Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr6

Orthogroup ID

OG0013963

Physical Location & Seq

Genomic Coordinates Reverse (-)

27674181 .. 27676098

Gene Structure 1918 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000028766

Sequence Viewer

CDS Protein Promoter (2k)

Length: 906 bp

ATGGGTGACAAAAATGATGAGTTGGGGTTGAGTTTGGGTCTGGGGTTGGGTTATGGAACCAAACCGCCTTCTTCTTCTTCCTCCTCATTTCACTTGAACCTCATGCAGAATCCAGAAACTAATCATCAACGAGTTTTTGGGATTTTTGGATTCACTGATCGAAATGCGACGACGTTTCGGCGAGGAATCGACGTGAACCAGGCGGCAGTGGGGGATTTCGAAGACGAAAACGGCGTGTCTTCTCCGAACAGCACGGTGTCGAGCCTGAGCGGAAAGCGTAGCGAGAGAGGCGAAGACAACGAGGCGGAGAGGACTTCGTGCTCGCTCGGCGGAAGCGACGACGAGGACGGCATTGGCGGCGGCGACACGTCGAAGAAGAAGCTCCGGCTCACCAAGGAGCAGTCTCTGCTGCTCGAGGACATGTTCAAGGAGCACCATACTCTCAACACGAGGCAAAAGCAGGAATTGGCACAGAAGTTGAACCTGAGCGCAAGACAAGTGGAGGTGTGGTTTCAGAACAGGAGGGCAAGGACTAAGCTGAAGCAAACAGAGGTGGATTGTGATCAACTAAGGAAGTGCTGTGAGAATCTGACAGAAGAGAACAGGAGGTTGCAGAAAGAAGTGCAAGAGCTGAGGGCACTCAAGCTTTCGCCACAGTTCTACATGCAAATGAACCCTCCCACAACTCTCACCATGTGCCCTTCATGCCAATGTGTGGGTGTAACATCCTCATCTTCATCTTCTGCTAGTGCTACTACTGCTTCCTCCACAGTTCCGGCAACCAGCCCAACTGGCCACCCAGGGAAGCCAACTATCCATCGGCCTGTTCCAATCAGCCCGTGGGCCACATTGCCGATCCCGCAGCATCGACCTGTTGATGCACCCCCACCTGCATCTCGGTCGTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003700 GO:0005575 GO:0005911 GO:0006355 GO:0008150 GO:0009314 GO:0009416 GO:0009506 GO:0009628 GO:0009639 GO:0009641 GO:0009719 GO:0009725 GO:0009889 GO:0010033 GO:0010218 GO:0010468 GO:0010556 GO:0019219 GO:0019222 GO:0030054 GO:0031323 GO:0031326 GO:0042221 GO:0050789 GO:0050794 GO:0050896 GO:0051171 GO:0051252 GO:0055044 GO:0060255 GO:0065007 GO:0080090 GO:0140110 GO:1903506 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

HALZ HD-ZIP_N Homeobox

Protein Analysis

302

Amino Acids

32.94

Weight (kDa)

7.63

Isoelectric Point (pI)

55.88

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
HD-ZIP_N	PF04618	1 - 96	9.8e-20	HD-ZIP protein N terminus
Homeodomain	PF00046	125 - 179	1.1e-16	Homeodomain
HALZ	PF02183	181 - 215	1.6e-10	Homeobox associated leucine zipper

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

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Orthologous Genes (Group: OG0013963)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G60390
fragaria_vesca	FvH4_7g09820 FvH4_7g09820 FvH4_7g09820
malus_domestica	MD02G1216800.v1.1
prunus_persica	Prupe.2G127300_v2.0.a1
pyrus_communis	pycom02g17850
rosa_chinensis	RchiOBHm_Chr1g0346981
rosa_laevigata	RLG00000028766
rosa_multiflora	Rmu_co8350045.1_g000001 Rmu_sc0002705.1_g000018
rosa_roxburghii	Rroxscaffold_4G00308000
rosa_samantha	Rh1AG202800 Rh1BG168800 Rh1CG187500 Rh1DG199500
rosa_wichuraiana	Rw1G016990

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	1 cut(s)	898
Acc36I	ACCTGC	1 cut(s)	898
AccB7I	CCANNNNNTGG	1 cut(s)	715
AccBSI	CCGCTC	1 cut(s)	270
AciI	CCGC	8 cut(s)	65, 203, 270, 305, 330, 357, 360, 860
AclWI	GGATC	1 cut(s)	850
AcoI	YGGCCR	1 cut(s)	793
AcuI	CTGAAG	1 cut(s)	560
AdeI	CACNNNGTG	1 cut(s)	696
AfiI	CCNNNNNNNGG	1 cut(s)	715
AflIII	ACRYGT	2 cut(s)	366, 420
AgsI	TTSAA	3 cut(s)	97, 427, 481
AjiI	CACGTC	2 cut(s)	193, 369
AjnI	CCWGG	2 cut(s)	198, 799
AluBI	AGCT	4 cut(s)	382, 538, 631, 646
AluI	AGCT	4 cut(s)	382, 538, 631, 646
Alw21I	GWGCWC	2 cut(s)	323, 435
Alw26I	GTCTC	1 cut(s)	408
AlwI	GGATC	1 cut(s)	850
AlwNI	CAGNNNCTG	1 cut(s)	406
Ama87I	CYCGRG	1 cut(s)	413
AoxI	GGCC	3 cut(s)	793, 821, 843
ApeKI	GCWGC	2 cut(s)	409, 862
AspLEI	GCGC	1 cut(s)	491
AspS9I	GGNCC	1 cut(s)	843
AsuHPI	GGTGA	3 cut(s)	17, 382, 682
AsuII	TTCGAA	1 cut(s)	219
AvaI	CYCGRG	1 cut(s)	413
BaeGI	GKGCMC	2 cut(s)	640, 701
BalI	TGGCCA	1 cut(s)	795
BauI	CACGAG	1 cut(s)	448
BbsI	GAAGAC	3 cut(s)	228, 231, 300
Bbv12I	GWGCWC	2 cut(s)	323, 435
BbvCI	CCTCAGC	1 cut(s)	632
BbvI	GCAGC	2 cut(s)	396, 874
BccI	CCATC	1 cut(s)	825
BceAI	ACGGC	2 cut(s)	247, 364
BcgI	CGANNNNNNTGC	1 cut(s)	882
BciT130I	CCWGG	2 cut(s)	200, 801
BclI	TGATCA	1 cut(s)	562
BcoDI	GTCTC	1 cut(s)	408
BfaI	CTAG	1 cut(s)	747
BfuAI	ACCTGC	1 cut(s)	898
BglI	GCCNNNNNGGC	1 cut(s)	792
BisI	GCNGC	5 cut(s)	204, 358, 361, 410, 863
BlsI	GCNGC	5 cut(s)	205, 359, 362, 411, 864
Bme1390I	CCNGG	2 cut(s)	200, 801
BmeT110I	CYCGRG	1 cut(s)	413
BmgBI	CACGTC	2 cut(s)	193, 369
BmgT120I	GGNCC	1 cut(s)	843
BmiI	GGNNCC	1 cut(s)	58
BmrFI	CCNGG	2 cut(s)	200, 801
BmsI	GCATC	3 cut(s)	868, 874, 902
BpiI	GAAGAC	3 cut(s)	228, 231, 300
Bpu10I	CCTNAGC	3 cut(s)	266, 485, 632
Bpu14I	TTCGAA	1 cut(s)	219
BpuEI	CTTGAG	1 cut(s)	626
BsaBI	GATNNNNATC	1 cut(s)	561
BsaJI	CCNNGG	4 cut(s)	393, 799, 800, 839
BsaXI	ACNNNNNCTCC	2 cut(s)	494, 524
Bsc4I	CCNNNNNNNGG	1 cut(s)	715
Bse1I	ACTGG	1 cut(s)	796
Bse3DI	GCAATG	1 cut(s)	848
Bse8I	GATNNNNATC	1 cut(s)	561
BseBI	CCWGG	2 cut(s)	200, 801
BseDI	CCNNGG	4 cut(s)	393, 799, 800, 839
BseGI	GGATG	1 cut(s)	725
BseJI	GATNNNNATC	1 cut(s)	561
BseLI	CCNNNNNNNGG	1 cut(s)	715
BseMI	GCAATG	1 cut(s)	848
BseMII	CTCAG	3 cut(s)	257, 476, 623
BseNI	ACTGG	1 cut(s)	796
BseRI	GAGGAG	1 cut(s)	73
BseSI	GKGCMC	2 cut(s)	640, 701
BseXI	GCAGC	2 cut(s)	396, 874
Bsh1285I	CGRYCG	1 cut(s)	902
BshFI	GGCC	3 cut(s)	795, 823, 845
BsiEI	CGRYCG	1 cut(s)	902
BsiHKAI	GWGCWC	2 cut(s)	323, 435
BsiHKCI	CYCGRG	1 cut(s)	413
BsiSI	CCGG	2 cut(s)	385, 776
BslI	CCNNNNNNNGG	1 cut(s)	715
BsmAI	GTCTC	1 cut(s)	408
BsnI	GGCC	3 cut(s)	795, 823, 845
BsoBI	CYCGRG	1 cut(s)	413
Bsp119I	TTCGAA	1 cut(s)	219
Bsp1286I	GDGCHC	4 cut(s)	323, 435, 640, 701
Bsp143I	GATC	3 cut(s)	157, 562, 855
BspACI	CCGC	8 cut(s)	65, 203, 270, 305, 330, 357, 360, 860
BspANI	GGCC	3 cut(s)	795, 823, 845
BspCNI	CTCAG	3 cut(s)	258, 477, 624
BspLI	GGNNCC	1 cut(s)	58
BspMI	ACCTGC	1 cut(s)	898
BspPI	GGATC	1 cut(s)	850
BspT104I	TTCGAA	1 cut(s)	219
BsrBI	CCGCTC	1 cut(s)	270
BsrDI	GCAATG	1 cut(s)	848
BsrI	ACTGG	1 cut(s)	796
BssECI	CCNNGG	4 cut(s)	393, 799, 800, 839
BssMI	GATC	3 cut(s)	157, 562, 855
BssSI	CACGAG	1 cut(s)	448
BssT1I	CCWWGG	1 cut(s)	393
Bst2BI	CACGAG	1 cut(s)	448
Bst2UI	CCWGG	2 cut(s)	200, 801
Bst4CI	ACNGT	3 cut(s)	256, 657, 772
Bst6I	CTCTTC	1 cut(s)	591
BstAPI	GCANNNNNTGC	1 cut(s)	406
BstBI	TTCGAA	1 cut(s)	219
BstC8I	GCNNGC	1 cut(s)	323
BstDEI	CTNAG	5 cut(s)	266, 485, 534, 569, 632
BstDSI	CCRYGG	1 cut(s)	839
BstF5I	GGATG	1 cut(s)	725
BstHHI	GCGC	1 cut(s)	491
BstKTI	GATC	3 cut(s)	160, 565, 858
BstMAI	GTCTC	1 cut(s)	408
BstMBI	GATC	3 cut(s)	157, 562, 855
BstMCI	CGRYCG	1 cut(s)	902
BstMWI	GCNNNNNNNGC	8 cut(s)	288, 327, 357, 406, 705, 758, 792, 859
BstNI	CCWGG	2 cut(s)	200, 801
BstNSI	RCATGY	2 cut(s)	424, 667
BstSCI	CCNGG	2 cut(s)	198, 799
BstSLI	GKGCMC	2 cut(s)	640, 701
BstV1I	GCAGC	2 cut(s)	396, 874
BstV2I	GAAGAC	3 cut(s)	228, 231, 300
BsuRI	GGCC	3 cut(s)	795, 823, 845
BtgI	CCRYGG	1 cut(s)	839
BtrI	CACGTC	2 cut(s)	193, 369
BtsCI	GGATG	1 cut(s)	725
BtsI	GCAGTG	1 cut(s)	213
BtsIMutI	CAGTG	2 cut(s)	153, 213
BveI	ACCTGC	1 cut(s)	898
Cac8I	GCNNGC	1 cut(s)	323
CaiI	CAGNNNCTG	1 cut(s)	406
CfoI	GCGC	1 cut(s)	491
Cfr13I	GGNCC	1 cut(s)	843
CspCI	CAANNNNNGTGG	2 cut(s)	480, 515
CviAII	CATG	5 cut(s)	103, 421, 664, 694, 705
DdeI	CTNAG	5 cut(s)	266, 485, 534, 569, 632
DpnI	GATC	3 cut(s)	159, 564, 857
DpnII	GATC	3 cut(s)	157, 562, 855
DraIII	CACNNNGTG	1 cut(s)	696
EaeI	YGGCCR	1 cut(s)	793
Eam1104I	CTCTTC	1 cut(s)	591
EarI	CTCTTC	1 cut(s)	591
EciI	GGCGGA	2 cut(s)	320, 345
Eco130I	CCWWGG	1 cut(s)	393
Eco57I	CTGAAG	1 cut(s)	560
Eco88I	CYCGRG	1 cut(s)	413
EcoRII	CCWGG	2 cut(s)	198, 799
EcoT14I	CCWWGG	1 cut(s)	393
ErhI	CCWWGG	1 cut(s)	393
FaeI	CATG	5 cut(s)	106, 424, 667, 697, 708
FaiI	YATR	7 cut(s)	54, 104, 422, 438, 665, 695, 706
FatI	CATG	5 cut(s)	102, 420, 663, 693, 704
FauI	CCCGC	1 cut(s)	867
FbaI	TGATCA	1 cut(s)	562
Fnu4HI	GCNGC	5 cut(s)	204, 358, 361, 410, 863
FokI	GGATG	1 cut(s)	712
Fsp4HI	GCNGC	5 cut(s)	204, 358, 361, 410, 863
FspBI	CTAG	1 cut(s)	747
GlaI	GCGC	1 cut(s)	490
GluI	GCNGC	5 cut(s)	204, 358, 361, 410, 863
HaeIII	GGCC	3 cut(s)	795, 823, 845
HapII	CCGG	2 cut(s)	385, 776
HhaI	GCGC	1 cut(s)	491
Hin1II	CATG	5 cut(s)	106, 424, 667, 697, 708
Hin6I	GCGC	1 cut(s)	489
HinP1I	GCGC	1 cut(s)	489
HindIII	AAGCTT	1 cut(s)	644
HinfI	GANTC	4 cut(s)	109, 150, 186, 586
HpaII	CCGG	2 cut(s)	385, 776
HphI	GGTGA	3 cut(s)	17, 382, 682
Hpy166II	GTNNAC	1 cut(s)	196
Hpy188I	TCNGA	3 cut(s)	246, 516, 591
Hpy188III	TCNNGA	2 cut(s)	113, 903
Hpy8I	GTNNAC	1 cut(s)	196
Hpy99I	CGWCG	6 cut(s)	172, 175, 194, 341, 344, 373
HpyAV	CCTTC	2 cut(s)	78, 711
HpyCH4III	ACNGT	3 cut(s)	256, 657, 772
HpyCH4IV	ACGT	3 cut(s)	173, 192, 368
HpyCH4V	TGCA	6 cut(s)	106, 613, 625, 667, 881, 893
HpyF10VI	GCNNNNNNNGC	8 cut(s)	288, 327, 357, 406, 705, 758, 792, 859
HpyF3I	CTNAG	5 cut(s)	266, 485, 534, 569, 632
HpySE526I	ACGT	3 cut(s)	173, 192, 368
Hsp92II	CATG	5 cut(s)	106, 424, 667, 697, 708
HspAI	GCGC	1 cut(s)	489
Ksp22I	TGATCA	1 cut(s)	562
Kzo9I	GATC	3 cut(s)	157, 562, 855
LmnI	GCTCC	3 cut(s)	387, 397, 430
Lsp1109I	GCAGC	2 cut(s)	396, 874
LweI	GCATC	3 cut(s)	868, 874, 902
MaeI	CTAG	1 cut(s)	747
MaeII	ACGT	3 cut(s)	173, 192, 368
MaeIII	GTNAC	2 cut(s)	5, 721
MalI	GATC	3 cut(s)	159, 564, 857
MbiI	CCGCTC	1 cut(s)	270
MboI	GATC	3 cut(s)	157, 562, 855
MhlI	GDGCHC	4 cut(s)	323, 435, 640, 701
MlsI	TGGCCA	1 cut(s)	795
MluCI	AATT	1 cut(s)	464
MluNI	TGGCCA	1 cut(s)	795
Mox20I	TGGCCA	1 cut(s)	795
MscI	TGGCCA	1 cut(s)	795
MslI	CAYNNNNRTG	2 cut(s)	668, 709
Msp20I	TGGCCA	1 cut(s)	795
MspI	CCGG	2 cut(s)	385, 776
MspR9I	CCNGG	2 cut(s)	200, 801
MvaI	CCWGG	2 cut(s)	200, 801
MwoI	GCNNNNNNNGC	8 cut(s)	288, 327, 357, 406, 705, 758, 792, 859
NdeII	GATC	3 cut(s)	157, 562, 855
NlaIII	CATG	5 cut(s)	106, 424, 667, 697, 708
NlaIV	GGNNCC	1 cut(s)	58
NmeAIII	GCCGAG	1 cut(s)	306
NmuCI	GTSAC	1 cut(s)	5
NspI	RCATGY	2 cut(s)	424, 667
NspV	TTCGAA	1 cut(s)	219
PaeR7I	CTCGAG	1 cut(s)	413
PaqCI	CACCTGC	1 cut(s)	898
PasI	CCCWGGG	1 cut(s)	800
PciI	ACATGT	1 cut(s)	420
PcsI	WCGNNNNNNNCGW	2 cut(s)	231, 333
PfeI	GAWTC	4 cut(s)	109, 150, 186, 586
PflMI	CCANNNNNTGG	1 cut(s)	715
PkrI	GCNGC	5 cut(s)	205, 359, 362, 411, 864
PscI	ACATGT	1 cut(s)	420
Psp6I	CCWGG	2 cut(s)	198, 799
PspGI	CCWGG	2 cut(s)	198, 799
PspN4I	GGNNCC	1 cut(s)	58
PspPI	GGNCC	1 cut(s)	843
PspXI	VCTCGAGB	1 cut(s)	413
PstNI	CAGNNNCTG	1 cut(s)	406
RseI	CAYNNNNRTG	2 cut(s)	668, 709
SatI	GCNGC	5 cut(s)	204, 358, 361, 410, 863
Sau3AI	GATC	3 cut(s)	157, 562, 855
Sau96I	GGNCC	1 cut(s)	843
ScrFI	CCNGG	2 cut(s)	200, 801
SduI	GDGCHC	4 cut(s)	323, 435, 640, 701
SfaNI	GCATC	3 cut(s)	868, 874, 902
Sfr274I	CTCGAG	1 cut(s)	413
SfuI	TTCGAA	1 cut(s)	219
SlaI	CTCGAG	1 cut(s)	413
SmiMI	CAYNNNNRTG	2 cut(s)	668, 709
SmlI	CTYRAG	2 cut(s)	413, 641
SmoI	CTYRAG	2 cut(s)	413, 641
Sse9I	AATT	1 cut(s)	464
SsiI	CCGC	8 cut(s)	65, 203, 270, 305, 330, 357, 360, 860
SspMI	CTAG	1 cut(s)	747
StyD4I	CCNGG	2 cut(s)	198, 799
StyI	CCWWGG	1 cut(s)	393
TaaI	ACNGT	3 cut(s)	256, 657, 772
TaiI	ACGT	3 cut(s)	176, 195, 371
TaqI	TCGA	7 cut(s)	160, 189, 219, 260, 371, 414, 868
TaqII	GACCGA	1 cut(s)	888
TasI	AATT	1 cut(s)	464
TauI	GCSGC	3 cut(s)	206, 360, 363
TfiI	GAWTC	4 cut(s)	109, 150, 186, 586
TscAI	CASTG	2 cut(s)	160, 213
TseFI	GTSAC	1 cut(s)	5
TseI	GCWGC	2 cut(s)	409, 862
Tsp45I	GTSAC	1 cut(s)	5
TspDTI	ATGAA	3 cut(s)	686, 693, 726
TspRI	CASTG	2 cut(s)	160, 213
Van91I	CCANNNNNTGG	1 cut(s)	715
XceI	RCATGY	2 cut(s)	424, 667
XcmI	CCANNNNNNNNNTGG	1 cut(s)	837
XhoI	CTCGAG	1 cut(s)	413
XspI	CTAG	1 cut(s)	747

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