Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5D

Orthogroup ID

OG0003241

Physical Location & Seq

Genomic Coordinates Forward (+)

338864 .. 341810

Gene Structure 2947 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5DG005200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 891 bp

ATGGGGAATGTGAATGGGAGAGAAGATGGTGGCGGAAGCCCATCGGCGGCGGCGGCAGAGGAAGAGGCCGGTGGCGGGACCTCCCAGGAGGGTCATCACCCCCTTCCGCCTCCACTTGGCGGCGGCGGCGGCGTAGGCGGCGGAGGCGCGGTGGCTGAATTGATGGGTCAGTCACCTCCTCATAGCCCTAGGGCTACTCACTCCCCTTTGATGTTCACTCCCCAAGTCCCCGTTGTTCCGTTACAAAGACCTGATGAGATGCAGATCCCAAACCCCTCATGGATGCAGACTTCAGCGTATGAAGACATCTCCTGTGAGCAAGGAATTCCAACCATGATTACGTGGAGTTATGGTGGGAAGGACGTAGCTGTGGAGGGATCATGGGATGATTGGAAGACAAGGTTGGCCTTACAGAGATCAGGGAAGGACTTCACTATTATGAAAGTACTGCCATCCGGTGTTTACCAGTATAGGTTTGTTGTTGATGGGCAGTGGAGGTGTGCTCCAGACTTGCCTTTGGCCCAAGATGATGCTGGAAATTCTTACAACCTTTTGGACTTGCAGGATTATGTTCCAGAAGACATTGGAAGCATTTCTGGTTTTGAACCTCCCCAGTCTCCCGACTCGAGTTATAGCAACATGCAACTTGGATCTGAAGATTTTGCGAAGGAGCCACCATTGGTACCTCCACATCTGCAGATGACGCTGCTCAATGCCCCAGCATCTTACATGGAGATGCCGCCTCCTTTATCAAGACCTCAACATGTTGTACTTAATCATCTGTACATGCAGAGAGGGAAGAGTGGCCCATCTGTGGTCGCACTTGGCACAACAGAGAGGTTTATAGCAAAGTATGTGACAGTTGTTCTCTACAAGTCTTTGCAGAGATAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

ko04068 ko04152 ko04211 ko04213 ko04371 ko04530 ko04710 ko04714 ko04910 ko04920 ko04921 ko04922 ko04931 ko04932 ko05410 map04068 map04152 map04211 map04213 map04371 map04530 map04710 map04714 map04910 map04920 map04921 map04922 map04931 map04932 map05410

Pfam Domains

Protein Families

AMPK1_CBM AMPKBI

Protein Analysis

296

Amino Acids

31.86

Weight (kDa)

4.87

Isoelectric Point (pI)

59.96

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
AMPK1_CBM	PF16561	109 - 188	6e-32	Glycogen recognition site of AMP-activated protein kinase
AMPKBI	PF04739	221 - 293	2.2e-25	5'-AMP-activated protein kinase beta subunit, interaction domain

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: OG0003241)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G21170 AT5G21170 AT5G21170
fragaria_vesca	FvH4_1g28790 FvH4_1g28790 FvH4_3g00390
malus_domestica	MD05G1360800.v1.1 MD10G1338400.v1.1 MD15G1312500.v1.1
prunus_persica	Prupe.4G004500_v2.0.a1
pyrus_communis	pycom05g32760 pycom10g28820
rosa_chinensis	RchiOBHm_Chr5g0000591 RchiOBHm_Chr5g0050101
rosa_laevigata	RLG00000030878 RLG00000034686
rosa_multiflora	Rmu_sc0002289.1_g000010 Rmu_sc0003699.1_g000005
rosa_roxburghii	Rroxscaffold_1G00031050 Rroxscaffold_1G00075620
rosa_rugosa	Rorug04G0385100 Rorug04G0385100 Rorug04G0385200 Rorug04G0385300.1 Rorug05G0258500 Rorug05G0258600 Rorug05G0258700 Rorug05G0258800
rosa_samantha	Rh5AG004800 Rh5AG330500 Rh5BG006400 Rh5BG341200 Rh5CG005200 Rh5DG005200 Rh5DG354000
rosa_wichuraiana	Rw5G000480 Rw5G031220

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc65I	GGTACC	1 cut(s)	682
AccB1I	GGYRCC	1 cut(s)	682
AccII	CGCG	1 cut(s)	149
AclWI	GGATC	3 cut(s)	259, 385, 658
AcsI	RAATTY	2 cut(s)	324, 538
AcuI	CTGAAG	2 cut(s)	276, 675
AfaI	GTAC	4 cut(s)	447, 684, 771, 785
AfiI	CCNNNNNNNGG	5 cut(s)	46, 75, 116, 119, 814
AflIII	ACRYGT	1 cut(s)	763
AgsI	TTSAA	1 cut(s)	605
AjnI	CCWGG	1 cut(s)	84
AjuI	GAANNNNNNNTTGG	2 cut(s)	386, 418
AluBI	AGCT	1 cut(s)	368
AluI	AGCT	1 cut(s)	368
Alw21I	GWGCWC	1 cut(s)	505
Alw26I	GTCTC	1 cut(s)	621
AlwI	GGATC	3 cut(s)	259, 385, 658
Ama87I	CYCGRG	1 cut(s)	625
AoxI	GGCC	4 cut(s)	66, 405, 519, 805
ApeKI	GCWGC	1 cut(s)	706
ApoI	RAATTY	2 cut(s)	324, 538
Asp700I	GAANNNNTTC	2 cut(s)	428, 592
Asp718I	GGTACC	1 cut(s)	682
AspA2I	CCTAGG	1 cut(s)	188
AspLEI	GCGC	1 cut(s)	149
AspS9I	GGNCC	3 cut(s)	78, 520, 806
AsuHPI	GGTGA	2 cut(s)	89, 165
AvaI	CYCGRG	1 cut(s)	625
AvaII	GGWCC	1 cut(s)	78
AvrII	CCTAGG	1 cut(s)	188
BanI	GGYRCC	1 cut(s)	682
BbsI	GAAGAC	3 cut(s)	309, 401, 585
Bbv12I	GWGCWC	1 cut(s)	505
BbvI	GCAGC	1 cut(s)	693
BccI	CCATC	6 cut(s)	20, 49, 157, 460, 479, 817
BciT130I	CCWGG	1 cut(s)	86
BcoDI	GTCTC	1 cut(s)	621
BfaI	CTAG	1 cut(s)	189
BfmI	CTRYAG	1 cut(s)	695
BlnI	CCTAGG	1 cut(s)	188
BmcAI	AGTACT	1 cut(s)	447
Bme1390I	CCNGG	1 cut(s)	86
Bme18I	GGWCC	1 cut(s)	78
BmeT110I	CYCGRG	1 cut(s)	625
BmgT120I	GGNCC	3 cut(s)	78, 520, 806
BmiI	GGNNCC	3 cut(s)	79, 672, 684
BmrFI	CCNGG	1 cut(s)	86
BmrI	ACTGGG	1 cut(s)	607
BmsI	GCATC	5 cut(s)	249, 273, 520, 726, 731
BmuI	ACTGGG	1 cut(s)	607
BpiI	GAAGAC	3 cut(s)	309, 401, 585
BplI	GAGNNNNNCTC	2 cut(s)	487, 519
BpmI	CTGGAG	1 cut(s)	489
BsaAI	YACGTR	1 cut(s)	342
BsaBI	GATNNNNATC	1 cut(s)	263
BsaJI	CCNNGG	2 cut(s)	84, 188
BsaWI	WCCGGW	1 cut(s)	455
BsaXI	ACNNNNNCTCC	4 cut(s)	135, 165, 337, 367
Bsc4I	CCNNNNNNNGG	5 cut(s)	46, 75, 116, 119, 814
Bse118I	RCCGGY	1 cut(s)	68
Bse1I	ACTGG	2 cut(s)	466, 613
Bse8I	GATNNNNATC	1 cut(s)	263
BseBI	CCWGG	1 cut(s)	86
BseDI	CCNNGG	2 cut(s)	84, 188
BseGI	GGATG	3 cut(s)	288, 391, 452
BseJI	GATNNNNATC	1 cut(s)	263
BseLI	CCNNNNNNNGG	5 cut(s)	46, 75, 116, 119, 814
BseNI	ACTGG	2 cut(s)	466, 613
BseRI	GAGGAG	1 cut(s)	168
BseXI	GCAGC	1 cut(s)	693
BseYI	CCCAGC	1 cut(s)	718
Bsh1236I	CGCG	1 cut(s)	149
BshFI	GGCC	4 cut(s)	68, 407, 521, 807
BshNI	GGYRCC	1 cut(s)	682
BsiHKAI	GWGCWC	1 cut(s)	505
BsiHKCI	CYCGRG	1 cut(s)	625
BsiSI	CCGG	2 cut(s)	69, 456
BslFI	GGGAC	2 cut(s)	91, 212
BslI	CCNNNNNNNGG	5 cut(s)	46, 75, 116, 119, 814
BsmAI	GTCTC	1 cut(s)	621
BsmFI	GGGAC	2 cut(s)	91, 212
BsnI	GGCC	4 cut(s)	68, 407, 521, 807
BsoBI	CYCGRG	1 cut(s)	625
Bsp1286I	GDGCHC	1 cut(s)	505
Bsp1407I	TGTACA	1 cut(s)	783
Bsp143I	GATC	4 cut(s)	264, 377, 416, 650
BspANI	GGCC	4 cut(s)	68, 407, 521, 807
BspFNI	CGCG	1 cut(s)	149
BspLI	GGNNCC	3 cut(s)	79, 672, 684
BspMAI	CTGCAG	1 cut(s)	699
BspPI	GGATC	3 cut(s)	259, 385, 658
BspT107I	GGYRCC	1 cut(s)	682
BsrFI	RCCGGY	1 cut(s)	68
BsrGI	TGTACA	1 cut(s)	783
BsrI	ACTGG	2 cut(s)	466, 613
BssAI	RCCGGY	1 cut(s)	68
BssECI	CCNNGG	2 cut(s)	84, 188
BssMI	GATC	4 cut(s)	264, 377, 416, 650
BssT1I	CCWWGG	1 cut(s)	188
Bst2UI	CCWGG	1 cut(s)	86
Bst4CI	ACNGT	1 cut(s)	862
Bst6I	CTCTTC	2 cut(s)	57, 794
BstAUI	TGTACA	1 cut(s)	783
BstBAI	YACGTR	1 cut(s)	342
BstF5I	GGATG	3 cut(s)	288, 391, 452
BstFNI	CGCG	1 cut(s)	149
BstHHI	GCGC	1 cut(s)	149
BstKTI	GATC	4 cut(s)	267, 380, 419, 653
BstMAI	GTCTC	1 cut(s)	621
BstMBI	GATC	4 cut(s)	264, 377, 416, 650
BstMWI	GCNNNNNNNGC	7 cut(s)	53, 126, 129, 135, 138, 144, 703
BstNI	CCWGG	1 cut(s)	86
BstNSI	RCATGY	3 cut(s)	643, 767, 790
BstSCI	CCNGG	1 cut(s)	84
BstSFI	CTRYAG	1 cut(s)	695
BstUI	CGCG	1 cut(s)	149
BstV1I	GCAGC	1 cut(s)	693
BstV2I	GAAGAC	3 cut(s)	309, 401, 585
BstX2I	RGATCY	2 cut(s)	264, 650
BstYI	RGATCY	2 cut(s)	264, 650
BsuRI	GGCC	4 cut(s)	68, 407, 521, 807
BtsCI	GGATG	3 cut(s)	288, 391, 452
BtsI	GCAGTG	1 cut(s)	497
BtsIMutI	CAGTG	1 cut(s)	497
CfoI	GCGC	1 cut(s)	149
Cfr10I	RCCGGY	1 cut(s)	68
Cfr13I	GGNCC	3 cut(s)	78, 520, 806
CseI	GACGC	1 cut(s)	712
Csp6I	GTAC	4 cut(s)	446, 683, 770, 784
CviAII	CATG	7 cut(s)	279, 334, 381, 640, 730, 764, 787
CviQI	GTAC	4 cut(s)	446, 683, 770, 784
DpnI	GATC	4 cut(s)	266, 379, 418, 652
DpnII	GATC	4 cut(s)	264, 377, 416, 650
Eam1104I	CTCTTC	2 cut(s)	57, 794
EarI	CTCTTC	2 cut(s)	57, 794
EciI	GGCGGA	3 cut(s)	48, 96, 156
Eco130I	CCWWGG	1 cut(s)	188
Eco47I	GGWCC	1 cut(s)	78
Eco57I	CTGAAG	2 cut(s)	276, 675
Eco88I	CYCGRG	1 cut(s)	625
EcoO109I	RGGNCCY	1 cut(s)	78
EcoRI	GAATTC	1 cut(s)	324
EcoRII	CCWGG	1 cut(s)	84
EcoT14I	CCWWGG	1 cut(s)	188
ErhI	CCWWGG	1 cut(s)	188
FaeI	CATG	7 cut(s)	282, 337, 384, 643, 733, 767, 790
FaqI	GGGAC	2 cut(s)	91, 212
FatI	CATG	7 cut(s)	278, 333, 380, 639, 729, 763, 786
FauI	CCCGC	1 cut(s)	68
FokI	GGATG	3 cut(s)	295, 398, 439
FspBI	CTAG	1 cut(s)	189
GlaI	GCGC	1 cut(s)	148
GsaI	CCCAGC	1 cut(s)	722
GsuI	CTGGAG	1 cut(s)	489
HaeIII	GGCC	4 cut(s)	68, 407, 521, 807
HapII	CCGG	2 cut(s)	69, 456
HgaI	GACGC	1 cut(s)	712
HhaI	GCGC	1 cut(s)	149
Hin1II	CATG	7 cut(s)	282, 337, 384, 643, 733, 767, 790
Hin6I	GCGC	1 cut(s)	147
HinP1I	GCGC	1 cut(s)	147
HinfI	GANTC	1 cut(s)	623
HpaII	CCGG	2 cut(s)	69, 456
HphI	GGTGA	2 cut(s)	89, 165
Hpy166II	GTNNAC	2 cut(s)	216, 463
Hpy188I	TCNGA	1 cut(s)	655
Hpy188III	TCNNGA	4 cut(s)	506, 575, 620, 753
Hpy8I	GTNNAC	2 cut(s)	216, 463
HpyAV	CCTTC	4 cut(s)	113, 352, 418, 661
HpyCH4III	ACNGT	1 cut(s)	862
HpyCH4IV	ACGT	2 cut(s)	341, 363
HpyCH4V	TGCA	7 cut(s)	262, 286, 562, 643, 697, 790, 883
HpyF10VI	GCNNNNNNNGC	7 cut(s)	53, 126, 129, 135, 138, 144, 703
HpySE526I	ACGT	2 cut(s)	341, 363
Hsp92II	CATG	7 cut(s)	282, 337, 384, 643, 733, 767, 790
HspAI	GCGC	1 cut(s)	147
KpnI	GGTACC	1 cut(s)	686
Kzo9I	GATC	4 cut(s)	264, 377, 416, 650
LmnI	GCTCC	2 cut(s)	508, 670
Lsp1109I	GCAGC	1 cut(s)	693
LweI	GCATC	5 cut(s)	249, 273, 520, 726, 731
MaeI	CTAG	1 cut(s)	189
MaeII	ACGT	2 cut(s)	341, 363
MaeIII	GTNAC	3 cut(s)	171, 240, 856
MalI	GATC	4 cut(s)	266, 379, 418, 652
MboI	GATC	4 cut(s)	264, 377, 416, 650
MboII	GAAGA	7 cut(s)	35, 74, 314, 406, 590, 668, 811
MflI	RGATCY	2 cut(s)	264, 650
MhlI	GDGCHC	1 cut(s)	505
MluCI	AATT	3 cut(s)	158, 324, 538
MlyI	GAGTC	1 cut(s)	617
MmeI	TCCRAC	1 cut(s)	353
MroXI	GAANNNNTTC	2 cut(s)	428, 592
MseI	TTAA	1 cut(s)	774
MslI	CAYNNNNRTG	2 cut(s)	437, 734
MspI	CCGG	2 cut(s)	69, 456
MspR9I	CCNGG	1 cut(s)	86
MvaI	CCWGG	1 cut(s)	86
MvnI	CGCG	1 cut(s)	149
MwoI	GCNNNNNNNGC	7 cut(s)	53, 126, 129, 135, 138, 144, 703
NdeII	GATC	4 cut(s)	264, 377, 416, 650
NlaIII	CATG	7 cut(s)	282, 337, 384, 643, 733, 767, 790
NlaIV	GGNNCC	3 cut(s)	79, 672, 684
NmuCI	GTSAC	2 cut(s)	171, 856
NspI	RCATGY	3 cut(s)	643, 767, 790
PaeR7I	CTCGAG	1 cut(s)	625
PciI	ACATGT	1 cut(s)	763
PdmI	GAANNNNTTC	2 cut(s)	428, 592
PleI	GAGTC	1 cut(s)	617
PpsI	GAGTC	1 cut(s)	617
Ppu21I	YACGTR	1 cut(s)	342
PpuMI	RGGWCCY	1 cut(s)	78
PscI	ACATGT	1 cut(s)	763
Psp5II	RGGWCCY	1 cut(s)	78
Psp6I	CCWGG	1 cut(s)	84
PspFI	CCCAGC	1 cut(s)	718
PspGI	CCWGG	1 cut(s)	84
PspN4I	GGNNCC	3 cut(s)	79, 672, 684
PspPI	GGNCC	3 cut(s)	78, 520, 806
PspPPI	RGGWCCY	1 cut(s)	78
PspXI	VCTCGAGB	1 cut(s)	625
PstI	CTGCAG	1 cut(s)	699
PsuI	RGATCY	2 cut(s)	264, 650
RsaI	GTAC	4 cut(s)	447, 684, 771, 785
RsaNI	GTAC	4 cut(s)	446, 683, 770, 784
RseI	CAYNNNNRTG	2 cut(s)	437, 734
SaqAI	TTAA	1 cut(s)	774
Sau3AI	GATC	4 cut(s)	264, 377, 416, 650
Sau96I	GGNCC	3 cut(s)	78, 520, 806
ScaI	AGTACT	1 cut(s)	447
SchI	GAGTC	1 cut(s)	617
ScrFI	CCNGG	1 cut(s)	86
SduI	GDGCHC	1 cut(s)	505
SfaNI	GCATC	5 cut(s)	249, 273, 520, 726, 731
SfcI	CTRYAG	1 cut(s)	695
Sfr274I	CTCGAG	1 cut(s)	625
SinI	GGWCC	1 cut(s)	78
SlaI	CTCGAG	1 cut(s)	625
SmiMI	CAYNNNNRTG	2 cut(s)	437, 734
SmlI	CTYRAG	1 cut(s)	625
SmoI	CTYRAG	1 cut(s)	625
Sse9I	AATT	3 cut(s)	158, 324, 538
SspMI	CTAG	1 cut(s)	189
StyD4I	CCNGG	1 cut(s)	84
StyI	CCWWGG	1 cut(s)	188
TaaI	ACNGT	1 cut(s)	862
TaiI	ACGT	2 cut(s)	344, 366
TaqI	TCGA	1 cut(s)	626
TasI	AATT	3 cut(s)	158, 324, 538
TatI	WGTACW	3 cut(s)	445, 769, 783
TauI	GCSGC	9 cut(s)	50, 53, 56, 123, 126, 129, 132, 141, 742
Tru1I	TTAA	1 cut(s)	774
Tru9I	TTAA	1 cut(s)	774
TscAI	CASTG	1 cut(s)	497
TseFI	GTSAC	2 cut(s)	171, 856
TseI	GCWGC	1 cut(s)	706
Tsp45I	GTSAC	2 cut(s)	171, 856
TspDTI	ATGAA	2 cut(s)	315, 455
TspGWI	ACGGA	1 cut(s)	228
TspRI	CASTG	1 cut(s)	497
VpaK11BI	GGWCC	1 cut(s)	78
XapI	RAATTY	2 cut(s)	324, 538
XceI	RCATGY	3 cut(s)	643, 767, 790
XcmI	CCANNNNNNNNNTGG	2 cut(s)	276, 530
XhoI	CTCGAG	1 cut(s)	625
XmaJI	CCTAGG	1 cut(s)	188
XmnI	GAANNNNTTC	2 cut(s)	428, 592
XspI	CTAG	1 cut(s)	189
ZrmI	AGTACT	1 cut(s)	447

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