Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3D

Orthogroup ID

OG0000373

Physical Location & Seq

Genomic Coordinates Reverse (-)

2792377 .. 2797294

Gene Structure 4918 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3DG042800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 993 bp

ATGAATTCAGCTAGCGGTTTGATGGAGGACAAGTGTGCAATCAAGAATGATGTCACCGAATTAATAGGAAATACCCCAATGGTATATCTCAACAATGTCGTGGATGGTTGTGTAGCCAGAATTGCTGCCAAGCTAGAGACAATGGAGCCTTGCTCTAGTGTAAAAGACAGGATCGCTTATAGCATGATCAAGGATGCAGAGGATAAAGGTCTAATTACACCAGGGAAGACTGTTCTTATTGAGGTTACAAGTGGTAACACTGGCATTGGATTGGCATTCATTGCCGCAATCAAGGGTTACAAGCTCAAGCTAAGCATGCCAGCTACAATGAGTCTTGAAAGAAGAATTGTGCTCCGAGCTTTTGGAGCTGAGGTCTTCATCGCAGATCCTGCCAGGGGCTTTGAGGGAGCTTTTGCCAAGGCAGACGAGCTGCTAAGTAACACACCTAATAGCTTTATACTTCAACAATCGGAAAACCCTGCCAATCCAAAGATTCATTATGAAACCACTGGCCCGGAGATATGGAGAGACTCAGGAGGGAAAGTTGATGTTTTTGTTTCAGCAATAGGGACTGGAGGTACTGTAACCGGTGCAGGAAGCTTCCTTAAAGAGCAAAATCCAGATATTAAGGTGTATGGTGTAGAACCAGCTGAAAGTGCAGTATTGAATGGTGGCAAACCTGGGATGCATCTGATCCAAGGAATTGGTGCTGGTTTCATACCTCAAGTTCTGGATGTTAGCTTGCTGGATGAAGTTATTCAAGTATCCAGTGAGGAAGCAATTGAAACTGCTAAGCTGCTTGCGCTAAAAGAAGGTCTTTTGGTGGGGATTTCATCAGGTGCTGCTGCAGCAGCAGCAATAAAGTTGGCAAGGAAGCAAGAAAATGCTGGAAAATTAATAGTTGTTGTGTTTGCCAGTTCTGGAGAGCGTTATCTGTCTTCTCCACTCTTCGATTCCATTAGGCACGAGGCAGAAAATATGAAGTTTGAATGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000096 GO:0000097 GO:0003674 GO:0003824 GO:0004124 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0006082 GO:0006520 GO:0006534 GO:0006535 GO:0006563 GO:0006790 GO:0006807 GO:0008144 GO:0008150 GO:0008152 GO:0008652 GO:0009058 GO:0009069 GO:0009070 GO:0009987 GO:0016053 GO:0016740 GO:0016765 GO:0016829 GO:0016846 GO:0019344 GO:0019752 GO:0019842 GO:0030170 GO:0036094 GO:0042592 GO:0043167 GO:0043168 GO:0043436 GO:0044237 GO:0044238 GO:0044249 GO:0044272 GO:0044281 GO:0044283 GO:0044424 GO:0044464 GO:0046394 GO:0048037 GO:0048878 GO:0050662 GO:0050801 GO:0055080 GO:0055081 GO:0065007 GO:0065008 GO:0070279 GO:0071704 GO:0080144 GO:0080145 GO:0080146 GO:0097159 GO:1901363 GO:1901564 GO:1901566 GO:1901576 GO:1901605 GO:1901607

KEGG Pathways

Metabolic & Signaling

ko00270 ko00920 ko01100 ko01110 ko01120 ko01130 ko01200 ko01230 map00270 map00920 map01100 map01110 map01120 map01130 map01200 map01230

Pfam Domains

Protein Families

PALP

Protein Analysis

330

Amino Acids

34.91

Weight (kDa)

5.17

Isoelectric Point (pI)

24.69

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PALP	PF00291	18 - 304	6.8e-74	Pyridoxal-phosphate dependent enzyme

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: OG0000373)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G04940 AT3G04940 AT5G28020 AT5G28020 AT5G28020 AT5G28020 AT5G28020 AT5G28020 AT5G28030 AT5G28030 AT5G28030 AT5G28030 AT5G28030
fragaria_vesca	FvH4_6g03790 FvH4_6g03790 FvH4_6g03790 FvH4_6g03790 FvH4_6g03790 FvH4_6g03790 FvH4_6g03830 FvH4_6g03830 FvH4_6g03830 FvH4_6g03830 FvH4_6g03830 FvH4_6g03830 FvH4_6g03830 FvH4_6g03830 FvH4_6g03830 FvH4_6g03830 FvH4_6g03830 FvH4_6g03830 FvH4_6g03830
malus_domestica	MD04G1218200.v1.1 MD04G1218300.v1.1 MD04G1218500.v1.1 MD12G1235500.v1.1
prunus_persica	Prupe.6G338100_v2.0.a1 Prupe.6G338100_v2.0.a1 Prupe.6G338100_v2.0.a1 Prupe.6G338100_v2.0.a1
pyrus_communis	pycom04g19410 pycom04g19420
rosa_chinensis	RchiOBHm_Chr3g0452261 RchiOBHm_Chr3g0452281 RchiOBHm_Chr3g0452291 RchiOBHm_Chr3g0452301 RchiOBHm_Chr3g0452341 RchiOBHm_Chr3g0452361 RchiOBHm_Chr3g0452371 RchiOBHm_Chr3g0452381 RchiOBHm_Chr3g0452931
rosa_laevigata	RLG00000025606 RLG00000025607 RLG00000025609 RLG00000025610 RLG00000025612 RLG00000025613
rosa_multiflora	Rmu_sc0002823.1_g000002 Rmu_sc0010928.1_g000005 Rmu_sc0010928.1_g000006 Rmu_sc0010928.1_g000011 Rmu_sc0010928.1_g000012 Rmu_sc0010928.1_g000015 Rmu_sc0011680.1_g000012 Rmu_sc0011680.1_g000014 Rmu_sc0011680.1_g000015
rosa_roxburghii	Rroxscaffold_6G00429380 Rroxscaffold_6G00429390 Rroxscaffold_6G00429400 Rroxscaffold_6G00429410 Rroxscaffold_6G00429420
rosa_rugosa	Rorug02G0639700 Rorug02G0639800 Rorug02G0639900 Rorug02G0639900 Rorug02G0639900 Rorug02G0640000 Rorug02G0640000 Rorug02G0640100 Rorug02G0640200 Rorug02G0640300 Rorug02G0640300 Rorug02G0640300 Rorug02G0640300 Rorug02G0640400 Rorug02G0643700
rosa_samantha	Rh3AG041800 Rh3AG042100 Rh3AG042200 Rh3AG046700 Rh3BG043400 Rh3CG041800 Rh3DG042700 Rh3DG042800 Rh3DG043100 Rh3DG043200 Rh3DG048700
rosa_wichuraiana	Rw3G003180 Rw3G003190 Rw3G003200 Rw3G003220 Rw3G003230 Rw3G003240 Rw3G003660

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AciI	CCGC	2 cut(s)	15, 285
AclWI	GGATC	3 cut(s)	179, 380, 688
AcsI	RAATTY	1 cut(s)	4
AfaI	GTAC	1 cut(s)	580
AfiI	CCNNNNNNNGG	1 cut(s)	395
AgeI	ACCGGT	1 cut(s)	587
AgsI	TTSAA	6 cut(s)	338, 464, 667, 761, 785, 989
AjnI	CCWGG	3 cut(s)	220, 392, 679
Alw21I	GWGCWC	1 cut(s)	354
Alw26I	GTCTC	2 cut(s)	131, 522
AlwI	GGATC	3 cut(s)	179, 380, 688
AlwNI	CAGNNNCTG	2 cut(s)	389, 842
AoxI	GGCC	1 cut(s)	511
ApeKI	GCWGC	8 cut(s)	125, 430, 796, 842, 845, 848, 851, 854
ApoI	RAATTY	1 cut(s)	4
AseI	ATTAAT	2 cut(s)	62, 896
AsiGI	ACCGGT	1 cut(s)	587
Asp700I	GAANNNNTTC	1 cut(s)	756
AspLEI	GCGC	1 cut(s)	805
AspS9I	GGNCC	1 cut(s)	512
AsuC2I	CCSGG	1 cut(s)	515
AsuHPI	GGTGA	1 cut(s)	46
AsuNHI	GCTAGC	1 cut(s)	11
BauI	CACGAG	1 cut(s)	965
BbsI	GAAGAC	3 cut(s)	233, 367, 930
Bbv12I	GWGCWC	1 cut(s)	354
BbvCI	CCTCAGC	1 cut(s)	369
BbvI	GCAGC	8 cut(s)	112, 417, 783, 829, 832, 860, 863, 866
BccI	CCATC	2 cut(s)	16, 98
BciT130I	CCWGG	3 cut(s)	222, 394, 681
BciVI	GTATCC	1 cut(s)	775
BclI	TGATCA	1 cut(s)	186
BcnI	CCSGG	1 cut(s)	515
BcoDI	GTCTC	2 cut(s)	131, 522
BfaI	CTAG	3 cut(s)	12, 134, 156
BfmI	CTRYAG	1 cut(s)	846
BfuI	GTATCC	1 cut(s)	775
BisI	GCNGC	9 cut(s)	126, 285, 431, 797, 843, 846, 849, 852, 855
BlpI	GCTNAGC	2 cut(s)	311, 792
BlsI	GCNGC	9 cut(s)	127, 286, 432, 798, 844, 847, 850, 853, 856
Bme1390I	CCNGG	4 cut(s)	222, 394, 515, 681
BmgT120I	GGNCC	1 cut(s)	512
BmiI	GGNNCC	1 cut(s)	147
BmrFI	CCNGG	4 cut(s)	222, 394, 515, 681
BmsI	GCATC	3 cut(s)	184, 675, 697
BmtI	GCTAGC	1 cut(s)	15
BpiI	GAAGAC	3 cut(s)	233, 367, 930
BplI	GAGNNNNNCTC	2 cut(s)	137, 169
BpmI	CTGGAG	2 cut(s)	594, 942
Bpu10I	CCTNAGC	1 cut(s)	369
Bpu1102I	GCTNAGC	2 cut(s)	311, 792
BpuEI	CTTGAG	2 cut(s)	290, 708
BpuMI	CCSGG	1 cut(s)	515
BsaJI	CCNNGG	5 cut(s)	221, 393, 417, 680, 697
BsaWI	WCCGGW	1 cut(s)	587
BsaXI	ACNNNNNCTCC	8 cut(s)	17, 47, 357, 387, 528, 558, 567, 597
Bsc4I	CCNNNNNNNGG	1 cut(s)	395
Bse118I	RCCGGY	1 cut(s)	587
Bse1I	ACTGG	5 cut(s)	265, 514, 577, 768, 915
Bse3DI	GCAATG	1 cut(s)	279
BseBI	CCWGG	3 cut(s)	222, 394, 681
BseDI	CCNNGG	5 cut(s)	221, 393, 417, 680, 697
BseGI	GGATG	5 cut(s)	109, 199, 690, 739, 754
BseLI	CCNNNNNNNGG	1 cut(s)	395
BseMI	GCAATG	1 cut(s)	279
BseMII	CTCAG	2 cut(s)	360, 546
BseNI	ACTGG	5 cut(s)	265, 514, 577, 768, 915
BseXI	GCAGC	8 cut(s)	112, 417, 783, 829, 832, 860, 863, 866
BsgI	GTGCAG	2 cut(s)	612, 678
BshFI	GGCC	1 cut(s)	513
BshTI	ACCGGT	1 cut(s)	587
BsiHKAI	GWGCWC	1 cut(s)	354
BsiSI	CCGG	2 cut(s)	515, 588
BslFI	GGGAC	1 cut(s)	583
BslI	CCNNNNNNNGG	1 cut(s)	395
BsmAI	GTCTC	2 cut(s)	131, 522
BsmFI	GGGAC	1 cut(s)	583
BsmI	GAATGC	1 cut(s)	275
BsnI	GGCC	1 cut(s)	513
Bsp1286I	GDGCHC	1 cut(s)	354
Bsp143I	GATC	4 cut(s)	171, 186, 385, 693
Bsp1720I	GCTNAGC	2 cut(s)	311, 792
BspACI	CCGC	2 cut(s)	15, 285
BspANI	GGCC	1 cut(s)	513
BspCNI	CTCAG	2 cut(s)	361, 545
BspLI	GGNNCC	1 cut(s)	147
BspMAI	CTGCAG	1 cut(s)	850
BspOI	GCTAGC	1 cut(s)	15
BspPI	GGATC	3 cut(s)	179, 380, 688
BsrDI	GCAATG	1 cut(s)	279
BsrFI	RCCGGY	1 cut(s)	587
BsrI	ACTGG	5 cut(s)	265, 514, 577, 768, 915
BssAI	RCCGGY	1 cut(s)	587
BssECI	CCNNGG	5 cut(s)	221, 393, 417, 680, 697
BssMI	GATC	4 cut(s)	171, 186, 385, 693
BssSI	CACGAG	1 cut(s)	965
BssT1I	CCWWGG	2 cut(s)	417, 697
Bst2BI	CACGAG	1 cut(s)	965
Bst2UI	CCWGG	3 cut(s)	222, 394, 681
Bst4CI	ACNGT	2 cut(s)	232, 583
Bst6I	CTCTTC	1 cut(s)	953
BstAPI	GCANNNNNTGC	2 cut(s)	281, 389
BstC8I	GCNNGC	5 cut(s)	13, 317, 321, 743, 801
BstDEI	CTNAG	5 cut(s)	311, 369, 434, 532, 792
BstF5I	GGATG	5 cut(s)	109, 199, 690, 739, 754
BstHHI	GCGC	1 cut(s)	805
BstKTI	GATC	4 cut(s)	174, 189, 388, 696
BstMAI	GTCTC	2 cut(s)	131, 522
BstMBI	GATC	4 cut(s)	171, 186, 385, 693
BstNI	CCWGG	3 cut(s)	222, 394, 681
BstNSI	RCATGY	1 cut(s)	319
BstSCI	CCNGG	4 cut(s)	220, 392, 513, 679
BstSFI	CTRYAG	1 cut(s)	846
BstV1I	GCAGC	8 cut(s)	112, 417, 783, 829, 832, 860, 863, 866
BstV2I	GAAGAC	3 cut(s)	233, 367, 930
BstX2I	RGATCY	1 cut(s)	385
BstXI	CCANNNNNNTGG	1 cut(s)	704
BstYI	RGATCY	1 cut(s)	385
BsuI	GTATCC	1 cut(s)	775
BsuRI	GGCC	1 cut(s)	513
BtgZI	GCGATG	1 cut(s)	364
BtsCI	GGATG	5 cut(s)	109, 199, 690, 739, 754
BtsIMutI	CAGTG	3 cut(s)	258, 507, 775
Cac8I	GCNNGC	5 cut(s)	13, 317, 321, 743, 801
CaiI	CAGNNNCTG	2 cut(s)	389, 842
CfoI	GCGC	1 cut(s)	805
Cfr10I	RCCGGY	1 cut(s)	587
Cfr13I	GGNCC	1 cut(s)	512
Csp6I	GTAC	1 cut(s)	579
CspAI	ACCGGT	1 cut(s)	587
CviAII	CATG	2 cut(s)	184, 316
CviQI	GTAC	1 cut(s)	579
DdeI	CTNAG	5 cut(s)	311, 369, 434, 532, 792
DpnI	GATC	4 cut(s)	173, 188, 387, 695
DpnII	GATC	4 cut(s)	171, 186, 385, 693
Eam1104I	CTCTTC	1 cut(s)	953
EarI	CTCTTC	1 cut(s)	953
Eco130I	CCWWGG	2 cut(s)	417, 697
EcoRI	GAATTC	1 cut(s)	4
EcoRII	CCWGG	3 cut(s)	220, 392, 679
EcoT14I	CCWWGG	2 cut(s)	417, 697
EcoT22I	ATGCAT	1 cut(s)	690
ErhI	CCWWGG	2 cut(s)	417, 697
FaeI	CATG	2 cut(s)	187, 319
FalI	AAGNNNNNCTT	2 cut(s)	801, 833
FaqI	GGGAC	1 cut(s)	583
FatI	CATG	2 cut(s)	183, 315
FbaI	TGATCA	1 cut(s)	186
Fnu4HI	GCNGC	9 cut(s)	126, 285, 431, 797, 843, 846, 849, 852, 855
FokI	GGATG	5 cut(s)	116, 206, 697, 746, 761
Fsp4HI	GCNGC	9 cut(s)	126, 285, 431, 797, 843, 846, 849, 852, 855
FspBI	CTAG	3 cut(s)	12, 134, 156
GlaI	GCGC	1 cut(s)	804
GluI	GCNGC	9 cut(s)	126, 285, 431, 797, 843, 846, 849, 852, 855
GsuI	CTGGAG	2 cut(s)	594, 942
HaeIII	GGCC	1 cut(s)	513
HapII	CCGG	2 cut(s)	515, 588
HhaI	GCGC	1 cut(s)	805
Hin1II	CATG	2 cut(s)	187, 319
Hin6I	GCGC	1 cut(s)	803
HinP1I	GCGC	1 cut(s)	803
HindIII	AAGCTT	1 cut(s)	598
HinfI	GANTC	4 cut(s)	331, 493, 530, 953
HpaII	CCGG	2 cut(s)	515, 588
HphI	GGTGA	1 cut(s)	46
Hpy188I	TCNGA	3 cut(s)	356, 472, 693
Hpy188III	TCNNGA	6 cut(s)	43, 335, 534, 620, 731, 921
HpyAV	CCTTC	1 cut(s)	806
HpyCH4III	ACNGT	2 cut(s)	232, 583
HpyCH4V	TGCA	6 cut(s)	38, 197, 593, 659, 688, 848
HpyF3I	CTNAG	5 cut(s)	311, 369, 434, 532, 792
Hsp92II	CATG	2 cut(s)	187, 319
HspAI	GCGC	1 cut(s)	803
Ksp22I	TGATCA	1 cut(s)	186
Kzo9I	GATC	4 cut(s)	171, 186, 385, 693
LmnI	GCTCC	4 cut(s)	145, 357, 365, 407
Lsp1109I	GCAGC	8 cut(s)	112, 417, 783, 829, 832, 860, 863, 866
LweI	GCATC	3 cut(s)	184, 675, 697
MaeI	CTAG	3 cut(s)	12, 134, 156
MaeIII	GTNAC	6 cut(s)	52, 244, 254, 296, 437, 583
MalI	GATC	4 cut(s)	173, 188, 387, 695
MboI	GATC	4 cut(s)	171, 186, 385, 693
MboII	GAAGA	5 cut(s)	238, 354, 367, 930, 940
MfeI	CAATTG	1 cut(s)	780
MflI	RGATCY	1 cut(s)	385
MhlI	GDGCHC	1 cut(s)	354
MluCI	AATT	8 cut(s)	4, 59, 120, 213, 345, 702, 780, 893
MlyI	GAGTC	2 cut(s)	340, 524
Mph1103I	ATGCAT	1 cut(s)	690
MroXI	GAANNNNTTC	1 cut(s)	756
MseI	TTAA	4 cut(s)	62, 606, 627, 896
MspA1I	CMGCKG	1 cut(s)	650
MspI	CCGG	2 cut(s)	515, 588
MspR9I	CCNGG	4 cut(s)	222, 394, 515, 681
MunI	CAATTG	1 cut(s)	780
Mva1269I	GAATGC	1 cut(s)	275
MvaI	CCWGG	3 cut(s)	222, 394, 681
NciI	CCSGG	1 cut(s)	515
NdeII	GATC	4 cut(s)	171, 186, 385, 693
NheI	GCTAGC	1 cut(s)	11
NlaIII	CATG	2 cut(s)	187, 319
NlaIV	GGNNCC	1 cut(s)	147
NmuCI	GTSAC	1 cut(s)	52
NsiI	ATGCAT	1 cut(s)	690
NspI	RCATGY	1 cut(s)	319
PaeI	GCATGC	1 cut(s)	319
PctI	GAATGC	1 cut(s)	275
PdmI	GAANNNNTTC	1 cut(s)	756
PfeI	GAWTC	2 cut(s)	493, 953
PinAI	ACCGGT	1 cut(s)	587
PkrI	GCNGC	9 cut(s)	127, 286, 432, 798, 844, 847, 850, 853, 856
PleI	GAGTC	2 cut(s)	339, 524
PpsI	GAGTC	2 cut(s)	339, 524
PshBI	ATTAAT	2 cut(s)	62, 896
Psp6I	CCWGG	3 cut(s)	220, 392, 679
PspGI	CCWGG	3 cut(s)	220, 392, 679
PspN4I	GGNNCC	1 cut(s)	147
PspPI	GGNCC	1 cut(s)	512
PstI	CTGCAG	1 cut(s)	850
PstNI	CAGNNNCTG	2 cut(s)	389, 842
PsuI	RGATCY	1 cut(s)	385
PvuII	CAGCTG	1 cut(s)	650
RsaI	GTAC	1 cut(s)	580
RsaNI	GTAC	1 cut(s)	579
SaqAI	TTAA	4 cut(s)	62, 606, 627, 896
SatI	GCNGC	9 cut(s)	126, 285, 431, 797, 843, 846, 849, 852, 855
Sau3AI	GATC	4 cut(s)	171, 186, 385, 693
Sau96I	GGNCC	1 cut(s)	512
SchI	GAGTC	2 cut(s)	340, 524
ScrFI	CCNGG	4 cut(s)	222, 394, 515, 681
SduI	GDGCHC	1 cut(s)	354
SfaNI	GCATC	3 cut(s)	184, 675, 697
SfcI	CTRYAG	1 cut(s)	846
SmlI	CTYRAG	2 cut(s)	305, 723
SmoI	CTYRAG	2 cut(s)	305, 723
SphI	GCATGC	1 cut(s)	319
Sse9I	AATT	8 cut(s)	4, 59, 120, 213, 345, 702, 780, 893
SsiI	CCGC	2 cut(s)	15, 285
SspMI	CTAG	3 cut(s)	12, 134, 156
StyD4I	CCNGG	4 cut(s)	220, 392, 513, 679
StyI	CCWWGG	2 cut(s)	417, 697
TaaI	ACNGT	2 cut(s)	232, 583
TaqI	TCGA	1 cut(s)	951
TasI	AATT	8 cut(s)	4, 59, 120, 213, 345, 702, 780, 893
TauI	GCSGC	1 cut(s)	287
TfiI	GAWTC	2 cut(s)	493, 953
Tru1I	TTAA	4 cut(s)	62, 606, 627, 896
Tru9I	TTAA	4 cut(s)	62, 606, 627, 896
TscAI	CASTG	3 cut(s)	265, 514, 775
TseFI	GTSAC	1 cut(s)	52
TseI	GCWGC	8 cut(s)	125, 430, 796, 842, 845, 848, 851, 854
Tsp45I	GTSAC	1 cut(s)	52
TspDTI	ATGAA	8 cut(s)	17, 268, 367, 485, 516, 706, 765, 822
TspRI	CASTG	3 cut(s)	265, 514, 775
VspI	ATTAAT	2 cut(s)	62, 896
XapI	RAATTY	1 cut(s)	4
XceI	RCATGY	1 cut(s)	319
XmnI	GAANNNNTTC	1 cut(s)	756
XspI	CTAG	3 cut(s)	12, 134, 156
Zsp2I	ATGCAT	1 cut(s)	690

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