	127
HpyCH4III	ACNGT	2 cut(s)	34, 293
HpyCH4V	TGCA	6 cut(s)	191, 256, 299, 311, 389, 504
HpyF10VI	GCNNNNNNNGC	4 cut(s)	72, 217, 481, 501
HpyF3I	CTNAG	1 cut(s)	129
Hsp92II	CATG	2 cut(s)	303, 353
HspAI	GCGC	1 cut(s)	12
Kpn2I	TCCGGA	1 cut(s)	214
KroI	GCCGGC	1 cut(s)	71
KroNI	GCCGGC	1 cut(s)	73
Kzo9I	GATC	2 cut(s)	453, 515
LmnI	GCTCC	2 cut(s)	19, 217
Lsp1109I	GCAGC	2 cut(s)	398, 516
LweI	GCATC	3 cut(s)	243, 286, 398
MaeIII	GTNAC	1 cut(s)	303
MalI	GATC	2 cut(s)	455, 517
MboI	GATC	2 cut(s)	453, 515
MboII	GAAGA	4 cut(s)	37, 341, 347, 463
MflI	RGATCY	1 cut(s)	515
MluCI	AATT	2 cut(s)	181, 398
MmeI	TCCRAC	1 cut(s)	185
MnlI	CCTC	8 cut(s)	31, 34, 98, 158, 187, 190, 213, 334
Mph1103I	ATGCAT	2 cut(s)	301, 391
MroI	TCCGGA	1 cut(s)	214
MroNI	GCCGGC	1 cut(s)	71
MroXI	GAANNNNTTC	1 cut(s)	431
MseI	TTAA	3 cut(s)	81, 180, 480
MslI	CAYNNNNRTG	1 cut(s)	294
MspCI	CTTAAG	1 cut(s)	80
MspI	CCGG	3 cut(s)	28, 72, 215
MspR9I	CCNGG	1 cut(s)	28
MwoI	GCNNNNNNNGC	4 cut(s)	72, 217, 481, 501
NaeI	GCCGGC	1 cut(s)	73
NciI	CCSGG	1 cut(s)	28
NdeII	GATC	2 cut(s)	453, 515
NgoMIV	GCCGGC	1 cut(s)	71
NlaIII	CATG	2 cut(s)	303, 353
NlaIV	GGNNCC	3 cut(s)	201, 219, 434
NmeAIII	GCCGAG	1 cut(s)	496
NsiI	ATGCAT	2 cut(s)	301, 391
NspV	TTCGAA	1 cut(s)	327
PdiI	GCCGGC	1 cut(s)	73
PdmI	GAANNNNTTC	1 cut(s)	431
PfeI	GAWTC	1 cut(s)	139
PflMI	CCANNNNNTGG	1 cut(s)	227
PkrI	GCNGC	3 cut(s)	65, 413, 506
PspFI	CCCAGC	1 cut(s)	460
PspN4I	GGNNCC	3 cut(s)	201, 219, 434
PspPI	GGNCC	2 cut(s)	85, 468
PstI	CTGCAG	1 cut(s)	193
PsuI	RGATCY	1 cut(s)	515
RsaI	GTAC	2 cut(s)	20, 488
RsaNI	GTAC	2 cut(s)	19, 487
RseI	CAYNNNNRTG	1 cut(s)	294
SaqAI	TTAA	3 cut(s)	81, 180, 480
SatI	GCNGC	3 cut(s)	64, 412, 505
Sau3AI	GATC	2 cut(s)	453, 515
Sau96I	GGNCC	2 cut(s)	85, 468
ScrFI	CCNGG	1 cut(s)	28
SetI	ASST	4 cut(s)	45, 201, 213, 526
SfaNI	GCATC	3 cut(s)	243, 286, 398
SfcI	CTRYAG	1 cut(s)	189
SfuI	TTCGAA	1 cut(s)	327
SmiMI	CAYNNNNRTG	1 cut(s)	294
SmlI	CTYRAG	1 cut(s)	80
SmoI	CTYRAG	1 cut(s)	80
Sse9I	AATT	2 cut(s)	181, 398
SsiI	CCGC	1 cut(s)	64
StyD4I	CCNGG	1 cut(s)	26
StyI	CCWWGG	1 cut(s)	276
TaaI	ACNGT	2 cut(s)	34, 293
TaqI	TCGA	1 cut(s)	327
TasI	AATT	2 cut(s)	181, 398
TatI	WGTACW	1 cut(s)	486
TauI	GCSGC	1 cut(s)	66
TfiI	GAWTC	1 cut(s)	139
Tru1I	TTAA	3 cut(s)	81, 180, 480
Tru9I	TTAA	3 cut(s)	81, 180, 480
TscAI	CASTG	4 cut(s)	125, 176, 298, 318
TseI	GCWGC	2 cut(s)	411, 504
TspDTI	ATGAA	2 cut(s)	348, 411
TspGWI	ACGGA	1 cut(s)	6
TspRI	CASTG	4 cut(s)	125, 176, 298, 318
Van91I	CCANNNNNTGG	1 cut(s)	227
Vha464I	CTTAAG	1 cut(s)	80
XapI	RAATTY	1 cut(s)	398
XcmI	CCANNNNNNNNNTGG	1 cut(s)	168
XmnI	GAANNNNTTC	1 cut(s)	431
Zsp2I	ATGCAT	2 cut(s)	301, 391

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