Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr5

Orthogroup ID

OG0007908

Physical Location & Seq

Genomic Coordinates Forward (+)

25571216 .. 25572780

Gene Structure 1565 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000023581

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1041 bp

ATGGAGCTTGCTCTCAGCTTAGGCGATGCTCCAAAGCAGTTTCTCTTCCTTGACAAAACCCCAAGCATGGGTAGCAACAAGGATCTAGGGTTTTGCATGGCCCTAGGAAGCAGGGAAAGCCGTGAAGGTTATGATCAAGAAGATGAGAGTAGTCGAAGAAGAAGTAGAAGGGTTTCATCAGATCCACCTATTCAGCTCAATCTCTTGCCTTCTGCCCCGGTTATGAAGACTTCTTCTCAGCTTCGCTTCCCCTGGCTCACTGATAACTTGGCAGTGTCCGAACCGGCCGGTCTAGATGAACCAGGAAAGGGGCTCGATGTAAATCGGTTCCCCTTGGTGGCGGGTACGGCCGATGAGGCAGAAGACGCGGCGGCCCAGCTCTCTTCTCCGAACAGCACCGTGTCTTCGTTCCAGATGGATTTTGGTGTTAGGAGAAGCAAGAGAGACTTGGATTTGGAGGTGCTCGAGACGGAGAGAGCGAGTTCAAGAGCGAGTGACGACGACGAGAACGGGTCGACTCGGAAGAAACTCAGGCTCTCCAAGGACCAATCGGCTTTTCTTGAAGAGAGCTTCAAAGAACACAGCACCTTAAATCCCAAGCAAAAAATAGCTCTGGCAAAACAGTTAAATCTTCGTCCCCGCCAAGTGGAAGTGTGGTTTCAGAATCGAAGAGCAAGGACCAAGCTGAAGCAGACAGAAGTAGATTGCGAGTACTTAAAGAGGTGCTGCGAAACACTGACAGAAGAGAACAGGAGGTTACAAAAGGAACTGCAAGAATTAAGAGCCTTGAAAACCTCTCAACCTTTCTACATGCAACTTCCTGCCACCACTCTCACAATGTGTCCCTCCTGTGAGCGCGTCGTCACTACCGCCTCCCCCAACACTACTACCACCAACCCAACCACCAACACCACCATCAAGTCTTCTTCTCCTTCTTCTGGTCTAACCAATAACCATTCAAGGTTACACAGTCACGTTCCCTTTGCTCAAGCCCAGGCTCACATGCAGCCTCAGGTCCAAGCTAACAAAGGTGCTGCATGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003700 GO:0006355 GO:0008150 GO:0009889 GO:0010468 GO:0010556 GO:0019219 GO:0019222 GO:0031323 GO:0031326 GO:0050789 GO:0050794 GO:0051171 GO:0051252 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

347

Amino Acids

38.58

Weight (kDa)

8.47

Isoelectric Point (pI)

65.24

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
HD-ZIP_N	PF04618	50 - 148	1.4e-07	HD-ZIP protein N terminus
Homeodomain	PF00046	174 - 228	1.8e-15	Homeodomain
HALZ	PF02183	230 - 264	9e-11	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: OG0007908)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G06710 AT5G06710 AT5G06710 AT5G06710
fragaria_vesca	FvH4_6g22050
malus_domestica	MD01G1069700.v1.1 MD12G1055800.v1.1 MD14G1056200.v1.1 MD14G1056300.v1.1
prunus_persica	Prupe.7G079300_v2.0.a1 Prupe.7G079300_v2.0.a1
pyrus_communis	pycom12g04870 pycom14g04600
rosa_chinensis	RchiOBHm_Chr3g0479361
rosa_laevigata	RLG00000023581
rosa_multiflora	Rmu_sc0006763.1_g000001 Rmu_sc0033237.1_g000001
rosa_roxburghii	Rroxscaffold_6G00402380
rosa_rugosa	Rorug03G0174600
rosa_samantha	Rh3AG225900 Rh3BG258600 Rh3CG254200 Rh3DG250000
rosa_wichuraiana	Rw3G020170

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccI	GTMKAC	1 cut(s)	515
AccII	CGCG	2 cut(s)	368, 858
AciI	CCGC	5 cut(s)	341, 368, 371, 640, 870
AclWI	GGATC	2 cut(s)	90, 176
AcoI	YGGCCR	2 cut(s)	285, 348
AcuI	CTGAAG	1 cut(s)	707
AdeI	CACNNNGTG	1 cut(s)	840
AfaI	GTAC	2 cut(s)	346, 713
AfiI	CCNNNNNNNGG	6 cut(s)	67, 68, 308, 337, 646, 938
AgsI	TTSAA	5 cut(s)	486, 563, 574, 790, 960
AjnI	CCWGG	3 cut(s)	251, 301, 993
AjuI	GAANNNNNNNTTGG	2 cut(s)	540, 572
AluBI	AGCT	9 cut(s)	7, 18, 196, 241, 379, 570, 611, 685, 1022
AluI	AGCT	9 cut(s)	7, 18, 196, 241, 379, 570, 611, 685, 1022
Alw21I	GWGCWC	1 cut(s)	465
Alw26I	GTCTC	2 cut(s)	438, 461
AlwI	GGATC	2 cut(s)	90, 176
Ama87I	CYCGRG	1 cut(s)	464
AoxI	GGCC	4 cut(s)	99, 285, 348, 372
ApeKI	GCWGC	3 cut(s)	726, 1006, 1034
Asp700I	GAANNNNTTC	1 cut(s)	172
AspA2I	CCTAGG	1 cut(s)	103
AspLEI	GCGC	1 cut(s)	858
AspS9I	GGNCC	5 cut(s)	100, 373, 544, 678, 1015
AsuC2I	CCSGG	1 cut(s)	218
AvaI	CYCGRG	1 cut(s)	464
AvaII	GGWCC	3 cut(s)	544, 678, 1015
AvrII	CCTAGG	1 cut(s)	103
AxyI	CCTNAGG	1 cut(s)	1011
BanII	GRGCYC	1 cut(s)	315
BbsI	GAAGAC	4 cut(s)	233, 369, 396, 915
Bbv12I	GWGCWC	1 cut(s)	465
BbvI	GCAGC	3 cut(s)	713, 1018, 1021
BccI	CCATC	2 cut(s)	409, 923
BceAI	ACGGC	2 cut(s)	105, 363
BciT130I	CCWGG	3 cut(s)	253, 303, 995
BclI	TGATCA	1 cut(s)	133
BcnI	CCSGG	1 cut(s)	218
BcoDI	GTCTC	2 cut(s)	438, 461
BfaI	CTAG	3 cut(s)	86, 104, 293
BglI	GCCNNNNNGGC	1 cut(s)	356
BisI	GCNGC	5 cut(s)	369, 372, 727, 1007, 1035
BlnI	CCTAGG	1 cut(s)	103
BlsI	GCNGC	5 cut(s)	370, 373, 728, 1008, 1036
BmcAI	AGTACT	1 cut(s)	713
Bme1390I	CCNGG	4 cut(s)	218, 253, 303, 995
Bme18I	GGWCC	3 cut(s)	544, 678, 1015
BmeT110I	CYCGRG	1 cut(s)	464
BmgT120I	GGNCC	5 cut(s)	100, 373, 544, 678, 1015
BmiI	GGNNCC	1 cut(s)	329
BmrFI	CCNGG	4 cut(s)	218, 253, 303, 995
BmsI	GCATC	1 cut(s)	16
BpiI	GAAGAC	4 cut(s)	233, 369, 396, 915
Bpu10I	CCTNAGC	1 cut(s)	19
BpuEI	CTTGAG	1 cut(s)	972
BpuMI	CCSGG	1 cut(s)	218
BsaBI	GATNNNNATC	1 cut(s)	321
BsaJI	CCNNGG	6 cut(s)	103, 216, 251, 333, 540, 993
Bsc4I	CCNNNNNNNGG	6 cut(s)	67, 68, 308, 337, 646, 938
Bse118I	RCCGGY	2 cut(s)	283, 287
Bse21I	CCTNAGG	1 cut(s)	1011
Bse8I	GATNNNNATC	1 cut(s)	321
BseBI	CCWGG	3 cut(s)	253, 303, 995
BseDI	CCNNGG	6 cut(s)	103, 216, 251, 333, 540, 993
BseJI	GATNNNNATC	1 cut(s)	321
BseLI	CCNNNNNNNGG	6 cut(s)	67, 68, 308, 337, 646, 938
BseMII	CTCAG	4 cut(s)	28, 251, 544, 1025
BseX3I	CGGCCG	2 cut(s)	285, 348
BseXI	GCAGC	3 cut(s)	713, 1018, 1021
BseYI	CCCAGC	1 cut(s)	375
Bsh1236I	CGCG	2 cut(s)	368, 858
Bsh1285I	CGRYCG	2 cut(s)	288, 351
BshFI	GGCC	4 cut(s)	101, 287, 350, 374
BsiEI	CGRYCG	2 cut(s)	288, 351
BsiHKAI	GWGCWC	1 cut(s)	465
BsiHKCI	CYCGRG	1 cut(s)	464
BsiSI	CCGG	3 cut(s)	218, 284, 288
BslFI	GGGAC	2 cut(s)	621, 828
BslI	CCNNNNNNNGG	6 cut(s)	67, 68, 308, 337, 646, 938
BsmAI	GTCTC	2 cut(s)	438, 461
BsmBI	CGTCTC	1 cut(s)	461
BsmFI	GGGAC	2 cut(s)	621, 828
BsnI	GGCC	4 cut(s)	101, 287, 350, 374
BsoBI	CYCGRG	1 cut(s)	464
Bsp1286I	GDGCHC	2 cut(s)	315, 465
Bsp143I	GATC	3 cut(s)	82, 133, 181
BspACI	CCGC	5 cut(s)	341, 368, 371, 640, 870
BspANI	GGCC	4 cut(s)	101, 287, 350, 374
BspCNI	CTCAG	4 cut(s)	27, 250, 543, 1024
BspFNI	CGCG	2 cut(s)	368, 858
BspLI	GGNNCC	1 cut(s)	329
BspPI	GGATC	2 cut(s)	90, 176
BspQI	GCTCTTC	1 cut(s)	664
BsrFI	RCCGGY	2 cut(s)	283, 287
BssAI	RCCGGY	2 cut(s)	283, 287
BssECI	CCNNGG	6 cut(s)	103, 216, 251, 333, 540, 993
BssMI	GATC	3 cut(s)	82, 133, 181
BssT1I	CCWWGG	3 cut(s)	103, 333, 540
Bst2UI	CCWGG	3 cut(s)	253, 303, 995
Bst4CI	ACNGT	3 cut(s)	400, 624, 971
Bst6I	CTCTTC	5 cut(s)	50, 388, 558, 664, 738
BstC8I	GCNNGC	1 cut(s)	9
BstDEI	CTNAG	5 cut(s)	14, 19, 237, 530, 1011
BstFNI	CGCG	2 cut(s)	368, 858
BstHHI	GCGC	1 cut(s)	858
BstKTI	GATC	3 cut(s)	85, 136, 184
BstMAI	GTCTC	2 cut(s)	438, 461
BstMBI	GATC	3 cut(s)	82, 133, 181
BstMCI	CGRYCG	2 cut(s)	288, 351
BstMWI	GCNNNNNNNGC	5 cut(s)	72, 117, 347, 356, 365
BstNI	CCWGG	3 cut(s)	253, 303, 995
BstNSI	RCATGY	2 cut(s)	814, 1006
BstSCI	CCNGG	4 cut(s)	216, 251, 301, 993
BstUI	CGCG	2 cut(s)	368, 858
BstV1I	GCAGC	3 cut(s)	713, 1018, 1021
BstV2I	GAAGAC	4 cut(s)	233, 369, 396, 915
BstX2I	RGATCY	2 cut(s)	82, 181
BstYI	RGATCY	2 cut(s)	82, 181
BstZI	CGGCCG	2 cut(s)	285, 348
Bsu36I	CCTNAGG	1 cut(s)	1011
BsuRI	GGCC	4 cut(s)	101, 287, 350, 374
BtgZI	GCGATG	1 cut(s)	39
BtsI	GCAGTG	1 cut(s)	279
BtsIMutI	CAGTG	3 cut(s)	258, 279, 734
Cac8I	GCNNGC	1 cut(s)	9
CfoI	GCGC	1 cut(s)	858
Cfr10I	RCCGGY	2 cut(s)	283, 287
Cfr13I	GGNCC	5 cut(s)	100, 373, 544, 678, 1015
CseI	GACGC	2 cut(s)	374, 847
Csp6I	GTAC	2 cut(s)	345, 712
CviAII	CATG	5 cut(s)	67, 97, 811, 1003, 1038
CviQI	GTAC	2 cut(s)	345, 712
DdeI	CTNAG	5 cut(s)	14, 19, 237, 530, 1011
DpnI	GATC	3 cut(s)	84, 135, 183
DpnII	GATC	3 cut(s)	82, 133, 181
DraIII	CACNNNGTG	1 cut(s)	840
EaeI	YGGCCR	2 cut(s)	285, 348
EagI	CGGCCG	2 cut(s)	285, 348
Eam1104I	CTCTTC	5 cut(s)	50, 388, 558, 664, 738
EarI	CTCTTC	5 cut(s)	50, 388, 558, 664, 738
EclXI	CGGCCG	2 cut(s)	285, 348
Eco130I	CCWWGG	3 cut(s)	103, 333, 540
Eco24I	GRGCYC	1 cut(s)	315
Eco47I	GGWCC	3 cut(s)	544, 678, 1015
Eco52I	CGGCCG	2 cut(s)	285, 348
Eco57I	CTGAAG	1 cut(s)	707
Eco81I	CCTNAGG	1 cut(s)	1011
Eco88I	CYCGRG	1 cut(s)	464
EcoRII	CCWGG	3 cut(s)	251, 301, 993
EcoT14I	CCWWGG	3 cut(s)	103, 333, 540
EcoT38I	GRGCYC	1 cut(s)	315
ErhI	CCWWGG	3 cut(s)	103, 333, 540
Esp3I	CGTCTC	1 cut(s)	461
FaeI	CATG	5 cut(s)	70, 100, 814, 1006, 1041
FaiI	YATR	7 cut(s)	68, 98, 132, 224, 812, 1004, 1039
FalI	AAGNNNNNCTT	2 cut(s)	431, 463
FaqI	GGGAC	2 cut(s)	621, 828
FatI	CATG	5 cut(s)	66, 96, 810, 1002, 1037
FauI	CCCGC	2 cut(s)	334, 647
FbaI	TGATCA	1 cut(s)	133
FblI	GTMKAC	1 cut(s)	515
Fnu4HI	GCNGC	5 cut(s)	369, 372, 727, 1007, 1035
FriOI	GRGCYC	1 cut(s)	315
Fsp4HI	GCNGC	5 cut(s)	369, 372, 727, 1007, 1035
FspBI	CTAG	3 cut(s)	86, 104, 293
GlaI	GCGC	1 cut(s)	857
GluI	GCNGC	5 cut(s)	369, 372, 727, 1007, 1035
GsaI	CCCAGC	1 cut(s)	379
HaeIII	GGCC	4 cut(s)	101, 287, 350, 374
HapII	CCGG	3 cut(s)	218, 284, 288
HgaI	GACGC	2 cut(s)	374, 847
HhaI	GCGC	1 cut(s)	858
Hin1II	CATG	5 cut(s)	70, 100, 814, 1006, 1041
Hin6I	GCGC	1 cut(s)	856
HinP1I	GCGC	1 cut(s)	856
HincII	GTYRAC	1 cut(s)	516
HindII	GTYRAC	1 cut(s)	516
HinfI	GANTC	2 cut(s)	517, 664
HpaII	CCGG	3 cut(s)	218, 284, 288
Hpy166II	GTNNAC	1 cut(s)	516
Hpy188I	TCNGA	5 cut(s)	181, 280, 390, 522, 663
Hpy188III	TCNNGA	6 cut(s)	137, 293, 412, 466, 486, 560
Hpy8I	GTNNAC	1 cut(s)	516
Hpy99I	CGWCG	3 cut(s)	503, 506, 863
HpyAV	CCTTC	4 cut(s)	119, 162, 219, 942
HpyCH4III	ACNGT	3 cut(s)	400, 624, 971
HpyCH4IV	ACGT	1 cut(s)	975
HpyCH4V	TGCA	5 cut(s)	96, 772, 814, 1006, 1037
HpyF10VI	GCNNNNNNNGC	5 cut(s)	72, 117, 347, 356, 365
HpyF3I	CTNAG	5 cut(s)	14, 19, 237, 530, 1011
HpySE526I	ACGT	1 cut(s)	975
Hsp92II	CATG	5 cut(s)	70, 100, 814, 1006, 1041
HspAI	GCGC	1 cut(s)	856
Ksp22I	TGATCA	1 cut(s)	133
Kzo9I	GATC	3 cut(s)	82, 133, 181
LguI	GCTCTTC	1 cut(s)	664
LmnI	GCTCC	2 cut(s)	4, 34
Lsp1109I	GCAGC	3 cut(s)	713, 1018, 1021
LweI	GCATC	1 cut(s)	16
MaeI	CTAG	3 cut(s)	86, 104, 293
MaeII	ACGT	1 cut(s)	975
MaeIII	GTNAC	5 cut(s)	494, 756, 862, 963, 971
MalI	GATC	3 cut(s)	84, 135, 183
MboI	GATC	3 cut(s)	82, 133, 181
MflI	RGATCY	2 cut(s)	82, 181
MhlI	GDGCHC	2 cut(s)	315, 465
MluCI	AATT	1 cut(s)	776
MlyI	GAGTC	1 cut(s)	511
MnlI	CCTC	8 cut(s)	349, 451, 714, 747, 805, 856, 883, 1020
MroXI	GAANNNNTTC	1 cut(s)	172
MseI	TTAA	4 cut(s)	590, 626, 716, 779
MspI	CCGG	3 cut(s)	218, 284, 288
MspR9I	CCNGG	4 cut(s)	218, 253, 303, 995
MvaI	CCWGG	3 cut(s)	253, 303, 995
MvnI	CGCG	2 cut(s)	368, 858
MwoI	GCNNNNNNNGC	5 cut(s)	72, 117, 347, 356, 365
NciI	CCSGG	1 cut(s)	218
NdeII	GATC	3 cut(s)	82, 133, 181
NlaIII	CATG	5 cut(s)	70, 100, 814, 1006, 1041
NlaIV	GGNNCC	1 cut(s)	329
NmuCI	GTSAC	3 cut(s)	494, 862, 971
NspI	RCATGY	2 cut(s)	814, 1006
PaeR7I	CTCGAG	1 cut(s)	464
PciSI	GCTCTTC	1 cut(s)	664
PcsI	WCGNNNNNNNCGW	1 cut(s)	476
PdmI	GAANNNNTTC	1 cut(s)	172
PfeI	GAWTC	1 cut(s)	664
PkrI	GCNGC	5 cut(s)	370, 373, 728, 1008, 1036
PleI	GAGTC	1 cut(s)	511
PpsI	GAGTC	1 cut(s)	511
Psp6I	CCWGG	3 cut(s)	251, 301, 993
PspFI	CCCAGC	1 cut(s)	375
PspGI	CCWGG	3 cut(s)	251, 301, 993
PspN4I	GGNNCC	1 cut(s)	329
PspPI	GGNCC	5 cut(s)	100, 373, 544, 678, 1015
PsuI	RGATCY	2 cut(s)	82, 181
RsaI	GTAC	2 cut(s)	346, 713
RsaNI	GTAC	2 cut(s)	345, 712
SalI	GTCGAC	1 cut(s)	514
SapI	GCTCTTC	1 cut(s)	664
SaqAI	TTAA	4 cut(s)	590, 626, 716, 779
SatI	GCNGC	5 cut(s)	369, 372, 727, 1007, 1035
Sau3AI	GATC	3 cut(s)	82, 133, 181
Sau96I	GGNCC	5 cut(s)	100, 373, 544, 678, 1015
ScaI	AGTACT	1 cut(s)	713
SchI	GAGTC	1 cut(s)	511
ScrFI	CCNGG	4 cut(s)	218, 253, 303, 995
SduI	GDGCHC	2 cut(s)	315, 465
SfaNI	GCATC	1 cut(s)	16
Sfr274I	CTCGAG	1 cut(s)	464
SinI	GGWCC	3 cut(s)	544, 678, 1015
SlaI	CTCGAG	1 cut(s)	464
SmlI	CTYRAG	2 cut(s)	464, 987
SmoI	CTYRAG	2 cut(s)	464, 987
Sse9I	AATT	1 cut(s)	776
SsiI	CCGC	5 cut(s)	341, 368, 371, 640, 870
SspMI	CTAG	3 cut(s)	86, 104, 293
StyD4I	CCNGG	4 cut(s)	216, 251, 301, 993
StyI	CCWWGG	3 cut(s)	103, 333, 540
TaaI	ACNGT	3 cut(s)	400, 624, 971
TaiI	ACGT	1 cut(s)	978
TaqI	TCGA	5 cut(s)	154, 315, 465, 515, 667
TasI	AATT	1 cut(s)	776
TatI	WGTACW	1 cut(s)	711
TauI	GCSGC	2 cut(s)	371, 374
TfiI	GAWTC	1 cut(s)	664
Tru1I	TTAA	4 cut(s)	590, 626, 716, 779
Tru9I	TTAA	4 cut(s)	590, 626, 716, 779
TscAI	CASTG	3 cut(s)	265, 279, 741
TseFI	GTSAC	3 cut(s)	494, 862, 971
TseI	GCWGC	3 cut(s)	726, 1006, 1034
Tsp45I	GTSAC	3 cut(s)	494, 862, 971
TspDTI	ATGAA	3 cut(s)	165, 239, 312
TspGWI	ACGGA	1 cut(s)	485
TspRI	CASTG	3 cut(s)	265, 279, 741
VpaK11BI	GGWCC	3 cut(s)	544, 678, 1015
XbaI	TCTAGA	1 cut(s)	292
XceI	RCATGY	2 cut(s)	814, 1006
XcmI	CCANNNNNNNNNTGG	1 cut(s)	419
XhoI	CTCGAG	1 cut(s)	464
XmaJI	CCTAGG	1 cut(s)	103
XmiI	GTMKAC	1 cut(s)	515
XmnI	GAANNNNTTC	1 cut(s)	172
XspI	CTAG	3 cut(s)	86, 104, 293
ZrmI	AGTACT	1 cut(s)	713

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