Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3D

Orthogroup ID

OG0001288

Physical Location & Seq

Genomic Coordinates Forward (+)

8462770 .. 8464816

Gene Structure 2047 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3DG105300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1122 bp

ATGGAGTCATTGGAGTGTACTTGGCCAGCTTCATGGAATCTTCAGGAAAAGATGAAGGAAGAGCTTGTCCGAGGGCATGAACTTGCAAATCAACTTCACTTGGTTGTCCGTAATGGTGATGGTGAATCGGCCAAAGGTCTTGTTGCGAAGATCGTGTGCTCGTTCACTAATAGCCTTTCCCTCTTAGGTGGGAATCATGATTCTAAGGGGAAGCATATTCAAGCCAATACTAGTAGCAATACTGTTGCTCTTCCTACTCCTGTAGATTCATCATCCTGGGTTGCTCTCGAGGCTATTAAGAGAACGGAAATGTTGATAAATAGTAGAAGTTCTTCCAAGAAAAGAAAAACTTCACATTCATGGAGTAGAGACGCTCCCGATTTCATTGATGATGGTCATCCATGGAGAAAGTACGGACAGAAACAGATCCTTAATGCCAGCCATCCAAGGAGCTACTTTAGGTGCAGTCATAAGTATGATCAAGGCTGCAAGGCGACCAAGCAGGTGCAGAAAGTTGAAAATGATCCATCCTTGTTTCGGACTACATATTTCGGAAATCACACATGCAAACATAGCATACTCAAAGCTCCTGAAAGCATCCTTGATAACGTAAGTGGTGGTAGTCCTAGAGAAGAGTCTAATTCCAAGTTTATGATCACATTTGAGAACAACAACAACTTCCCGTACGAACAAGAACACCCTTTTTTCTCATCCTACTCATCAACCGAAAGAGAGATCATTAAATCTAATCATGTGGCGAGCAGCAGGTCATCATCACTATCTTGTGATTATCTTGTGCCACCTGATCAAGTGATGGTGTTCGAGTCGTCTGAGCCCATCAGCAGGTTGCCAACAATGATGGAGCTTCACTCTGAGGACATGATCACATTTGAGAACAACAACAACTTCCCGTACGAACAAGAACACGCTTTTTTATCATCCTACTCATCAACCGAAAGAGAGATCATTAAATCTAATCATGTGGCGAGCAGACAGTCATCATCACTATCTTGTGATTATCTTGTGCCACCTGATCCAGTGATGGTGTGCGAGTCGTCTGAAACCATCAGCAGGTTGCCAACAATGATGGAGCTTCACTCTGAGGACATGATTTATTATTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0001101 GO:0002218 GO:0002252 GO:0002253 GO:0002376 GO:0002682 GO:0002684 GO:0003674 GO:0003700 GO:0006355 GO:0006950 GO:0006952 GO:0006955 GO:0007154 GO:0007165 GO:0008150 GO:0009605 GO:0009607 GO:0009617 GO:0009620 GO:0009627 GO:0009682 GO:0009719 GO:0009725 GO:0009751 GO:0009753 GO:0009755 GO:0009814 GO:0009862 GO:0009863 GO:0009864 GO:0009867 GO:0009889 GO:0009890 GO:0009892 GO:0009987 GO:0010033 GO:0010200 GO:0010243 GO:0010468 GO:0010556 GO:0010558 GO:0010605 GO:0010629 GO:0014070 GO:0019219 GO:0019222 GO:0023052 GO:0031323 GO:0031324 GO:0031326 GO:0031327 GO:0031347 GO:0031349 GO:0032870 GO:0035690 GO:0042221 GO:0042493 GO:0042742 GO:0043207 GO:0045087 GO:0045088 GO:0045089 GO:0045892 GO:0045934 GO:0046677 GO:0048518 GO:0048519 GO:0048523 GO:0048583 GO:0048584 GO:0048831 GO:0050776 GO:0050778 GO:0050789 GO:0050793 GO:0050794 GO:0050832 GO:0050896 GO:0051093 GO:0051171 GO:0051172 GO:0051239 GO:0051241 GO:0051252 GO:0051253 GO:0051704 GO:0051707 GO:0051716 GO:0060255 GO:0065007 GO:0070887 GO:0071229 GO:0071236 GO:0071310 GO:0071395 GO:0071407 GO:0071446 GO:0071495 GO:0080090 GO:0080134 GO:0098542 GO:0140110 GO:1900055 GO:1900056 GO:1901698 GO:1901700 GO:1901701 GO:1902679 GO:1903506 GO:1903507 GO:1905622 GO:2000024 GO:2000026 GO:2000112 GO:2000113 GO:2001141

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

WRKY

Protein Analysis

373

Amino Acids

42.28

Weight (kDa)

5.98

Isoelectric Point (pI)

57.25

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
WRKY	PF03106	130 - 190	2.4e-24	WRKY DNA -binding domain

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: OG0001288)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G22570
fragaria_vesca	FvH4_6g09650 FvH4_6g09710 FvH4_6g09710 FvH4_6g09730 FvH4_6g09740 FvH4_6g09740 FvH4_6g09740 FvH4_6g09740 FvH4_6g09740 FvH4_6g09740 FvH4_6g09750 FvH4_6g09760
malus_domestica	MD04G1175500.v1.1 MD04G1175600.v1.1 MD12G1189200.v1.1 MD12G1189400.v1.1 MD12G1189600.v1.1 MD12G1189700.v1.1 MD12G1189900.v1.1
prunus_persica	Prupe.6G294900_v2.0.a1 Prupe.6G295000_v2.0.a1 Prupe.6G295100_v2.0.a1
pyrus_communis	pycom04g15480 pycom04g15490 pycom12g17650 pycom12g17690 pycom12g17700 pycom12g17730
rosa_chinensis	RchiOBHm_Chr3g0460351 RchiOBHm_Chr3g0460361
rosa_laevigata	RLG00000025018 RLG00000025019 RLG00000025027 RLG00000025113
rosa_multiflora	Rmu_sc0000449.1_g000005 Rmu_sc0004267.1_g000019
rosa_roxburghii	Rroxscaffold_6G00419560 Rroxscaffold_6G00419590
rosa_rugosa	Rorug03G0033500 Rorug03G0033500 Rorug03G0041400 Rorug03G0041800 Rorug03G0042000
rosa_samantha	Rh3AG100000 Rh3AG100100 Rh3BG094800 Rh3BG103900 Rh3BG104000 Rh3CG105700 Rh3CG105800 Rh3DG105300 Rh3DG105400
rosa_wichuraiana	Rw3G008480 Rw3G008490

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	1 cut(s)	493
Acc36I	ACCTGC	4 cut(s)	493, 756, 834, 1062
AclWI	GGATC	3 cut(s)	421, 518, 1028
AcoI	YGGCCR	2 cut(s)	23, 129
AcuI	CTGAAG	1 cut(s)	26
AfaI	GTAC	4 cut(s)	19, 413, 686, 914
AfiI	CCNNNNNNNGG	3 cut(s)	537, 843, 1071
AgsI	TTSAA	2 cut(s)	221, 518
AhlI	ACTAGT	1 cut(s)	230
AjnI	CCWGG	1 cut(s)	275
AluBI	AGCT	6 cut(s)	29, 64, 453, 587, 865, 1093
AluI	AGCT	6 cut(s)	29, 64, 453, 587, 865, 1093
Alw21I	GWGCWC	1 cut(s)	161
Alw26I	GTCTC	1 cut(s)	363
AlwI	GGATC	3 cut(s)	421, 518, 1028
Ama87I	CYCGRG	1 cut(s)	287
AoxI	GGCC	2 cut(s)	23, 129
ApeKI	GCWGC	2 cut(s)	486, 762
Asp700I	GAANNNNTTC	2 cut(s)	331, 349
AsuHPI	GGTGA	2 cut(s)	128, 134
AvaI	CYCGRG	1 cut(s)	287
BalI	TGGCCA	1 cut(s)	25
BanII	GRGCYC	1 cut(s)	837
BarI	GAAGNNNNNNTAC	2 cut(s)	316, 348
Bbv12I	GWGCWC	1 cut(s)	161
BbvI	GCAGC	2 cut(s)	473, 774
BciT130I	CCWGG	1 cut(s)	277
BclI	TGATCA	4 cut(s)	478, 654, 805, 882
BcoDI	GTCTC	1 cut(s)	363
BcuI	ACTAGT	1 cut(s)	230
BfaI	CTAG	2 cut(s)	231, 627
BfmI	CTRYAG	1 cut(s)	261
BfuAI	ACCTGC	4 cut(s)	493, 756, 834, 1062
BisI	GCNGC	2 cut(s)	487, 763
BlsI	GCNGC	2 cut(s)	488, 764
Bme1390I	CCNGG	1 cut(s)	277
BmeT110I	CYCGRG	1 cut(s)	287
BmrFI	CCNGG	1 cut(s)	277
BmsI	GCATC	1 cut(s)	606
BplI	GAGNNNNNCTC	4 cut(s)	854, 886, 1082, 1114
BsaBI	GATNNNNATC	1 cut(s)	396
BsaJI	CCNNGG	4 cut(s)	70, 276, 401, 446
Bsc4I	CCNNNNNNNGG	3 cut(s)	537, 843, 1071
Bse1I	ACTGG	1 cut(s)	1037
Bse8I	GATNNNNATC	1 cut(s)	396
BseBI	CCWGG	1 cut(s)	277
BseDI	CCNNGG	4 cut(s)	70, 276, 401, 446
BseGI	GGATG	7 cut(s)	272, 397, 442, 527, 597, 710, 938
BseJI	GATNNNNATC	1 cut(s)	396
BseLI	CCNNNNNNNGG	3 cut(s)	537, 843, 1071
BseMII	CTCAG	3 cut(s)	822, 864, 1092
BseNI	ACTGG	1 cut(s)	1037
BseXI	GCAGC	2 cut(s)	473, 774
BsgI	GTGCAG	2 cut(s)	484, 527
BshFI	GGCC	2 cut(s)	25, 131
BsiHKAI	GWGCWC	1 cut(s)	161
BsiHKCI	CYCGRG	1 cut(s)	287
BsiWI	CGTACG	2 cut(s)	684, 912
BslI	CCNNNNNNNGG	3 cut(s)	537, 843, 1071
BsmAI	GTCTC	1 cut(s)	363
BsmBI	CGTCTC	1 cut(s)	363
BsnI	GGCC	2 cut(s)	25, 131
BsoBI	CYCGRG	1 cut(s)	287
Bsp1286I	GDGCHC	2 cut(s)	161, 837
Bsp19I	CCATGG	1 cut(s)	401
BspANI	GGCC	2 cut(s)	25, 131
BspCNI	CTCAG	3 cut(s)	823, 865, 1093
BspHI	TCATGA	1 cut(s)	196
BspMI	ACCTGC	4 cut(s)	493, 756, 834, 1062
BspPI	GGATC	3 cut(s)	421, 518, 1028
BspQI	GCTCTTC	2 cut(s)	54, 255
BsrI	ACTGG	1 cut(s)	1037
BssECI	CCNNGG	4 cut(s)	70, 276, 401, 446
BssT1I	CCWWGG	2 cut(s)	401, 446
Bst2UI	CCWGG	1 cut(s)	277
Bst4CI	ACNGT	2 cut(s)	244, 996
Bst6I	CTCTTC	3 cut(s)	54, 255, 627
BstC8I	GCNNGC	4 cut(s)	27, 439, 760, 988
BstDEI	CTNAG	5 cut(s)	184, 204, 831, 873, 1101
BstDSI	CCRYGG	1 cut(s)	401
BstF5I	GGATG	7 cut(s)	272, 397, 442, 527, 597, 710, 938
BstMAI	GTCTC	1 cut(s)	363
BstMWI	GCNNNNNNNGC	2 cut(s)	290, 573
BstNI	CCWGG	1 cut(s)	277
BstNSI	RCATGY	1 cut(s)	567
BstSCI	CCNGG	1 cut(s)	275
BstSFI	CTRYAG	1 cut(s)	261
BstV1I	GCAGC	2 cut(s)	473, 774
BstX2I	RGATCY	1 cut(s)	426
BstXI	CCANNNNNNTGG	1 cut(s)	33
BstYI	RGATCY	1 cut(s)	426
BsuRI	GGCC	2 cut(s)	25, 131
BtgI	CCRYGG	1 cut(s)	401
BtsCI	GGATG	7 cut(s)	272, 397, 442, 527, 597, 710, 938
BtsIMutI	CAGTG	1 cut(s)	1044
BveI	ACCTGC	4 cut(s)	493, 756, 834, 1062
Cac8I	GCNNGC	4 cut(s)	27, 439, 760, 988
CciI	TCATGA	1 cut(s)	196
CseI	GACGC	1 cut(s)	380
Csp6I	GTAC	4 cut(s)	18, 412, 685, 913
CviQI	GTAC	4 cut(s)	18, 412, 685, 913
DdeI	CTNAG	5 cut(s)	184, 204, 831, 873, 1101
EaeI	YGGCCR	2 cut(s)	23, 129
Eam1104I	CTCTTC	3 cut(s)	54, 255, 627
EarI	CTCTTC	3 cut(s)	54, 255, 627
Eco130I	CCWWGG	2 cut(s)	401, 446
Eco24I	GRGCYC	1 cut(s)	837
Eco57I	CTGAAG	1 cut(s)	26
Eco88I	CYCGRG	1 cut(s)	287
EcoRII	CCWGG	1 cut(s)	275
EcoT14I	CCWWGG	2 cut(s)	401, 446
EcoT38I	GRGCYC	1 cut(s)	837
ErhI	CCWWGG	2 cut(s)	401, 446
Esp3I	CGTCTC	1 cut(s)	363
FalI	AAGNNNNNCTT	2 cut(s)	334, 366
FbaI	TGATCA	4 cut(s)	478, 654, 805, 882
Fnu4HI	GCNGC	2 cut(s)	487, 763
FokI	GGATG	7 cut(s)	259, 384, 429, 514, 584, 697, 925
FriOI	GRGCYC	1 cut(s)	837
Fsp4HI	GCNGC	2 cut(s)	487, 763
FspBI	CTAG	2 cut(s)	231, 627
GluI	GCNGC	2 cut(s)	487, 763
HaeIII	GGCC	2 cut(s)	25, 131
HgaI	GACGC	1 cut(s)	380
HinfI	GANTC	9 cut(s)	5, 37, 125, 193, 200, 266, 635, 824, 1052
HphI	GGTGA	2 cut(s)	128, 134
Hpy166II	GTNNAC	2 cut(s)	18, 165
Hpy188I	TCNGA	7 cut(s)	71, 540, 554, 832, 874, 1060, 1102
Hpy188III	TCNNGA	5 cut(s)	44, 197, 287, 377, 590
Hpy8I	GTNNAC	2 cut(s)	18, 165
HpyAV	CCTTC	1 cut(s)	49
HpyCH4III	ACNGT	2 cut(s)	244, 996
HpyCH4IV	ACGT	1 cut(s)	609
HpyCH4V	TGCA	5 cut(s)	86, 465, 489, 508, 567
HpyF10VI	GCNNNNNNNGC	2 cut(s)	290, 573
HpyF3I	CTNAG	5 cut(s)	184, 204, 831, 873, 1101
HpySE526I	ACGT	1 cut(s)	609
Ksp22I	TGATCA	4 cut(s)	478, 654, 805, 882
LguI	GCTCTTC	2 cut(s)	54, 255
LmnI	GCTCC	5 cut(s)	379, 450, 592, 862, 1090
Lsp1109I	GCAGC	2 cut(s)	473, 774
LweI	GCATC	1 cut(s)	606
MaeI	CTAG	2 cut(s)	231, 627
MaeII	ACGT	1 cut(s)	609
MboII	GAAGA	6 cut(s)	32, 71, 160, 242, 324, 644
MflI	RGATCY	1 cut(s)	426
MhlI	GDGCHC	2 cut(s)	161, 837
MlsI	TGGCCA	1 cut(s)	25
MluCI	AATT	1 cut(s)	640
MluNI	TGGCCA	1 cut(s)	25
MlyI	GAGTC	4 cut(s)	14, 644, 833, 1061
MnlI	CCTC	5 cut(s)	65, 191, 283, 868, 1096
Mox20I	TGGCCA	1 cut(s)	25
MroXI	GAANNNNTTC	2 cut(s)	331, 349
MscI	TGGCCA	1 cut(s)	25
MseI	TTAA	4 cut(s)	297, 432, 741, 969
MslI	CAYNNNNRTG	3 cut(s)	13, 358, 474
Msp20I	TGGCCA	1 cut(s)	25
MspR9I	CCNGG	1 cut(s)	277
MvaI	CCWGG	1 cut(s)	277
MwoI	GCNNNNNNNGC	2 cut(s)	290, 573
NcoI	CCATGG	1 cut(s)	401
NspI	RCATGY	1 cut(s)	567
PaeR7I	CTCGAG	1 cut(s)	287
PagI	TCATGA	1 cut(s)	196
PaqCI	CACCTGC	1 cut(s)	493
PciSI	GCTCTTC	2 cut(s)	54, 255
PdmI	GAANNNNTTC	2 cut(s)	331, 349
PfeI	GAWTC	5 cut(s)	37, 125, 193, 200, 266
Pfl23II	CGTACG	2 cut(s)	684, 912
PkrI	GCNGC	2 cut(s)	488, 764
PleI	GAGTC	4 cut(s)	13, 643, 832, 1060
PpsI	GAGTC	4 cut(s)	13, 643, 832, 1060
Psp6I	CCWGG	1 cut(s)	275
PspGI	CCWGG	1 cut(s)	275
PspLI	CGTACG	2 cut(s)	684, 912
PsuI	RGATCY	1 cut(s)	426
RsaI	GTAC	4 cut(s)	19, 413, 686, 914
RsaNI	GTAC	4 cut(s)	18, 412, 685, 913
RseI	CAYNNNNRTG	3 cut(s)	13, 358, 474
SapI	GCTCTTC	2 cut(s)	54, 255
SaqAI	TTAA	4 cut(s)	297, 432, 741, 969
SatI	GCNGC	2 cut(s)	487, 763
SchI	GAGTC	4 cut(s)	14, 644, 833, 1061
ScrFI	CCNGG	1 cut(s)	277
SduI	GDGCHC	2 cut(s)	161, 837
SfaNI	GCATC	1 cut(s)	606
SfcI	CTRYAG	1 cut(s)	261
Sfr274I	CTCGAG	1 cut(s)	287
SlaI	CTCGAG	1 cut(s)	287
SmiMI	CAYNNNNRTG	3 cut(s)	13, 358, 474
SmlI	CTYRAG	1 cut(s)	287
SmoI	CTYRAG	1 cut(s)	287
SpeI	ACTAGT	1 cut(s)	230
Sse9I	AATT	1 cut(s)	640
SspMI	CTAG	2 cut(s)	231, 627
StyD4I	CCNGG	1 cut(s)	275
StyI	CCWWGG	2 cut(s)	401, 446
TaaI	ACNGT	2 cut(s)	244, 996
TaiI	ACGT	1 cut(s)	612
TaqI	TCGA	2 cut(s)	288, 822
TasI	AATT	1 cut(s)	640
TatI	WGTACW	1 cut(s)	17
TfiI	GAWTC	5 cut(s)	37, 125, 193, 200, 266
Tru1I	TTAA	4 cut(s)	297, 432, 741, 969
Tru9I	TTAA	4 cut(s)	297, 432, 741, 969
TscAI	CASTG	1 cut(s)	1044
TseI	GCWGC	2 cut(s)	486, 762
TspDTI	ATGAA	6 cut(s)	21, 68, 93, 258, 348, 373
TspGWI	ACGGA	3 cut(s)	98, 320, 429
TspRI	CASTG	1 cut(s)	1044
XceI	RCATGY	1 cut(s)	567
XhoI	CTCGAG	1 cut(s)	287
XmnI	GAANNNNTTC	2 cut(s)	331, 349
XspI	CTAG	2 cut(s)	231, 627

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